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<article xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:oasis="http://docs.oasis-open.org/ns/oasis-exchange/table" xml:lang="en" dtd-version="3.0"><?xmltex \makeatother\@nolinetrue\makeatletter?>
  <front>
    <journal-meta><journal-id journal-id-type="publisher">AMT</journal-id><journal-title-group>
    <journal-title>Atmospheric Measurement Techniques</journal-title>
    <abbrev-journal-title abbrev-type="publisher">AMT</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Atmos. Meas. Tech.</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">1867-8548</issn><publisher>
    <publisher-name>Copernicus Publications</publisher-name>
    <publisher-loc>Göttingen, Germany</publisher-loc>
  </publisher></journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.5194/amt-11-4981-2018</article-id><title-group><article-title>Evaluation of MUSICA IASI tropospheric water vapour profiles
<?xmltex \hack{\break}?>using theoretical error assessments and comparisons to<?xmltex \hack{\break}?> GRUAN Vaisala RS92
measurements</article-title><alt-title>Comparison of MUSICA IASI and GRUAN water vapour profiles</alt-title>
      </title-group><?xmltex \runningtitle{Comparison of MUSICA IASI and GRUAN water vapour profiles}?><?xmltex \runningauthor{C. Borger et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1 aff7">
          <name><surname>Borger</surname><given-names>Christian</given-names></name>
          <email>christian.borger@mpic.de</email>
        <ext-link>https://orcid.org/0000-0002-1128-3718</ext-link></contrib>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Schneider</surname><given-names>Matthias</given-names></name>
          <email>matthias.schneider@kit.edu</email>
        <ext-link>https://orcid.org/0000-0001-8452-0035</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1 aff2">
          <name><surname>Ertl</surname><given-names>Benjamin</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Hase</surname><given-names>Frank</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>García</surname><given-names>Omaira E.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff4">
          <name><surname>Sommer</surname><given-names>Michael</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Höpfner</surname><given-names>Michael</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-4174-9531</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff5">
          <name><surname>Tjemkes</surname><given-names>Stephen A.</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff6">
          <name><surname>Calbet</surname><given-names>Xavier</given-names></name>
          
        </contrib>
        <aff id="aff1"><label>1</label><institution>Institute of Meteorology and Climate Research (IMK-ASF), Karlsruhe Institute of Technology, Karlsruhe, Germany</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>Steinbuch Centre for Computing (SCC), Karlsruhe Institute of Technology, Karlsruhe, Germany</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Izaña Atmospheric Research Center, Agencia Estatal de Meteorología (AEMET), Santa Cruz de Tenerife, Spain</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>Deutscher Wetterdienst, Meteorologisches Observatorium Lindenberg, Richard-Aßmann-Observatorium, <?xmltex \hack{\break}?>Am Observatorium 12, 15848 Lindenberg/Tauche, Germany</institution>
        </aff>
        <aff id="aff5"><label>5</label><institution>EUMETSAT, Eumetsat Allee 1, 64295 Darmstadt, Germany</institution>
        </aff>
        <aff id="aff6"><label>6</label><institution>AEMET, C/Leonardo Prieto Castro 8, Ciudad Universitaria, 28071 Madrid, Spain</institution>
        </aff>
        <aff id="aff7"><label>a</label><institution>now at: Satellite Remote Sensing Group, Max Planck Institute for Chemistry, Mainz, Germany</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Christian Borger  (christian.borger@mpic.de) and Matthias Schneider (matthias.schneider@kit.edu)</corresp></author-notes><pub-date><day>4</day><month>September</month><year>2018</year></pub-date>
      
      <volume>11</volume>
      <issue>9</issue>
      <fpage>4981</fpage><lpage>5006</lpage>
      <history>
        <date date-type="received"><day>16</day><month>October</month><year>2017</year></date>
           <date date-type="rev-request"><day>26</day><month>October</month><year>2017</year></date>
           <date date-type="rev-recd"><day>10</day><month>July</month><year>2018</year></date>
           <date date-type="accepted"><day>26</day><month>July</month><year>2018</year></date>
      </history>
      <permissions>
        
        
      <license license-type="open-access"><license-p>This work is licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/4.0/">https://creativecommons.org/licenses/by/4.0/</ext-link></license-p></license></permissions><self-uri xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018.html">This article is available from https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018.html</self-uri><self-uri xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018.pdf">The full text article is available as a PDF file from https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018.pdf</self-uri>
      <abstract>
    <p id="d1e203">Volume mixing ratio water vapour profiles have been retrieved from IASI
(Infrared Atmospheric Sounding Interferometer) spectra using the MUSICA
(MUlti-platform remote Sensing of Isotopologues for investigating the Cycle
of Atmospheric water) processor. The retrievals are done for IASI
observations that coincide with Vaisala RS92 radiosonde measurements
performed in the framework of the GCOS (Global Climate Observing System)
Reference Upper-Air Network (GRUAN) in three different climate zones: the
tropics (Manus Island, 2<inline-formula><mml:math id="M1" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> S), mid-latitudes (Lindenberg,
52<inline-formula><mml:math id="M2" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N), and polar regions (Sodankylä, 67<inline-formula><mml:math id="M3" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N).</p>
    <p id="d1e233">The retrievals show good sensitivity with respect to the vertical <inline-formula><mml:math id="M4" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
distribution between 1 km above ground and the upper troposphere.
Typical DOFS (degrees of freedom for signal) values are about 5.6
for the tropics, 5.1 for summertime mid-latitudes, 3.8 for
wintertime mid-latitudes, and 4.4 for summertime polar regions.
The errors of the MUSICA IASI water vapour profiles have been
theoretically estimated considering the contribution of many different
uncertainty sources. For all three climate regions, unrecognized cirrus
clouds and uncertainties in atmospheric temperature have been identified
as the most important error sources and they can reach about 25 %.</p>
    <p id="d1e249">The MUSICA IASI water vapour profiles have been compared to 100 individual
coincident GRUAN water vapour profiles. The systematic difference between the
data is within 11 % below 12 km altitude; however, at higher altitudes the MUSICA IASI data show a dry bias with respect to
the GRUAN data of up to 21 %. The scatter is largest
close to the surface (30 %), but never exceeds 21 % above 1 km altitude.
The comparison study documents that the MUSICA IASI retrieval processor provides
<inline-formula><mml:math id="M5" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles that capture the large variations in <inline-formula><mml:math id="M6" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
volume mixing ratio profiles well from 1 km above ground up to
altitudes close to the tropopause. Above 5 km the observed scatter with respect to GRUAN data is in reasonable agreement
with the combined MUSICA IASI and GRUAN random errors. The increased scatter at lower altitudes might be explained by
surface emissivity uncertainties at the summertime continental sites of Lindenberg and Sodankylä, and the upper
tropospheric dry bias might suggest deficits in correctly modelling the spectroscopic line shapes of water vapour.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<?pagebreak page4982?><sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p id="d1e285">Atmospheric water plays a key role in the atmospheric energy balance and
temperature distribution via radiative effects (clouds and vapour) and latent
heat transport. Hence the distribution and transport of atmospheric moisture
is closely linked to atmospheric dynamics on all scales, and understanding
its spatial and temporal variations is essential for weather and climate
modelling. Also, understanding the coupling between moisture transport,
clouds, and atmospheric dynamics is seen as a major challenge for improving
atmospheric models <xref ref-type="bibr" rid="bib1.bibx33" id="paren.1"/>. In this context the global
monitoring of the water vapour distribution is important, whereby the large
inhomogeneity in time and space (horizontally and vertically) is
particularly challenging.</p>
      <p id="d1e291">In the meantime, several in situ and remote sensing measurement techniques
for the observation of water vapour have been established using platforms
such as surface stations, balloons, aircraft, and satellites. The radiative
properties of water vapour enable satellite remote sensing measurements
in a large range of wavelength regimes from the visible, e.g. GOME
<xref ref-type="bibr" rid="bib1.bibx11" id="paren.2"/>, near-infrared, e.g. MODIS <xref ref-type="bibr" rid="bib1.bibx8" id="paren.3"/>,
thermal infrared, e.g. AIRS <xref ref-type="bibr" rid="bib1.bibx35" id="paren.4"/>, TES <xref ref-type="bibr" rid="bib1.bibx37" id="paren.5"/>, and IASI <xref ref-type="bibr" rid="bib1.bibx13 bib1.bibx28" id="paren.6"/>,
to the microwave, e.g. AMSU <xref ref-type="bibr" rid="bib1.bibx26" id="paren.7"/>. The instrument IASI
<xref ref-type="bibr" rid="bib1.bibx5" id="paren.8"><named-content content-type="pre">Infrared Atmospheric Sounding Interferometer</named-content></xref>
aboard EUMETSAT's MetOp satellites is particularly
promising: it has been providing global observations with high resolution and
accuracy twice a day on a long-term mission for more than 14 years.
Furthermore, IASI follow-up missions have already been approved, guaranteeing
observations until the 2030s, which will offer great opportunities
for studying the atmospheric composition over long time periods.</p>
      <p id="d1e318">When using satellite data in research, it is important to understand
their characteristics (sensitivity/representativeness and errors).
Theoretical error assessments can be used to reveal the leading error sources.
Ideally these error assessments should be accompanied by empirical
data validation studies, in which the remote sensing data are compared
to independent high-quality reference data. Radiosonde measurements are a good candidate for providing references for validating the
remote sensing profiles; however, great care is needed for constraining the uncertainties in the radiosonde data <xref ref-type="bibr" rid="bib1.bibx18" id="paren.9"/>.
Particularly promising in this context are the temperature and humidity profiles produced from Vaisala RS92 radiosonde measurements in the
framework of the GCOS Reference Upper-Air Network (GRUAN, <uri>http://www.gruan.org</uri>, last access: 29 August 2018),
a subnetwork of the Global Climate Observing System
(GCOS, <uri>https://www.wmo.int/pages/prog/gcos/index.php</uri>, last access: 29 August 2018). Currently GRUAN
consists of about 30 reference sites and provides humidity and temperature profiles of a high and well-documented quality <xref ref-type="bibr" rid="bib1.bibx7" id="paren.10"/>.</p>
      <p id="d1e333">In this paper we perform a detailed theoretical error assessment and
an empirical validation of the water vapour profiles as generated
by the MUSICA <xref ref-type="bibr" rid="bib1.bibx29" id="paren.11"><named-content content-type="pre">MUlti-platform remote Sensing of Isotopologues for
investigating the Cycle of Atmospheric water</named-content></xref> IASI retrieval processor.
The retrievals are done for three different climate regions (tropics,
mid-latitudes, polar regions) and for coincidences with GRUAN in situ
radiosonde measurements, which we use as the reference for
the empirical validation study. Our investigations will give an overview of the retrieval's capability of profiling
atmospheric water vapour. The paper is organized as follows:
Sect. 2 will give a brief overview of the MUSICA IASI processor
by describing general retrieval and error estimation principles,
by presenting the particularities of the MUSICA retrieval set-up, and
by discussing the MUSICA retrieval output. Section 3 presents the
sites and time periods for which the data evaluation is performed.
Section 4 shows the theoretical IASI data characterization, and
Sect. <xref ref-type="sec" rid="Ch1.S5"/> presents and discusses the results of the
comparison between the remote sensing data and the GRUAN in situ
reference data. In Sect. <xref ref-type="sec" rid="Ch1.S6"/> we summarize the outcomes
of the study.</p>
</sec>
<sec id="Ch1.S2">
  <title>MUSICA IASI data</title>
<sec id="Ch1.S2.SS1">
  <title>Atmospheric remote sensing retrieval principles</title>
      <p id="d1e356">In this subsection we give a very brief introduction to the
principles of the optimal estimation retrieval method. It is a
standard retrieval method in atmospheric remote sensing. For more
details, please refer to <xref ref-type="bibr" rid="bib1.bibx25" id="text.12"/>, and for a general
introduction on vector and matrix algebra, dedicated textbooks
are recommended.</p>
      <p id="d1e362">Atmospheric remote sensing means that the atmospheric state is retrieved
from the radiation measured after it has interacted with the atmosphere. This
interaction of radiation with the atmosphere is modelled by a radiative
transfer model (also called the forward model, <inline-formula><mml:math id="M7" display="inline"><mml:mi mathvariant="bold-italic">F</mml:mi></mml:math></inline-formula>), which enables
the measurement vector and the atmospheric state vector to be related by
            <disp-formula id="Ch1.E1" content-type="numbered"><mml:math id="M8" display="block"><mml:mrow><mml:mi mathvariant="bold-italic">y</mml:mi><mml:mo>=</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>
          We measure <inline-formula><mml:math id="M9" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula> (the measurement vector, e.g. a thermal nadir spectrum
in the case of IASI) and are interested in <inline-formula><mml:math id="M10" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula> (the atmospheric state
vector). Vector <inline-formula><mml:math id="M11" display="inline"><mml:mi mathvariant="bold-italic">b</mml:mi></mml:math></inline-formula> represents auxiliary
parameters (like surface emissivity) or instrumental characteristics (like the
instrumental line shape) which are not part of the retrieval state vector.
However, a direct inversion of Eq. (<xref ref-type="disp-formula" rid="Ch1.E1"/>) is generally not
possible because there are many atmospheric states <inline-formula><mml:math id="M12" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula> that can explain
one and the same measurement <inline-formula><mml:math id="M13" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula>.</p>
      <p id="d1e434">For solving this ill-posed problem, a cost function <inline-formula><mml:math id="M14" display="inline"><mml:mi>J</mml:mi></mml:math></inline-formula> is set up that combines the information provided by the measurement with a
priori known characteristics of the atmospheric state:

                <disp-formula specific-use="align" content-type="numbered"><mml:math id="M15" display="block"><mml:mtable displaystyle="true"><mml:mtr><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mi>J</mml:mi></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mo>=</mml:mo><mml:msup><mml:mfenced close="]" open="["><mml:mrow><mml:mi mathvariant="bold-italic">y</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfenced><mml:mi>T</mml:mi></mml:msup><mml:msubsup><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msubsup><mml:mfenced close="]" open="["><mml:mrow><mml:mi mathvariant="bold-italic">y</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfenced></mml:mrow></mml:mtd></mml:mtr><mml:mlabeledtr id="Ch1.E2"><mml:mtd/><mml:mtd><mml:mstyle displaystyle="true" class="stylechange"/></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>+</mml:mo><mml:msup><mml:mfenced close="]" open="["><mml:mrow><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:mfenced><mml:mi>T</mml:mi></mml:msup><mml:msubsup><mml:mi mathvariant="bold">S</mml:mi><mml:mi mathvariant="normal">a</mml:mi><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msubsup><mml:mfenced open="[" close="]"><mml:mrow><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:mfenced><mml:mo>.</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula>

           <?pagebreak page4983?> Here, the first term is a measure of the difference between the measured
spectrum (represented by <inline-formula><mml:math id="M16" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula>) and the spectrum simulated for a given
atmospheric state (represented by <inline-formula><mml:math id="M17" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula>), while taking into account the
actual measurement noise (<inline-formula><mml:math id="M18" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> is the measurement noise
covariance matrix). The second term of the cost function (Eq. <xref ref-type="disp-formula" rid="Ch1.E2"/>) constrains the
atmospheric solution state (<inline-formula><mml:math id="M19" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula>) towards an a priori most likely state
(<inline-formula><mml:math id="M20" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>), whereby the kind and strength of the constraint are defined by the a
priori covariance matrix <inline-formula><mml:math id="M21" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>. The constrained solution is reached at
the minimum of the cost function (Eq. <xref ref-type="disp-formula" rid="Ch1.E2"/>). Due to the non-linear
behaviour of <inline-formula><mml:math id="M22" display="inline"><mml:mrow><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, the minimization is generally achieved
iteratively. For the <inline-formula><mml:math id="M23" display="inline"><mml:mrow><mml:mo>(</mml:mo><mml:mi>i</mml:mi><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>th iteration it is

                <disp-formula id="Ch1.E3" content-type="numbered"><mml:math id="M24" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mrow><mml:mi>i</mml:mi><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">G</mml:mi><mml:mi mathvariant="bold">i</mml:mi></mml:msub><mml:mo>[</mml:mo><mml:mi mathvariant="bold-italic">y</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi>i</mml:mi></mml:msub><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>i</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi>i</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>)</mml:mo><mml:mo>]</mml:mo><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e740"><inline-formula><mml:math id="M25" display="inline"><mml:mi mathvariant="bold">K</mml:mi></mml:math></inline-formula> is the Jacobian matrix (derivatives that capture how the
measurement vector will change for changes in the atmospheric state <inline-formula><mml:math id="M26" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula>).
<inline-formula><mml:math id="M27" display="inline"><mml:mi mathvariant="bold">G</mml:mi></mml:math></inline-formula> is the gain matrix (derivatives that capture how the retrieved
state vector will change for changes in the measurement vector <inline-formula><mml:math id="M28" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula>). <inline-formula><mml:math id="M29" display="inline"><mml:mi mathvariant="bold">G</mml:mi></mml:math></inline-formula>
can be calculated from <inline-formula><mml:math id="M30" display="inline"><mml:mi mathvariant="bold">K</mml:mi></mml:math></inline-formula>, <inline-formula><mml:math id="M31" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M32" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> as

                <disp-formula id="Ch1.E4" content-type="numbered"><mml:math id="M33" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mi mathvariant="bold">G</mml:mi><mml:mo>=</mml:mo><mml:msup><mml:mfenced close=")" open="("><mml:mrow><mml:msup><mml:mi mathvariant="bold">K</mml:mi><mml:mi>T</mml:mi></mml:msup><mml:msubsup><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msubsup><mml:mi mathvariant="bold">K</mml:mi><mml:mo>+</mml:mo><mml:msubsup><mml:mi mathvariant="bold">S</mml:mi><mml:mi mathvariant="normal">a</mml:mi><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msubsup></mml:mrow></mml:mfenced><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:msup><mml:mi mathvariant="bold">K</mml:mi><mml:mi>T</mml:mi></mml:msup><mml:msubsup><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msubsup><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e887">The averaging kernel is an important component of a remote sensing retrieval
and it is calculated as
            <disp-formula id="Ch1.E5" content-type="numbered"><mml:math id="M34" display="block"><mml:mrow><mml:mi mathvariant="bold">A</mml:mi><mml:mo>=</mml:mo><mml:mi mathvariant="bold">GK</mml:mi><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e903">The averaging kernel <inline-formula><mml:math id="M35" display="inline"><mml:mi mathvariant="bold">A</mml:mi></mml:math></inline-formula> reveals how a small change of the real
atmospheric state vector <inline-formula><mml:math id="M36" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula> affects the retrieved atmospheric state
vector <inline-formula><mml:math id="M37" display="inline"><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:math></inline-formula>:
            <disp-formula id="Ch1.E6" content-type="numbered"><mml:math id="M38" display="block"><mml:mrow><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mi mathvariant="bold">A</mml:mi><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>)</mml:mo><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e966">The propagation of errors due to parameter uncertainties <inline-formula><mml:math id="M39" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi></mml:mrow></mml:math></inline-formula> can
be estimated analytically with the help of the parameter Jacobian matrix
<inline-formula><mml:math id="M40" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>b</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> (derivatives that capture how the measurement vector will
change for changes in the parameter <inline-formula><mml:math id="M41" display="inline"><mml:mi mathvariant="bold-italic">b</mml:mi></mml:math></inline-formula>). According to
Eq. (<xref ref-type="disp-formula" rid="Ch1.E3"/>), using the parameter
<inline-formula><mml:math id="M42" display="inline"><mml:mrow><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>+</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi></mml:mrow></mml:math></inline-formula> (instead of the correct parameter <inline-formula><mml:math id="M43" display="inline"><mml:mi mathvariant="bold-italic">b</mml:mi></mml:math></inline-formula>) for the
forward model calculations will result in an error in the atmospheric state
vector of
            <disp-formula id="Ch1.E7" content-type="numbered"><mml:math id="M44" display="block"><mml:mrow><mml:mi mathvariant="bold">Δ</mml:mi><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>=</mml:mo><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold">GK</mml:mi><mml:mi>b</mml:mi></mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e1048">The respective error covariance matrix <inline-formula><mml:math id="M45" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi>b</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> is
            <disp-formula id="Ch1.E8" content-type="numbered"><mml:math id="M46" display="block"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi>b</mml:mi></mml:mrow></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold">GK</mml:mi><mml:mi>b</mml:mi></mml:msub><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi>b</mml:mi></mml:msub><mml:msubsup><mml:mi mathvariant="bold">K</mml:mi><mml:mi>b</mml:mi><mml:mi>T</mml:mi></mml:msubsup><mml:msup><mml:mi mathvariant="bold">G</mml:mi><mml:mi>T</mml:mi></mml:msup><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          where <inline-formula><mml:math id="M47" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi>b</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the covariance matrix of the
uncertainties <inline-formula><mml:math id="M48" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi></mml:mrow></mml:math></inline-formula>.</p>
      <p id="d1e1136"><?xmltex \hack{\newpage}?>Noise on the measured radiances also affects the retrievals. The error
covariance matrix for noise can be analytically calculated as
            <disp-formula id="Ch1.E9" content-type="numbered"><mml:math id="M49" display="block"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold">GS</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub><mml:msup><mml:mi mathvariant="bold">G</mml:mi><mml:mi>T</mml:mi></mml:msup><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          where <inline-formula><mml:math id="M50" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> is the covariance matrix for noise on the measured
radiances <inline-formula><mml:math id="M51" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S2.SS2">
  <title>The MUSICA retrieval set-up</title>
      <p id="d1e1207">The MUSICA IASI retrieval is based on a nadir version of the retrieval code
PROFFIT <xref ref-type="bibr" rid="bib1.bibx12" id="paren.13"><named-content content-type="pre">PROFile FIT</named-content></xref> and on the corresponding radiative
transfer model PRFFWD <xref ref-type="bibr" rid="bib1.bibx12 bib1.bibx27" id="paren.14"><named-content content-type="pre">PRoFit ForWarD model</named-content></xref>. The
nadir code has been developed in support of the project MUSICA
(MUlti-platform remote Sensing of Isotopologues for investigating the Cycle
of Atmospheric water; <uri>http://www.imk-asf.kit.edu/english/musica.php</uri>,
last access: 29 August 2018). The PRFFWD nadir code has been recently updated
by including water continuum calculations according to the model MT_CKD
v2.5.2 <xref ref-type="bibr" rid="bib1.bibx6 bib1.bibx20 bib1.bibx19" id="paren.15"/>.</p>
      <p id="d1e1226">For the MUSICA IASI retrieval calculations, a single broad
spectral window from 1190 to 1400 cm<inline-formula><mml:math id="M52" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> is used.
The spectral signatures of <inline-formula><mml:math id="M53" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:msup><mml:mi/><mml:mn mathvariant="normal">16</mml:mn></mml:msup><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M54" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:msup><mml:mi/><mml:mn mathvariant="normal">18</mml:mn></mml:msup><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>, and
<inline-formula><mml:math id="M55" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:msup><mml:mi/><mml:mn mathvariant="normal">17</mml:mn></mml:msup><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> are fitted together as a single species (from now on called <inline-formula><mml:math id="M56" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>) and
<inline-formula><mml:math id="M57" display="inline"><mml:mrow class="chem"><mml:msup><mml:mi/><mml:mn mathvariant="normal">1</mml:mn></mml:msup><mml:msup><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mi mathvariant="normal">H</mml:mi><mml:msup><mml:mi/><mml:mn mathvariant="normal">16</mml:mn></mml:msup><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> (from now on called HDO) as a separate
species. Furthermore, the retrieval's spectral window contains spectroscopic
features of <inline-formula><mml:math id="M58" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M59" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> as well as weak spectroscopic features of
<inline-formula><mml:math id="M60" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">HNO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and very weak spectroscopic features of <inline-formula><mml:math id="M61" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>.
All these trace gases are simultaneously fitted during the
retrieval process, whereby the spectroscopic parameters are taken from
the HITRAN 2016 database <xref ref-type="bibr" rid="bib1.bibx10" id="paren.16"/> with small modifications for
HDO parameters (similar to <xref ref-type="bibr" rid="bib1.bibx29" id="altparen.17"/>, the line intensity parameters
of HDO have been increased by 10 %).</p>
      <p id="d1e1382">For the water isotopologues, <inline-formula><mml:math id="M62" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M63" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>, and <inline-formula><mml:math id="M64" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">HNO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
profile retrievals are performed on a logarithmic scale. For <inline-formula><mml:math id="M65" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> the
a priori profiles are scaled. A single a priori profile is used for all the
retrievals for each of the different trace gases; i.e. the a priori profiles
used are the same for all locations and time periods
<xref ref-type="bibr" rid="bib1.bibx29 bib1.bibx9" id="paren.18"/>. For <inline-formula><mml:math id="M66" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CH</mml:mi><mml:mn mathvariant="normal">4</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M67" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>, <inline-formula><mml:math id="M68" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">HNO</mml:mi><mml:mn mathvariant="normal">3</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, and
<inline-formula><mml:math id="M69" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">CO</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> the a priori profiles are averaged low-latitude profiles from
WACCM (Whole Atmosphere Community Climate Model-version 6, and are provided
by NCAR (National Center for Atmospheric Research, James W. Hannigan, private
communication, 2009). The water vapour isotopologue a priori data are
averages obtained from the isotopologue incorporated global general
circulation model LMDZ <xref ref-type="bibr" rid="bib1.bibx24" id="paren.19"/>.</p>
      <p id="d1e1484">The retrieval also fits the surface temperature and the atmospheric
temperature  profile, whereby the a priori temperatures are taken from the
EUMETSAT IASI level 2 (L2) products. There is no constraint on the
surface temperature. The atmospheric temperature variations allowed
are 1 K at the<?pagebreak page4984?> ground, 0.5 K in the free troposphere, and
0.75 K above the tropopause. This altitude dependency roughly follows
the altitude dependency of uncertainties in the EUMETSAT IASI L2 atmospheric
temperature profiles <xref ref-type="bibr" rid="bib1.bibx1" id="paren.20"/>.</p>
      <p id="d1e1491">The MUSICA IASI water vapour retrieval only works for pixels that
are not contaminated by clouds, whereby we rely on the IASI L2 cloud
flag (we require zero for the flag “cldfrm”). Ground elevations are from
GTOPO30 developed by the US Geological Survey and provided by the Oak Ridge
National Laboratory Distributed Active Archive Center (ORNL DAAC).
GTOPO30 is a global digital elevation model with a horizontal grid
spacing of 30 arcsec (approximately 1 km). The land surface
emissivities are from the global database of infrared land surface
emissivity (IREMIS; <uri>http://cimss.ssec.wisc.edu/iremis/</uri>, last access: 29 August 2018;
<xref ref-type="bibr" rid="bib1.bibx31" id="altparen.21"/>), and the sea surface emissivities are calculated
according to the model of <xref ref-type="bibr" rid="bib1.bibx17" id="text.22"/> and for an assumed surface wind speed of 5 m s<inline-formula><mml:math id="M70" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.</p>
      <p id="d1e1515">Figure <xref ref-type="fig" rid="Ch1.F1"/> depicts an example of a typical radiance
spectrum in the retrieval's spectral range as measured
by IASI (upper graph) and the corresponding differences compared to the
simulated spectra (the residuals, lower graph). The residuals are mostly
within the order of the instrument's <inline-formula><mml:math id="M71" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> measurement noise
<xref ref-type="bibr" rid="bib1.bibx21" id="paren.23"/>. However, there are also distinctive spectral
signatures that are not well understood, specifically at 1250
and at 1280 cm<inline-formula><mml:math id="M72" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1"><caption><p id="d1e1547">Example of an infrared spectrum measured by IASI <bold>(a)</bold>
and residuals between the satellite observation and radiative transfer
simulation <bold>(b)</bold> at Manus Island (15 Octover 2012 11:46:26 UT,
satellite zenith angle 10.2<inline-formula><mml:math id="M73" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, integrated water vapour
48.0 mm). The red lines in the bottom panel indicate the
typical IASI noise measurement level as given by the square root values
of the diagonal elements of the IASI noise covariance
matrix <xref ref-type="bibr" rid="bib1.bibx21" id="paren.24"/>.</p></caption>
          <?xmltex \igopts{height=227.622047pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f01.pdf"/>

        </fig>

      <p id="d1e1574">For further information on the retrieval set-up and its evolution, more detailed descriptions are
available in <xref ref-type="bibr" rid="bib1.bibx28" id="text.25"/>, <xref ref-type="bibr" rid="bib1.bibx36" id="text.26"/>, <xref ref-type="bibr" rid="bib1.bibx29" id="text.27"/>, and <xref ref-type="bibr" rid="bib1.bibx9" id="text.28"/>.</p>
</sec>
<sec id="Ch1.S2.SS3">
  <title>The MUSICA retrieval output</title>
      <p id="d1e1595">The output of the retrieval refers to the
<inline-formula><mml:math id="M74" display="inline"><mml:mrow><mml:mfenced open="{" close="}"><mml:mrow><mml:mi>ln⁡</mml:mi><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mo>,</mml:mo><mml:mspace linebreak="nobreak" width="0.125em"/><mml:mi>ln⁡</mml:mi><mml:mfenced open="[" close="]"><mml:mrow class="chem"><mml:mi mathvariant="normal">HDO</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>
basis system. In this basis system the state vector <inline-formula><mml:math id="M75" display="inline"><mml:mi mathvariant="bold-italic">x</mml:mi></mml:math></inline-formula> consists of
the vector for the <inline-formula><mml:math id="M76" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profile extended by the vector for the HDO
profile:

                <disp-formula id="Ch1.E10" content-type="numbered"><mml:math id="M77" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo>=</mml:mo><mml:mfenced close=")" open="("><mml:mtable class="array" columnalign="center"><mml:mtr><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:mtd></mml:mtr><mml:mtr><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">HDO</mml:mi></mml:msub></mml:mrow></mml:mtd></mml:mtr></mml:mtable></mml:mfenced><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e1682">Correspondingly, the averaging kernel matrix <inline-formula><mml:math id="M78" display="inline"><mml:mi mathvariant="bold">A</mml:mi></mml:math></inline-formula>
has <inline-formula><mml:math id="M79" display="inline"><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>×</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> blocks

                <disp-formula id="Ch1.E11" content-type="numbered"><mml:math id="M80" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mi mathvariant="bold">A</mml:mi><mml:mo>=</mml:mo><mml:mfenced close=")" open="("><mml:mtable class="array" columnalign="center center"><mml:mtr><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:mtd></mml:mtr><mml:mtr><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">21</mml:mn></mml:msub></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">22</mml:mn></mml:msub></mml:mrow></mml:mtd></mml:mtr></mml:mtable></mml:mfenced><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          <inline-formula><mml:math id="M81" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M82" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">22</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> describe how the retrieved <inline-formula><mml:math id="M83" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
and HDO states depend on the actual atmospheric <inline-formula><mml:math id="M84" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO variations,
respectively, and <inline-formula><mml:math id="M85" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M86" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">21</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> reveal the
cross-dependencies of the retrieved <inline-formula><mml:math id="M87" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> on the actual atmospheric HDO and
of the retrieved HDO on the actual atmospheric <inline-formula><mml:math id="M88" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>, respectively. Since
<inline-formula><mml:math id="M89" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO vary largely in parallel, in the following we use the
<inline-formula><mml:math id="M90" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> as the kernel for <inline-formula><mml:math id="M91" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
<xref ref-type="bibr" rid="bib1.bibx2" id="paren.29"><named-content content-type="pre">see also Sect. 4.3 in</named-content></xref>.</p>
      <p id="d1e1896"><?xmltex \hack{\newpage}?>Similarly, retrieval error covariance matrices consist of <inline-formula><mml:math id="M92" display="inline"><mml:mrow><mml:mn mathvariant="normal">2</mml:mn><mml:mo>×</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula>
blocks, whereby the blocks in the diagonal represent the <inline-formula><mml:math id="M93" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO covariances.
For this study only the <inline-formula><mml:math id="M94" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> covariance block is of interest (i.e. we are
only interested in the <inline-formula><mml:math id="M95" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> error covariances). The outer diagonal blocks
represent the error covariances between <inline-formula><mml:math id="M96" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO.</p>
</sec>
</sec>
<sec id="Ch1.S3">
  <title>Reference data and sites</title>
      <p id="d1e1971">The theoretical and empirical assessment studies are done for cloud-free IASI
measurements that coincide with GRUAN-processed Vaisala RS92 radiosonde
measurements. Useful coincidences are defined in accordance to
<xref ref-type="bibr" rid="bib1.bibx22" id="normal.30"/> and <xref ref-type="bibr" rid="bib1.bibx4" id="normal.31"/>.</p>
      <p id="d1e1980">We identified three different sites with coincidence between IASI and
GRUAN measurements: Manus Island (Papua New Guinea; 2<inline-formula><mml:math id="M97" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>5<inline-formula><mml:math id="M98" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> S,
146<inline-formula><mml:math id="M99" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>58<inline-formula><mml:math id="M100" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> E) for the tropics, Lindenberg (Germany;
52<inline-formula><mml:math id="M101" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>12<inline-formula><mml:math id="M102" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> N, 14<inline-formula><mml:math id="M103" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>7<inline-formula><mml:math id="M104" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> E) for the
mid-latitudes, and Sodankylä (Finland; 67<inline-formula><mml:math id="M105" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>25<inline-formula><mml:math id="M106" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> N,
26<inline-formula><mml:math id="M107" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>35<inline-formula><mml:math id="M108" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> E) for the polar region.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><caption><p id="d1e2095">Vertical <inline-formula><mml:math id="M109" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles as measured by the 100 different
GRUAN-processed Vaisala RS92 radiosondes, from Manus
Island, Lindenberg, and Sodankylä, used for our study.
Black lines indicate radiosonde data ensembles that cover
all seasons (Manus Island and Lindenberg 2008), and red
lines indicate ensembles that cover the summer season only.</p></caption>
        <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f02.pdf"/>

      </fig>

      <p id="d1e2117">Figure <xref ref-type="fig" rid="Ch1.F2"/> depicts all the GRUAN <inline-formula><mml:math id="M110" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
profiles that coincide with IASI observations made in cloud-free conditions.
There are 25 individual GRUAN profiles for Manus Island (during different months in 2011–2013), 58 for Lindenberg
(26 during summer 2007 and 32 during different months in 2008),
and 17 for Sodankylä (during summer 2007); i.e. in total<?pagebreak page4985?> there are 100 individual GRUAN
radiosonde measurements that coincide with IASI cloud-free measurements.
These four ensembles of GRUAN profiles are well representative of the
highly varying tropospheric <inline-formula><mml:math id="M111" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> distributions. In the free middle/upper
troposphere the data show variations of up to 2 orders of magnitude.
At the tropical site of Manus Island we observe up to 10000 ppmv
(at 5 km a.s.l.) and up to 1000 ppmv (at 10 km a.s.l.),
whereas at the mid-latitude and polar sites of Lindenberg and
Sodankylä, the <inline-formula><mml:math id="M112" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> concentrations can be as small as
100 ppmv and 10 ppmv, respectively. In this context, using
the four ensembles of GRUAN data enables us to conduct an evaluation of the
retrieval performance that has a good global validity.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p id="d1e2165">Overview of the different ensembles of GRUAN reference data and the available retrieval input data.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">Manus Island</oasis:entry>
         <oasis:entry colname="col3">Lindenberg 2008</oasis:entry>
         <oasis:entry colname="col4">Lindenberg 2007</oasis:entry>
         <oasis:entry colname="col5">Sodankylä 2007</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">Acronym</oasis:entry>
         <oasis:entry colname="col2">MI</oasis:entry>
         <oasis:entry colname="col3">LI08</oasis:entry>
         <oasis:entry colname="col4">LI07</oasis:entry>
         <oasis:entry colname="col5">SK07</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Time period</oasis:entry>
         <oasis:entry colname="col2">2011–2013</oasis:entry>
         <oasis:entry colname="col3">2008 (all months)</oasis:entry>
         <oasis:entry colname="col4">2007 (June–August)</oasis:entry>
         <oasis:entry colname="col5">2007 (June–August)</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Number of independent</oasis:entry>
         <oasis:entry colname="col2">25</oasis:entry>
         <oasis:entry colname="col3">32</oasis:entry>
         <oasis:entry colname="col4">26</oasis:entry>
         <oasis:entry colname="col5">17</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">GRUAN sondes</oasis:entry>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Ground level</oasis:entry>
         <oasis:entry colname="col2">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col3">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col4">GTOPO30</oasis:entry>
         <oasis:entry colname="col5">GTOPO30</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">(GTOPO30)</oasis:entry>
         <oasis:entry colname="col3">(GTOPO30)</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Emissivity</oasis:entry>
         <oasis:entry colname="col2">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col3">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col4">IREMIS</oasis:entry>
         <oasis:entry colname="col5">IREMIS</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2">
                  <xref ref-type="bibr" rid="bib1.bibx17" id="paren.32"/>
                </oasis:entry>
         <oasis:entry colname="col3">(IREMIS)</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Cloud identification</oasis:entry>
         <oasis:entry colname="col2">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col3">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col4">
                  <xref ref-type="bibr" rid="bib1.bibx38" id="text.33"/>
                </oasis:entry>
         <oasis:entry colname="col5">
                  <xref ref-type="bibr" rid="bib1.bibx38" id="text.34"/>
                </oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"><inline-formula><mml:math id="M113" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> visual inspection</oasis:entry>
         <oasis:entry colname="col3"/>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">A priori values for atmospheric and</oasis:entry>
         <oasis:entry colname="col2">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col3">EUMETSAT IASI L2</oasis:entry>
         <oasis:entry colname="col4">GRUAN sonde</oasis:entry>
         <oasis:entry colname="col5">GRUAN sonde</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">surface skin temperature</oasis:entry>
         <oasis:entry colname="col2">(PPF v5)</oasis:entry>
         <oasis:entry colname="col3">(PPF v4)</oasis:entry>
         <oasis:entry colname="col4"/>
         <oasis:entry colname="col5"/>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p id="d1e2424">The coincidences at the three sites are for different time periods, and there is not a strictly uniform data set for
creating the retrieval
input files: EUMETSAT L2 data are not available for all the time periods or are generated by a different EUMETSAT L2
product processing facility (PPF) software version (for more details see Sect. <xref ref-type="sec" rid="Ch1.S3.SS2"/>–<xref ref-type="sec" rid="Ch1.S3.SS4"/> and
the summary of Table <xref ref-type="table" rid="Ch1.T1"/>).</p>
<sec id="Ch1.S3.SS1">
  <title>GRUAN-processed Vaisala RS92 in situ profiles</title>
      <p id="d1e2438">The Vaisala RS92 radiosonde is equipped with a wire-like capacitive
temperature sensor (“Thermocap”), two polymer capacitive moisture
sensors (“Humicap”), a silicon-based pressure sensor, and a GPS receiver to
measure position, altitude, and winds. Each second the RS92 transmits
sensor data, which are received, processed, and stored by the ground
station equipment.</p>
      <p id="d1e2441">The Humicap consists of a hydro-active polymer thin film as the dielectric between two electrodes applied on a glass substrate. The humidity
sensors are not covered by protective caps, but they are alternately
heated to prevent icing. To prevent overheating, the heating of the
humidity sensors is switched off below <inline-formula><mml:math id="M114" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">60</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M115" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C, or above
100 hPa, whichever is reached first. Humicaps show good performance
over a wide range of temperatures but suffer from systematic errors
such as dry bias due to solar radiative heating and a response lag
below <inline-formula><mml:math id="M116" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">40</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M117" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C. Known main error sources affecting the
humidity profile are daytime solar heating of the Humicaps introducing
a dry bias, sensor time lag at temperatures below about <inline-formula><mml:math id="M118" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">40</mml:mn></mml:mrow></mml:math></inline-formula> <inline-formula><mml:math id="M119" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>C,
and temperature-dependent calibration correction.</p>
      <p id="d1e2502">We work with Vaisala RS92 data that have been processed by the GRUAN
lead centre (<uri>http://www.gruan.org</uri>, last access: 29 August 2018). The GRUAN data processing
assures that the humidity, pressure, and temperature profiles obtained
are well calibrated and highly accurate <xref ref-type="bibr" rid="bib1.bibx7 bib1.bibx32" id="paren.35"/>.</p>
</sec>
<sec id="Ch1.S3.SS2">
  <title>Manus Island (MI)</title>
      <p id="d1e2517">At Manus Island we have coincidences in 2011, 2012, and 2013 with 25 individual GRUAN
radiosonde profiles. The collocation of IASI and GRUAN measurements has been
performed by EUMETSAT in the framework of a planned IASI retrieval comparison
study <xref ref-type="bibr" rid="bib1.bibx4" id="paren.36"/>, allowing a spatial and temporal
window of 25 km and 30 min respectively.</p>
      <p id="d1e2523">For our retrieval we use the a priori temperatures (atmosphere and
surface skin) as well as surface emissivities from the EUMETSAT IASI L2
product generated with the IASI L2 PPF software version 5.
Since most of the ground scenes are over the ocean surface, the
emissivity values are mainly according to the model of <xref ref-type="bibr" rid="bib1.bibx17" id="text.37"/>.
The satellite pixels have been careful examined for clouds by EUMETSAT
according to the cloud flags as provided in the IASI L2 data and in addition by visual inspection <xref ref-type="bibr" rid="bib1.bibx4" id="paren.38"/>.</p><?xmltex \hack{\newpage}?>
</sec>
<?pagebreak page4986?><sec id="Ch1.S3.SS3">
  <title>Lindenberg 2008 (LI08)</title>
      <p id="d1e2539">For Lindenberg there are coincidences with 32 individual GRUAN profiles in 2008
(representative of all seasons). We performed the collocation and
required that the satellite pixel has to be within a distance of 25 km
with respect to the starting position of the radiosonde and that the
satellite's pixel sensing time has to be within the sensing time period of
the radiosonde.</p>
      <p id="d1e2542">As for Manus Island we rely on the IASI L2 data for our retrieval input
data (surface and atmospheric temperatures, surface emissivity,
cloud filter, etc.). However, while for the 2011–2013 time period (Manus
Island) the IASI L2 data are generated with the IASI L2 PPF software version 5,
for the 2008 retrievals we work
with L2 data generated by the IASI L2 PPF software version 4. As shown in <xref ref-type="bibr" rid="bib1.bibx9" id="text.39"/>, there can be inconsistencies between
the MUSCA IASI products that are generated using different IASI L2 PPF software versions.</p>
</sec>
<sec id="Ch1.S3.SS4">
  <?xmltex \opttitle{Lindenberg 2007 (LI07) and Sodankyl{\"{a}} 2007 (SK07)}?><title>Lindenberg 2007 (LI07) and Sodankylä 2007 (SK07)</title>
      <p id="d1e2555">In 2007 we have 26 individual GRUAN profiles for Lindenberg and 17
individual GRUAN profiles for Sodankylä (details on the Sodankylä
campaign are available in <xref ref-type="bibr" rid="bib1.bibx3" id="altparen.40"/>) that coincide with
IASI observations. This data set is limited to the summer observations.
We performed the collocation using the same criteria as for the Lindenberg
2008 coincidences; i.e. we required that the satellite pixel has to be
within a distance of 25 km with respect to the starting position
of the radiosonde and that the satellite's pixel sensing time has to be
within the sensing time period of the radiosonde.</p>
      <p id="d1e2561">For summer 2007 IASI L2 data were not available for our retrieval
input. Thus data from the radiosonde measurements were used as
the a priori temperatures. Above the top altitude of the radiosonde we use zonally and monthly averaged temperature climatologies
<xref ref-type="bibr" rid="bib1.bibx23" id="paren.41"><named-content content-type="pre">COSPAR International Reference Atmosphere</named-content></xref>.
Using the GRUAN temperatures (and climatologies at higher altitudes) instead of the IASI L2 temperatures as the a priori values for the
atmospheric temperatures might cause some inconsistency between the LI07 and SK07, on the one hand, and the MI and LI08 retrievals, on the other hand.</p>
      <p id="d1e2569">Surface emissivities are taken from
the global database of infrared land surface emissivity
(IREMIS; <uri>http://cimss.ssec.wisc.edu/iremis/</uri>, last access: 29 August 2018; <xref ref-type="bibr" rid="bib1.bibx31" id="altparen.42"/>),
i.e. in agreement to the retrievals for 2008 (IASI L2 emissivities are based
on IREMIS for land surfaces and use the Masuda model for sea surfaces).
Because there are no IASI L2 cloud products for summer 2007, we use the
radiosonde measurements and the cloud detection algorithm according to
the model of <xref ref-type="bibr" rid="bib1.bibx38" id="text.43"/> for identifying cloud-free situations.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3" specific-use="star"><caption><p id="d1e2584">Example row kernels (<inline-formula><mml:math id="M120" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>; see
Eq. <xref ref-type="disp-formula" rid="Ch1.E11"/>) for the three reference sites. Manus Island: 28 November 2013
11:37:24 UT, satellite zenith angle 12.4<inline-formula><mml:math id="M121" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, precipitable water
vapour 46.4 mm; Lindenberg: 8 October 2008 20:00:38 UT,
16.3<inline-formula><mml:math id="M122" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, 14.1 mm; Sodankylä: 24 August 2007 08:31:25 UT,
27.8<inline-formula><mml:math id="M123" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, 13.7 mm. Numbers in the upper right corners of every
panel indicate the respective degrees of freedom for signal (DOFS). Row
kernels of selected altitudes are highlighted by thick coloured lines. The
thick black dashed line represents the sum along the row of the averaging
kernel matrix.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f03.pdf"/>

        </fig>

</sec>
</sec>
<sec id="Ch1.S4">
  <title>Theoretical MUSICA IASI data characterization</title>
<sec id="Ch1.S4.SS1">
  <title>Averaging kernels</title>
      <p id="d1e2652">Figure <xref ref-type="fig" rid="Ch1.F3"/> illustrates examples of <inline-formula><mml:math id="M124" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> row kernels
(<inline-formula><mml:math id="M125" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>, logarithmic state vector entries according to
Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>) for the three reference sites. Grey lines show all row kernels, and the thick coloured lines
highlight the kernels for some selected altitudes. The peaks of the row kernels for the altitudes of
1.8, 3.6, 6.4, and 9.8 km are close to their nominal altitudes, meaning
that the values retrieved for these altitudes represent the
situation at the nominal altitude well. In contrast, the row kernel for the
ground altitude peaks typically 1 km above ground altitude, meaning that data retrieved at the ground level mainly represent
the altitudes about 1 km above the ground level.
The row kernel for the 13.6 km altitude only peaks close to its nominal altitude for the tropical site of Manus Island.
At Lindenberg and Sodankylä, the respective kernels peak at 9–10 km altitude; i.e. at these sites<?pagebreak page4987?> variations in the 13.6 km
retrieval data are mainly driven by the actual atmospheric variations at 9–10 km.</p>
      <p id="d1e2690">The thick black dashed line represents the sum along the row of the averaging kernel matrix and is a measure of the remote
sensing system's sensitivity. This value is typically between 0.9 and 1.1 from 1 up to 11 km at Lindenberg and Sodankylä, and from 1 up to 13 km at Manus Island.</p>
      <p id="d1e2693">The seasonal dependency of the averaging kernels is indicated in
Fig. <xref ref-type="fig" rid="Ch1.F4"/>, which depicts the seasonal variations in
the degree of freedom for signal (DOFS) values. The DOFS values are
calculated as the trace of the averaging kernel matrix, and the higher
the DOFS values are, the more profile information is in the retrieved
atmospheric state. In the tropics we observe no seasonal dependency.
In the mid-latitudes the DOFS values are distinctively higher in summer
than in winter. More details on this seasonal dependency are provided in Fig. <xref ref-type="fig" rid="Ch1.F5"/>, which depicts typical
wintertime and typical summertime row kernels for Lindenberg.
It seems that the seasonal variation is mostly a variation of the sensitivity at higher altitudes. In summer the remote sensing
system can detect the actual atmospheric variations up to 11–12 km, whereas in winter the sensitivity is limited to altitudes
below 8–9 km. This is connected to the variation of the tropopause altitude. As shown in <xref ref-type="bibr" rid="bib1.bibx30" id="text.44"/>, the averaging
kernels depend strongly on the atmospheric temperature and humidity profiles (as well as on the surface temperature and emissivity).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4"><caption><p id="d1e2705">Variation of the DOFS (degrees of freedom for signal) values for the four different ensembles.</p></caption>
          <?xmltex \igopts{width=213.395669pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f04.pdf"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5"><caption><p id="d1e2717">Same as Fig. <xref ref-type="fig" rid="Ch1.F3"/>, but for a typical winter and summer observation above Lindenberg.
Summer observation: 1 August 2008 08:39:01 UT, satellite zenith angle 43.7<inline-formula><mml:math id="M126" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>,
precipitable water vapour 28.8 mm; winter observation: 15 February 2008 09:54:30 UT, 41.2<inline-formula><mml:math id="M127" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, 3.2 mm.</p></caption>
          <?xmltex \igopts{width=241.848425pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f05.pdf"/>

        </fig>

      <p id="d1e2746">In summary, at all three different sites, the MUSICA IASI retrieval
provides <inline-formula><mml:math id="M128" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profile information from about 1 km
above ground up to about the altitude of the tropopause.</p>
</sec>
<sec id="Ch1.S4.SS2">
  <title>Calculation of error Jacobians</title>
      <?pagebreak page4988?><p id="d1e2768">The error Jacobians (<inline-formula><mml:math id="M129" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>b</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> from Eqs. <xref ref-type="disp-formula" rid="Ch1.E7"/>
and <xref ref-type="disp-formula" rid="Ch1.E8"/>) are calculated by the forward model
PRFFWD as follows: PRFFWD is executed running on a
vertical grid of 28 levels from the surface altitude to approximately
55 km above mean sea level. For every site reference, forward
calculations are performed for all cloud-free situations. The
input (i.e. temperature, trace gas concentrations, etc.)
for the reference forward model runs is the same as the input used in the
forward calculation of the last iteration step of the MUSICA IASI retrievals; i.e. the reference
radiances are given by <inline-formula><mml:math id="M130" display="inline"><mml:mrow><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Then for each reference scenario we make
additional forward calculations with slightly modified parameters;
i.e. we calculate <inline-formula><mml:math id="M131" display="inline"><mml:mrow><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>+</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>.
For a measurement vector <inline-formula><mml:math id="M132" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula> with <inline-formula><mml:math id="M133" display="inline"><mml:mi>m</mml:mi></mml:math></inline-formula> elements and a
parameter vector <inline-formula><mml:math id="M134" display="inline"><mml:mi mathvariant="bold-italic">b</mml:mi></mml:math></inline-formula> with <inline-formula><mml:math id="M135" display="inline"><mml:mi>n</mml:mi></mml:math></inline-formula> elements, the Jacobian
matrix <inline-formula><mml:math id="M136" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>b</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> will have the dimension <inline-formula><mml:math id="M137" display="inline"><mml:mrow><mml:mi>m</mml:mi><mml:mo>×</mml:mo><mml:mi>n</mml:mi></mml:mrow></mml:math></inline-formula>.
The individual matrix elements are calculated as
            <disp-formula id="Ch1.E12" content-type="numbered"><mml:math id="M138" display="block"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mrow><mml:msub><mml:mi>b</mml:mi><mml:mrow><mml:mi>k</mml:mi><mml:mo>,</mml:mo><mml:mi>l</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:msub><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msub><mml:mi>F</mml:mi><mml:mi>k</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>+</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi>l</mml:mi></mml:msub><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:msub><mml:mi>F</mml:mi><mml:mi>k</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi>l</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          where <inline-formula><mml:math id="M139" display="inline"><mml:mi>k</mml:mi></mml:math></inline-formula> is the index for the <inline-formula><mml:math id="M140" display="inline"><mml:mi>k</mml:mi></mml:math></inline-formula>th element of the measurement
state vector <inline-formula><mml:math id="M141" display="inline"><mml:mi mathvariant="bold-italic">y</mml:mi></mml:math></inline-formula> (simulated by vector function <inline-formula><mml:math id="M142" display="inline"><mml:mi>F</mml:mi></mml:math></inline-formula>)
and <inline-formula><mml:math id="M143" display="inline"><mml:mi>l</mml:mi></mml:math></inline-formula> is the index for the <inline-formula><mml:math id="M144" display="inline"><mml:mi>l</mml:mi></mml:math></inline-formula>th element of the parameter
vector <inline-formula><mml:math id="M145" display="inline"><mml:mi mathvariant="bold-italic">b</mml:mi></mml:math></inline-formula>, respectively.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T2" specific-use="star"><caption><p id="d1e3023">List of uncertainty assumptions used
for the error estimation of the MUSICA IASI water vapour product (for
emissivity and atmospheric temperature, we assume random and systematic
uncertainties). The abbreviation “pdf” refers to the probability
distribution function.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="3">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="113.811024pt"/>
     <oasis:colspec colnum="2" colname="col2" align="justify" colwidth="99.584646pt"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="241.848425pt"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Source</oasis:entry>
         <oasis:entry colname="col2">Type</oasis:entry>
         <oasis:entry colname="col3">Value</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Instrumental noise</oasis:entry>
         <oasis:entry colname="col2">Random (Gaussian pdf)</oasis:entry>
         <oasis:entry colname="col3">Noise covariance according to <xref ref-type="bibr" rid="bib1.bibx21" id="normal.45"/></oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Surface emissivity</oasis:entry>
         <oasis:entry colname="col2">Random (Gaussian pdf) <inline-formula><mml:math id="M146" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> Systematic</oasis:entry>
         <oasis:entry colname="col3">Random: 1 % with spectral frequency correlation length of<?xmltex \hack{\hfill\break}?>100 cm<inline-formula><mml:math id="M147" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>; systematic: <inline-formula><mml:math id="M148" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % for <inline-formula><mml:math id="M149" display="inline"><mml:mrow><mml:mo>&lt;</mml:mo><mml:mn mathvariant="normal">1295</mml:mn></mml:mrow></mml:math></inline-formula> cm<inline-formula><mml:math id="M150" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:msup><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:msup></mml:mrow></mml:msup></mml:math></inline-formula> and <inline-formula><mml:math id="M151" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % for<?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M152" display="inline"><mml:mrow><mml:mo>&gt;</mml:mo><mml:mn mathvariant="normal">1295</mml:mn></mml:mrow></mml:math></inline-formula> cm<inline-formula><mml:math id="M153" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:msup><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:msup></mml:mrow></mml:msup></mml:math></inline-formula></oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">EUMETSAT L2 atmos. temp.</oasis:entry>
         <oasis:entry colname="col2">Random (Gaussian pdf) <inline-formula><mml:math id="M154" display="inline"><mml:mo>+</mml:mo></mml:math></inline-formula> Systematic</oasis:entry>
         <oasis:entry colname="col3">Random: 2 K from the ground to 2 km and 1 K above 2 km altitude, with correlation length increasing from 2 km at the ground to 10 km in the stratosphere; systematic: 2 K from the ground to 2 km, and 1 K for 2–5 km, 5–10 km, and 10 km–TOA</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Water vapour continuum</oasis:entry>
         <oasis:entry colname="col2">Systematic</oasis:entry>
         <oasis:entry colname="col3">10 % of model MT_CKD v2.5.2</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Line intensity <inline-formula><mml:math id="M155" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M156" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">HDO</mml:mi></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">Systematic</oasis:entry>
         <oasis:entry colname="col3">5 %</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Pressure-broadening <inline-formula><mml:math id="M157" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M158" display="inline"><mml:mrow class="chem"><mml:mi mathvariant="normal">HDO</mml:mi></mml:mrow></mml:math></inline-formula></oasis:entry>
         <oasis:entry colname="col2">Systematic</oasis:entry>
         <oasis:entry colname="col3">5 %</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Opaque cumulus cloud</oasis:entry>
         <oasis:entry colname="col2">Systematic sign, but ran-<?xmltex \hack{\hfill\break}?>dom amplitude (unknown<?xmltex \hack{\hfill\break}?>pdf)</oasis:entry>
         <oasis:entry colname="col3">10 % fractional cover with cloud top at 1.3, 3.0, and 4.9 km</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Cirrus cloud</oasis:entry>
         <oasis:entry colname="col2">Systematic sign, but ran-<?xmltex \hack{\hfill\break}?>dom amplitude (unknown<?xmltex \hack{\hfill\break}?>pdf)</oasis:entry>
         <oasis:entry colname="col3">Particle properties according to OPAC Cirrus 3, 1 km thickness, 50 % fractional cover with cloud top at 6, 8, 11, and 14 km</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Mineral dust cloud</oasis:entry>
         <oasis:entry colname="col2">Systematic sign, but ran-<?xmltex \hack{\hfill\break}?>dom amplitude (unknown<?xmltex \hack{\hfill\break}?>pdf)</oasis:entry>
         <oasis:entry colname="col3">Particle properties according to OPAC Desert, homogeneous coverage for layers: ground–2 km, 2–4 km, and 4–6 km</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p id="d1e3314">Table <xref ref-type="table" rid="Ch1.T2"/> gives an overview of the uncertainty
assumptions <inline-formula><mml:math id="M159" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi></mml:mrow></mml:math></inline-formula> used for calculating the Jacobians and
for performing the error estimation. The calculations of the error
Jacobians for water vapour continuum and clouds require specific
treatment, which is detailed in the following two subsections.</p>
<sec id="Ch1.S4.SS2.SSS1">
  <title>Water vapour continuum</title>
      <p id="d1e3334">We assume that calculations based on the model
MT_CKD v2.5.2 <xref ref-type="bibr" rid="bib1.bibx19 bib1.bibx6 bib1.bibx20" id="paren.46"/>
only partly capture the full water vapour continuum effect. For the
respective Jacobian calculation, we perform forward calculations without
considering the water vapour continuum
(<inline-formula><mml:math id="M160" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>). Then we calculate the
Jacobian matrix as <inline-formula><mml:math id="M161" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>.
The spectral response for an underestimation of 10 % of the water vapour continuum effect is then <inline-formula><mml:math id="M162" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>,
with <inline-formula><mml:math id="M163" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">noWVC</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.1</mml:mn></mml:mrow></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S4.SS2.SSS2">
  <title>Opaque clouds (cumulus)</title>
      <p id="d1e3455">We estimate the influence of fractional coverage by opaque liquid
cumulus clouds with different cloud top altitudes (1.3, 3.0, and 4.9 km).
The radiance at the top of the cloudy atmosphere <inline-formula><mml:math id="M164" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> is calculated by starting PRFFWD
at the cloud's top height, assuring that no radiation from below the
cloud contributes to <inline-formula><mml:math id="M165" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>. Additionally it is assumed
that the surface emissivity of the cloud is 1.0 and that the skin
temperature of the cloud's upward-looking surface is in thermal
equilibrium with the surrounding air temperature. The Jacobian matrix for opaque cumulus clouds is then
<inline-formula><mml:math id="M166" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, and the spectral
response of a 10 % fractional cloud cover is <inline-formula><mml:math id="M167" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>,
with <inline-formula><mml:math id="M168" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">cum</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.1</mml:mn></mml:mrow></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S4.SS2.SSS3">
  <title>Transmitting clouds (mineral dust and cirrus)</title>
      <p id="d1e3596">Some clouds are not opaque and we have to consider partial attenuation
by the cloud particles. This is the case for cirrus clouds and mineral
dust clouds. We consider these clouds by introducing them as an additional
species in the forward model calculations.
The extinction of these clouds is the sum of absorption and scattering.
Since PRFFWD does not include the simulation of scattering clouds,
we calculate the attenuated radiances using forward model calculations
from KOPRA (Karlsruhe Optimized and Precise Radiative transfer Algorithm;
<xref ref-type="bibr" rid="bib1.bibx34" id="altparen.47"/>) and consider single scattering.</p>
      <p id="d1e3602">The frequency dependency of the extinction cross sections,
the single scattering albedo, and the scattering phase functions of the
clouds are calculated from OPAC v4.0b
<xref ref-type="bibr" rid="bib1.bibx14 bib1.bibx16" id="paren.48"><named-content content-type="pre">Optical Properties of Aerosol and Clouds;</named-content></xref>.
For cirrus clouds we assume the particle composition as given by OPAC's
“Cirrus 3” ice cloud example <xref ref-type="bibr" rid="bib1.bibx14" id="paren.49"><named-content content-type="pre">see Table 1b in</named-content></xref>
and for mineral dust clouds a particle composition according to
OPAC's “Desert” aerosol composition example
<xref ref-type="bibr" rid="bib1.bibx14" id="paren.50"><named-content content-type="pre">see table Table 4 in</named-content></xref>.</p>
      <p id="d1e3620">We conduct cirrus cloud forward calculations <inline-formula><mml:math id="M169" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> considering
cirrus clouds with a vertical cloud layer thickness of 1 km and the cloud top at different altitudes ranging
from 6 to 14 km. The Jacobians are calculated as <inline-formula><mml:math id="M170" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>
and for a cloud coverage of 50 %, the spectral response is <inline-formula><mml:math id="M171" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>, with <inline-formula><mml:math id="M172" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:msub><mml:mi>b</mml:mi><mml:mi mathvariant="normal">cir</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5</mml:mn></mml:mrow></mml:math></inline-formula>.</p>
      <p id="d1e3718">For the dust clouds we conduct forward calculations <inline-formula><mml:math id="M173" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">dust</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
for homogeneous 2 km thick layers between the ground and
6 km altitude. The Jacobians are then given as
<inline-formula><mml:math id="M174" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi mathvariant="normal">dust</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mi mathvariant="normal">dust</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi mathvariant="bold-italic">F</mml:mi><mml:mo>(</mml:mo><mml:mover accent="true"><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="bold-italic">b</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6" specific-use="star"><caption><p id="d1e3784">Spectral responses of uncertainty sources for
a typical situation at Manus Island (same situation as for the kernel in
Fig. <xref ref-type="fig" rid="Ch1.F3"/>). Panel <bold>(a)</bold> shows examples of the influence of
uncertainties of temperatures (surface skin <inline-formula><mml:math id="M175" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi><mml:mo>=</mml:mo><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> K, lower
tropospheric <inline-formula><mml:math id="M176" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi><mml:mo>=</mml:mo><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> K, and upper tropospheric
<inline-formula><mml:math id="M177" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi><mml:mo>=</mml:mo><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> K). Panel <bold>(b)</bold> illustrates
examples of the influence of clouds (dust layer (4–6 km) and
cirrus cloud (13–14 km and 50 % cloud fraction)) on the spectrum.
Note the different <inline-formula><mml:math id="M178" display="inline"><mml:mi>y</mml:mi></mml:math></inline-formula>-axis scales, i.e. the positive response for
positive temperature uncertainties and the negative response for
unrecognized clouds.</p></caption>
            <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f06.pdf"/>

          </fig>

</sec>
</sec>
<sec id="Ch1.S4.SS3">
  <title>Spectral response to uncertainty</title>
      <p id="d1e3864">Figure <xref ref-type="fig" rid="Ch1.F6"/> depicts the spectral responses
(i.e. <inline-formula><mml:math id="M179" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>b</mml:mi></mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>b</mml:mi></mml:mrow></mml:math></inline-formula>) for an example of different
uncertainty sources for a typical situation at the tropical reference
site. The left panel shows that lower tropospheric temperature
uncertainties mainly affect the spectra between 1190 and 1250 cm<inline-formula><mml:math id="M180" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> (which is also the
spectral region of an “atmospheric window”), but are negligible for higher
wavenumbers. This is in contrast to upper tropospheric temperature
uncertainties, which have the highest spectral responses for wavenumbers
larger than 1250 cm<inline-formula><mml:math id="M181" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.</p>
      <?pagebreak page4989?><p id="d1e3908">The right panel of Fig. <xref ref-type="fig" rid="Ch1.F6"/> illustrates that uncertainties
in dust layers and uncertainties due to cirrus clouds have the highest impact
at the lower end of wavenumbers and that a cirrus cloud has a different dependency
on wavenumber than a dust layer. Furthermore unrecognized clouds have the
opposite effect on the spectrum than increasing the atmospheric temperatures although affecting the spectrum in the
same order of magnitude.</p>
</sec>
<?pagebreak page4990?><sec id="Ch1.S4.SS4">
  <title>Estimated errors</title>
      <p id="d1e3919">Figure <xref ref-type="fig" rid="Ch1.F4"/> shows a certain seasonal variability in the DOFS
values (in particular at the mid-latitude site), indicating varying
sensitivities of the remote sensing system. This variation is also present
in the sensitivity with respect to uncertainty sources. For this reason
we present the estimated errors for all the Manus Island and Sodankylä
retrievals (MI and SK07) and for all the Lindenberg 2008 retrievals (LI08). The Lindenberg 2008
error estimations are representative of all seasons; hence they cover the
full sensitivity variation with respect to uncertainty sources well.</p>
      <p id="d1e3924">Table <xref ref-type="table" rid="Ch1.T2"/> gives on overview of the different uncertainty sources we consider for our error estimation.
We distinguish between random uncertainty sources (the uncertainty affecting an observation is uncorrelated with the uncertainty
affecting another observation), systematic uncertainty sources (the uncertainty is the same for all observations), and uncertainty
sources that are always positive but with a random amplitude (clouds: the sky is either cloud-free or covered by a random amount of cloud).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7" specific-use="star"><caption><p id="d1e3931"><inline-formula><mml:math id="M182" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> error profiles derived from the random uncertainty sources: instrument
noise, emissivity, and atmospheric temperatures. The square root values of the diagonal of the matrices
<inline-formula><mml:math id="M183" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> (for instrument noise) and <inline-formula><mml:math id="M184" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="normal">b</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> (for emissivity
and atmospheric temperatures) are shown according to Eqs. (<xref ref-type="disp-formula" rid="Ch1.E9"/>) and (<xref ref-type="disp-formula" rid="Ch1.E8"/>), respectively. The data are
depicted for all members of the MI, LI08, and SK07 ensembles.</p></caption>
          <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f07.pdf"/>

        </fig>

<sec id="Ch1.S4.SS4.SSS1">
  <title>Errors caused by random uncertainty sources</title>
      <p id="d1e3999">From the top to the bottom, Fig. <xref ref-type="fig" rid="Ch1.F7"/> depicts the <inline-formula><mml:math id="M185" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> error profiles due to the random uncertainties
instrumental noise, emissivity, and atmospheric temperatures
(from the left to the right for Manus Island,
Lindenberg, and Sodankylä). The error profiles shown are the square
root of the diagonal elements of the error covariance matrix <inline-formula><mml:math id="M186" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula>
calculated for the instrumental noise according to Eq. (<xref ref-type="disp-formula" rid="Ch1.E9"/>) and of the error covariance matrix <inline-formula><mml:math id="M187" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi>b</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula>
calculated for emissivity and atmospheric temperature according to Eq. (<xref ref-type="disp-formula" rid="Ch1.E8"/>).</p>
      <p id="d1e4060">For the calculations of <inline-formula><mml:math id="M188" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> we
assume a noise covariance <inline-formula><mml:math id="M189" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi>y</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="normal">noise</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> of the IASI radiances according
to <xref ref-type="bibr" rid="bib1.bibx21" id="normal.51"/>. The measurement noise errors vary around 2 %–10 % near the ground, but
decrease to approximately 2 %–3 % above the boundary layer and remain there
throughout the free troposphere. Close to the tropopause, errors
increase again to values of around 10 %. For Manus Island we observe
similar errors for all the different observations. For Sodankylä
and in particular for Lindenberg, the errors vary. For instance, in the
lower troposphere at Lindenberg the error is 10 % for some days, but
only 1 %–3 % for other days. The varying sensitivity with respect to the
uncertainty sources is due to the varying atmospheric conditions
and is in agreement with the varying DOFS values as documented by
Fig. <xref ref-type="fig" rid="Ch1.F4"/> (the Lindenberg data cover all mid-latitude seasons).</p>
      <p id="d1e4103">For calculating the error covariances <inline-formula><mml:math id="M190" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi>b</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> due to surface emissivity uncertainties, we assume a 1 %
emissivity uncertainty and a spectral correlation length of this uncertainty of 100 cm<inline-formula><mml:math id="M191" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>. The resulting errors are highest
close to the ground and for the continental sites of Lindenberg and Sodankylä, where they can reach 30 %. Above 5 km altitude
these errors are generally below 2 %.</p>
      <p id="d1e4137">For calculating the error covariances <inline-formula><mml:math id="M192" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>,</mml:mo><mml:mi>b</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> due to atmospheric temperatures uncertainties, we assume 2 K
uncertainty from the ground to 2 km and 1 K uncertainty above 2 km altitude, with correlation lengths increasing from 2 km at the ground to 10 km in the stratosphere. The errors are typically 10 %–15 %, but can occasionally reach 25 %.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F8" specific-use="star"><caption><p id="d1e4162"><inline-formula><mml:math id="M193" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> error profiles derived from the systematic uncertainty sources:
emissivity (<inline-formula><mml:math id="M194" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % in two different wavenumber regions), atmospheric temperatures (2 K between surface and
2 km a.s.l. and 1 K in the other layers), and spectroscopy (line strength, <inline-formula><mml:math id="M195" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> %, and pressure-broadening,
<inline-formula><mml:math id="M196" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> %) and the water vapour continuum (assuming a 10 % underestimation of
the MT_CKD model). The errors in the atmospheric state vector <inline-formula><mml:math id="M197" display="inline"><mml:mrow><mml:mi mathvariant="bold">Δ</mml:mi><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:mrow></mml:math></inline-formula> are shown according to Eq. (<xref ref-type="disp-formula" rid="Ch1.E7"/>). The data are depicted for all members of the MI, LI08, and SK07 ensembles.</p></caption>
            <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f08.pdf"/>

          </fig>

</sec>
<sec id="Ch1.S4.SS4.SSS2">
  <title>Errors caused by systematic uncertainty sources</title>
      <p id="d1e4235">From the top to the bottom, Fig. <xref ref-type="fig" rid="Ch1.F8"/> shows the <inline-formula><mml:math id="M198" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> error profiles due to systematic uncertainties in surface
emissivity, atmospheric temperature, and spectroscopic parameters. The error profiles are calculated as <inline-formula><mml:math id="M199" display="inline"><mml:mrow><mml:mi mathvariant="bold">Δ</mml:mi><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:mrow></mml:math></inline-formula> according
to Eq. (<xref ref-type="disp-formula" rid="Ch1.E7"/>).</p>
      <p id="d1e4268">We assume two patterns of surface emissivity uncertainty. The first pattern means a <inline-formula><mml:math id="M200" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % uncertainty at the spectral grid points
1185 and 1240 cm<inline-formula><mml:math id="M201" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> and <inline-formula><mml:math id="M202" display="inline"><mml:mn mathvariant="normal">0</mml:mn></mml:math></inline-formula> % uncertainty at the grid points 1295, 1350, and 1405 cm<inline-formula><mml:math id="M203" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>
(this means that between 1240 and 1295 cm<inline-formula><mml:math id="M204" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> the uncertainty is linearly changing from <inline-formula><mml:math id="M205" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % to 0 %). The second
pattern means a <inline-formula><mml:math id="M206" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % uncertainty at the spectral grid points 1405 and 1350 cm<inline-formula><mml:math id="M207" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> and 0 % for the rest (with a
linear change <inline-formula><mml:math id="M208" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % to 0 % between 1350 and 1295 cm<inline-formula><mml:math id="M209" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>).
The top row of panels in Fig. <xref ref-type="fig" rid="Ch1.F8"/> shows that surface emissivity uncertainties are mainly important for the wavenumber
region below 1300 cm<inline-formula><mml:math id="M210" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> (the first uncertainty pattern). An emissivity uncertainty of <inline-formula><mml:math id="M211" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % has a rather uniform response at
Manus Island: a positive error of up to 5 % close to the ground and a weak negative error around 3 km altitude. At the continental
sites of Lindenberg and Sodankylä the response to a systematic <inline-formula><mml:math id="M212" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % emissivity uncertainty can be positive or negative close
to the ground (it varies between about <inline-formula><mml:math id="M213" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">25</mml:mn></mml:mrow></mml:math></inline-formula> % and <inline-formula><mml:math id="M214" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> %). Around 3 km the error response is generally negative and between <inline-formula><mml:math id="M215" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> % and <inline-formula><mml:math id="M216" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> %.</p>
      <p id="d1e4453">Positive atmospheric temperature uncertainties cause large
positive errors in the retrieved tropospheric <inline-formula><mml:math id="M217" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles (we assume a systematic uncertainty of <inline-formula><mml:math id="M218" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> K up to 2 km
altitude and <inline-formula><mml:math id="M219" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> K at higher altitudes). The errors can reach <inline-formula><mml:math id="M220" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula> %, whereby these errors are largest for the atmospheric
layers where the atmospheric temperature
uncertainty is assumed. For instance, uncertainties in lower
tropospheric temperature (ground–2 km, black lines) cause maximal
errors from the ground up to 3 km and decrease rapidly with
altitude upwards, whereas uncertainties in upper
tropospheric temperature (5–10 km, green lines) are negligible from
the ground up to 6 km, but then increase to values of around <inline-formula><mml:math id="M221" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> % at
8 km.</p>
      <?pagebreak page4991?><p id="d1e4509">Concerning spectroscopic parameters, we consider systematic uncertainties
in the <inline-formula><mml:math id="M222" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> line intensity and pressure-broadening parameters and an
uncertainty in the applied water continuum model. The uncertainty in the water vapour continuum model causes error profiles
with small oscillations. For a water continuum model that underestimates
the water continuum effect by 10 % (see Sect. <xref ref-type="sec" rid="Ch1.S4.SS2.SSS1"/>), the error
is positive near the ground (about <inline-formula><mml:math id="M223" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:math></inline-formula> %), negative at around 3 km altitude
(about <inline-formula><mml:math id="M224" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">4</mml:mn></mml:mrow></mml:math></inline-formula> %), and negligible for altitudes above 5 km. A positive uncertainty of <inline-formula><mml:math id="M225" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> % in the water vapour (<inline-formula><mml:math id="M226" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO)
line strength parameter causes a
negative error of about <inline-formula><mml:math id="M227" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> % in the retrieved <inline-formula><mml:math id="M228" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> values. The impact of
<inline-formula><mml:math id="M229" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">5</mml:mn></mml:mrow></mml:math></inline-formula> % uncertainties in the pressure-broadening parameter depends on
the reference site: at Manus Island the resulting errors are negligible
above 3 km, but at Lindenberg and Sodankylä the error profiles
contain strong oscillations with maximal error of about <inline-formula><mml:math id="M230" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> % above 10 km altitude.</p>
      <p id="d1e4615">This behaviour of the errors due to uncertainties in the line shape modelling might be explained as follows:
most of the thermal nadir spectra's information about the vertical <inline-formula><mml:math id="M231" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> distribution is a consequence of the vertical atmospheric gradients of temperature
and humidity. Without these gradients the spectral emission from a lower atmospheric layer is widely cancelled out by the absorption at
a higher layer. The gradients are generally strong up to the tropopause; i.e. up to the tropopause the remote sensing system's
sensitivity is widely determined by these gradients. At Manus Island the tropopause is generally above 15 km, whereas at
Lindenberg and Sodankylä it can be at much lower altitudes. This can be observed in Fig. <xref ref-type="fig" rid="Ch1.F2"/>, which
indicates a decrease of <inline-formula><mml:math id="M232" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> concentration up to 16 km above Manus Island, but only up to<?pagebreak page4992?> about 13 and 12 km above
Lindenberg and Sodankylä, respectively. Due to the weaker gradients above Lindenberg and Sodankylä and the
relatively good spectral resolution of the IASI spectra, the line shapes do also provide information on the vertical
distribution of <inline-formula><mml:math id="M233" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>. This is due to the pressure-broadening effect; i.e. the broadness of the line decreases with
decreasing pressure. As a consequence, the <inline-formula><mml:math id="M234" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles retrieved at Lindenberg and Sodankylä are much more
affected by uncertainties in the line shape modelling than the profiles retrieved at Manus Island.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F9" specific-use="star"><caption><p id="d1e4674">Same as Fig. <xref ref-type="fig" rid="Ch1.F8"/>, but for errors
due to unrecognized clouds: cirrus (50 % fractional coverage; for the location of cloud layers, see legend),
cumulus (10 % fractional coverage with cloud top altitudes as
given in the legend), and mineral dust (homogeneous dust clouds layers as give in the legend and with
the composition according to OPAC “Desert”).</p></caption>
            <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f09.pdf"/>

          </fig>

</sec>
<sec id="Ch1.S4.SS4.SSS3">
  <title>Errors due to unrecognized clouds</title>
      <p id="d1e4691">Figure <xref ref-type="fig" rid="Ch1.F9"/> shows the influence of different cloud types
on the errors. Uncertainties due to unrecognized cirrus clouds (top row in
Fig. <xref ref-type="fig" rid="Ch1.F9"/>) lead to errors of <inline-formula><mml:math id="M235" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> % from 3 to 6 km at
all sites and then decrease with altitude. However their impact on the
water vapour volume mixing ratio (WVMR) profiles in the boundary layer shows large variation,
especially at Lindenberg and Sodankylä, which is a result of
the more variable<?pagebreak page4993?> atmospheric conditions at these sites (compared
to the tropical site of Manus Island).</p>
      <p id="d1e4708">The influence of a <inline-formula><mml:math id="M236" display="inline"><mml:mn mathvariant="normal">10</mml:mn></mml:math></inline-formula> % fractional cloud cover of opaque clouds
depends on the height at which the clouds are assumed (middle row in
Fig. <xref ref-type="fig" rid="Ch1.F9"/>): clouds at 1.3 km only show a small impact on
the humidity profiles in the boundary layer, with error magnitudes of
5 %–10 %, but clouds at 3.0 km account for errors of more than 10 %
up to 5 km above mean sea level. Yet similarly to cirrus clouds,
their effect in the boundary layer shows large variation at Lindenberg
and Sodankylä.</p>
      <p id="d1e4720">The error profiles due to mineral dust layers (bottom row in
Fig. <xref ref-type="fig" rid="Ch1.F9"/>) show that such layers have almost no impact
if they are situated in the boundary layer; however if they are situated
in the middle troposphere the errors are more than
10 %. The effect of dust clouds is particularly large for the
mid-latitude site of Lindenberg, where we also observe the largest
variability in the calculated error profiles.</p>
</sec>
</sec>
</sec>
<?pagebreak page4994?><sec id="Ch1.S5">
  <title>Comparison of GRUAN and IASI data</title>
      <p id="d1e4734">We use GRUAN-processed Vaisala RS92 radiosonde measurements as a reference
for empirically validating the retrieved MUSICA IASI <inline-formula><mml:math id="M237" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles. The
radiosonde ascents are collocated temporally and spatially with MetOp
overpasses (for details see Sect. <xref ref-type="sec" rid="Ch1.S3"/>),
which is essential for a meaningful comparison.</p>
<sec id="Ch1.S5.SS1">
  <title>Regridding and smoothing of the high-resolution GRUAN in situ profiles</title>
      <p id="d1e4757">The in situ profiles have a high vertical resolution. This differs from the
remote sensing profiles, which can only detect the
major characteristics of the vertical <inline-formula><mml:math id="M238" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> distribution. Before
comparing the data we have to account for these different
characteristics by regridding and smoothing the in situ profiles.</p>
      <p id="d1e4773">While the remote sensing retrieval provides atmospheric states and
averaging kernels on a coarse atmospheric grid (between ground level
and about 55 km a.s.l., 28 grid points are defined), the radiosonde
reports data about every 5 m. Therefore, we have to regrid the
radiosonde data to the coarse vertical grid used by the remote sensing
retrieval. In order to guarantee that the regridding
does not significantly affect the <inline-formula><mml:math id="M239" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> partial columns, the
regridding is performed in two steps.</p>
      <p id="d1e4789">First, the radiosonde data points between the 28 MUSICA retrieval
grid points are averaged by using a triangle inverse-distance-weighted function resulting in a first estimate of the regridded
radiosonde data. In the second step this first estimate is corrected by
requiring that the partial columns between adjacent grid levels remain
almost the same in the original high-resolution data and in the regridded
data. In the correction process a constraint is put on the smoothness of the
profile, thereby preventing the correction from producing strongly
oscillating profiles. The results are regridded data consisting of
reasonably smooth profiles with practically the same partial columns as
the original high-resolved radiosonde profiles. For the high altitudes that are not detected by the GRUAN radiosonde, we use
the retrievals' a priori data (<inline-formula><mml:math id="M240" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>).</p>
      <p id="d1e4803">The regridded GRUAN in situ profiles <inline-formula><mml:math id="M241" display="inline"><mml:mi mathvariant="bold-italic">g</mml:mi></mml:math></inline-formula> may be smoothed
according to the averaging kernels of the remote sensing retrieval. The
regridded and smoothed GRUAN in situ profile <inline-formula><mml:math id="M242" display="inline"><mml:mover accent="true"><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:math></inline-formula>
is then comparable to the remote sensing profile, whereby

                <disp-formula id="Ch1.E13" content-type="numbered"><mml:math id="M243" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mover accent="true"><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mo>=</mml:mo><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub><mml:mo>)</mml:mo><mml:mo>(</mml:mo><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>)</mml:mo><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          Here <inline-formula><mml:math id="M244" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> is the <inline-formula><mml:math id="M245" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> block of the averaging kernel
matrix, <inline-formula><mml:math id="M246" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> the block that describes the response of
the retrieved <inline-formula><mml:math id="M247" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> to atmospheric HDO (see
Sect. <xref ref-type="sec" rid="Ch1.S2.SS3"/>), and the vector <inline-formula><mml:math id="M248" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">x</mml:mi><mml:mi mathvariant="normal">a</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
is the a priori state vector. An example illustrating the
effects of the regridding and the smoothing is given in
Fig. <xref ref-type="fig" rid="Ch1.F10"/>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F10"><caption><p id="d1e4943"> Example of the regridding and
smoothing of the GRUAN data required before validating the MUSICA IASI retrieval of <inline-formula><mml:math id="M249" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles. Black line: raw GRUAN
data. Red line: regridded GRUAN data (<inline-formula><mml:math id="M250" display="inline"><mml:mi mathvariant="bold-italic">g</mml:mi></mml:math></inline-formula>). Green line:
regridded and smoothed radiosonde data (<inline-formula><mml:math id="M251" display="inline"><mml:mover accent="true"><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:math></inline-formula>,
according to Eq. <xref ref-type="disp-formula" rid="Ch1.E13"/>).</p></caption>
          <?xmltex \igopts{width=241.848425pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f10.pdf"/>

        </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F11" specific-use="star"><caption><p id="d1e4986">Vertical profiles of retrieval
skill scores calculated according to Eqs. (<xref ref-type="disp-formula" rid="Ch1.E16"/>)–(<xref ref-type="disp-formula" rid="Ch1.E19"/>) for the MI and LI08 ensembles.
The black line and error bars represent the mean difference and the <inline-formula><mml:math id="M252" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> scatter between IASI and smoothed
GRUAN data (MDL and <inline-formula><mml:math id="M253" display="inline"><mml:mrow><mml:mo>±</mml:mo><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>). The red shaded area around MDL is the <inline-formula><mml:math id="M254" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> scatter expected
due to MUSICA IASI and GRUAN errors (<inline-formula><mml:math id="M255" display="inline"><mml:mrow><mml:mo>±</mml:mo><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>).
The grey shaded area represents the area beyond the <inline-formula><mml:math id="M256" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> variability
of smoothed GRUAN data (area beyond <inline-formula><mml:math id="M257" display="inline"><mml:mrow><mml:mo>±</mml:mo><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula>).</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f11.png"/>

        </fig>

      <p id="d1e5072">We would like to note that by using Eq. (<xref ref-type="disp-formula" rid="Ch1.E13"/>)
we assume that <inline-formula><mml:math id="M258" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO variations are fully correlated.
However, <inline-formula><mml:math id="M259" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> and HDO do not vary fully in parallel;
i.e. calculating <inline-formula><mml:math id="M260" display="inline"><mml:mover accent="true"><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:math></inline-formula> according to
Eq. (<xref ref-type="disp-formula" rid="Ch1.E13"/>) implies an uncertainty
that can be estimated by the uncertainty covariance matrix
<inline-formula><mml:math id="M261" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula> according to
<xref ref-type="bibr" rid="bib1.bibx2" id="paren.52"><named-content content-type="pre">see also Sect. 4.3 of</named-content></xref>

                <disp-formula id="Ch1.E14" content-type="numbered"><mml:math id="M262" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:msub><mml:mo>=</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi mathvariant="normal">a</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="italic">δ</mml:mi><mml:mi mathvariant="normal">D</mml:mi></mml:mrow></mml:msub><mml:msubsup><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn><mml:mi>T</mml:mi></mml:msubsup><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          Here <inline-formula><mml:math id="M263" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi mathvariant="normal">a</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="italic">δ</mml:mi><mml:mi mathvariant="normal">D</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> describes the actual
atmospheric <inline-formula><mml:math id="M264" display="inline"><mml:mi mathvariant="italic">δ</mml:mi></mml:math></inline-formula>D covariances. Because <inline-formula><mml:math id="M265" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>
and <inline-formula><mml:math id="M266" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mrow><mml:mi mathvariant="normal">a</mml:mi><mml:mo>,</mml:mo><mml:mi mathvariant="italic">δ</mml:mi><mml:mi mathvariant="normal">D</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> only have small entries,
this uncertainty is below 1 % and can be neglected for our comparison.</p>
</sec>
<sec id="Ch1.S5.SS2">
  <title>Metric for quantifying data agreement</title>
      <p id="d1e5239">For a better statistical quantification of the deviations of the remote
sensing data from the GRUAN reference data, we introduce a skill score, DL,
describing the difference of the logarithmic values of the respective
water vapour concentrations. Because <inline-formula><mml:math id="M267" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">ln</mml:mi><mml:mo>(</mml:mo><mml:mi>x</mml:mi><mml:mo>)</mml:mo><mml:mo>≈</mml:mo><mml:mstyle displaystyle="false"><mml:mfrac style="text"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi></mml:mrow><mml:mi>x</mml:mi></mml:mfrac></mml:mstyle></mml:mrow></mml:math></inline-formula>, we interpret the logarithmic-scale difference
between IASI and GRUAN as the relative difference (and use the GRUAN data in the denominator). DL then becomes</p>
      <p id="d1e5269"><disp-formula specific-use="align" content-type="numbered"><mml:math id="M268" display="block"><mml:mtable displaystyle="true"><mml:mtr><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mi mathvariant="normal">DL</mml:mi></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>=</mml:mo><mml:mi>ln⁡</mml:mi><mml:mfenced open="(" close=")"><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">retrieval</mml:mi></mml:msub></mml:mrow></mml:mfenced><mml:mo>-</mml:mo><mml:mi>ln⁡</mml:mi><mml:mfenced open="(" close=")"><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfenced></mml:mrow></mml:mtd></mml:mtr><mml:mlabeledtr id="Ch1.E15"><mml:mtd/><mml:mtd><mml:mstyle displaystyle="true" class="stylechange"/></mml:mtd><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mo>≈</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msub><mml:mfenced open="[" close="]"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">retrieval</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow><mml:mrow><mml:msub><mml:mfenced open="[" close="]"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula>

            where <inline-formula><mml:math id="M269" display="inline"><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the regridded and smoothed
radiosonde <inline-formula><mml:math id="M270" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> data (i.e. <inline-formula><mml:math id="M271" display="inline"><mml:mover accent="true"><mml:mi mathvariant="bold-italic">g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:math></inline-formula> from
Eq. <xref ref-type="disp-formula" rid="Ch1.E13"/>), and
<inline-formula><mml:math id="M272" display="inline"><mml:mrow><mml:msub><mml:mfenced open="[" close="]"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">retrieval</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the
retrieved IASI <inline-formula><mml:math id="M273" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> data. The skill score DL defined in this way is a
good measure for the relative difference between the GRUAN and IASI data.</p>
      <?pagebreak page4995?><p id="d1e5450">As a good measure for the mean relative difference between GRUAN and IASI,
we can use the mean difference of logarithmic values (MDL):

                <disp-formula specific-use="align" content-type="numbered"><mml:math id="M274" display="block"><mml:mtable displaystyle="true"><mml:mtr><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mi mathvariant="normal">MDL</mml:mi></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:msub><mml:mi mathvariant="normal">DL</mml:mi><mml:mi>i</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:mfenced open="[" close=""><mml:mrow><mml:mi>ln⁡</mml:mi><mml:mfenced close=")" open="("><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">retrieval</mml:mi></mml:msub></mml:mrow></mml:mfenced></mml:mrow></mml:mfenced></mml:mrow></mml:mtd></mml:mtr><mml:mtr><mml:mtd><mml:mstyle class="stylechange" displaystyle="true"/></mml:mtd><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msub><mml:mfenced open="." close="]"><mml:mrow><mml:mo>-</mml:mo><mml:mi>ln⁡</mml:mi><mml:mfenced close=")" open="("><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfenced></mml:mrow></mml:mfenced><mml:mi>i</mml:mi></mml:msub></mml:mrow></mml:mtd></mml:mtr><mml:mlabeledtr id="Ch1.E16"><mml:mtd/><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mspace linebreak="nobreak" width="1em"/></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mo>≈</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:msub><mml:mfenced open="(" close=")"><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">retrieval</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle></mml:mfenced><mml:mi>i</mml:mi></mml:msub><mml:mo>.</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula></p>
      <p id="d1e5636">Similarly, we can use the standard deviation of the logarithmic
differences as a measure for the relative scatter between GRUAN
and IASI, and introduce <inline-formula><mml:math id="M275" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> as

                <disp-formula id="Ch1.E17" content-type="numbered"><mml:math id="M276" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msqrt><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:msup><mml:mfenced open="(" close=")"><mml:mrow><mml:msub><mml:mi mathvariant="normal">DL</mml:mi><mml:mi>i</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:mi mathvariant="normal">MDL</mml:mi></mml:mrow></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:msqrt><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          For illustrating the variation of the atmospheric state, we
introduce <inline-formula><mml:math id="M277" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula> as

                <disp-formula id="Ch1.E18" content-type="numbered"><mml:math id="M278" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><?xmltex \hack{\hbox\bgroup\fontsize{9.5}{9.5}\selectfont$\displaystyle}?><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:msub><mml:mo>=</mml:mo><mml:msqrt><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:msup><mml:mfenced close="]" open="["><mml:mrow><mml:mi>ln⁡</mml:mi><mml:msub><mml:mfenced open="(" close=")"><mml:mrow><mml:msub><mml:mfenced open="[" close="]"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfenced><mml:mi>i</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:mover accent="true"><mml:mrow><mml:mi>ln⁡</mml:mi><mml:mfenced open="(" close=")"><mml:mrow><mml:msub><mml:mfenced close="]" open="["><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:mfenced><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:mfenced></mml:mrow><mml:mo mathvariant="normal">‾</mml:mo></mml:mover></mml:mrow></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:msqrt><mml:mo>.</mml:mo><?xmltex \hack{$\egroup}?></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e5801">We want to document to what extent the differences between GRUAN and MUSICA IASI data can be explained by the estimated errors. In
Sect. <xref ref-type="sec" rid="Ch1.S4"/> we estimate the error in the MUSICA IASI <inline-formula><mml:math id="M279" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles in detail for three different climate zones. Uncertainties in the GRUAN <inline-formula><mml:math id="M280" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles also have to be considered. In general the uncertainty of the GRUAN data increases with
altitude. For the regridded and smoothed GRUAN profiles, <inline-formula><mml:math id="M281" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:mrow></mml:math></inline-formula> is about 3 %–5 % near the surface and 5 %–20 % at around 10 km
altitude. For further details on the radiosonde uncertainty, we refer the reader to
Appendix <xref ref-type="sec" rid="App1.Ch1.S1"/>. If we assume that the MUSICA IASI and the GRUAN errors are uncorrelated random errors, we can
calculate the <inline-formula><mml:math id="M282" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> scatter of DL around MDL as expected from the MUSICA IASI and GRUAN errors by

                <disp-formula id="Ch1.E19" content-type="numbered"><mml:math id="M283" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msqrt><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mi>N</mml:mi></mml:mfrac></mml:mstyle><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>i</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mi>N</mml:mi></mml:munderover><mml:mfenced close=")" open="("><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:msubsup><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mi>i</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup><mml:mo>+</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:msubsup><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mi>i</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow></mml:mfenced></mml:mrow></mml:msqrt><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          Here the index <inline-formula><mml:math id="M284" display="inline"><mml:mi>i</mml:mi></mml:math></inline-formula> stands for an individual observation and <inline-formula><mml:math id="M285" display="inline"><mml:mi>N</mml:mi></mml:math></inline-formula> is the number of all observations.</p>
</sec>
<sec id="Ch1.S5.SS3">
  <title>Data agreement for individual ensembles</title>
      <p id="d1e5942">In this section we present the comparison between the regridded
and smoothed GRUAN <inline-formula><mml:math id="M286" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles and the IASI <inline-formula><mml:math id="M287" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
profiles using the metric as described in the previous subsection. The statistical quantifications are done individually for the four
different ensembles as given in Table <xref ref-type="table" rid="Ch1.T1"/>. The aim is to illustrate the remote sensing data quality
for the three different climate zones.</p>
<sec id="Ch1.S5.SS3.SSS1">
  <title>MUSICA IASI standard retrieval</title>
      <?pagebreak page4996?><p id="d1e5978">Figure <xref ref-type="fig" rid="Ch1.F11"/> depicts the vertical
distribution of the data agreement for the MI and LI08 ensembles. These
ensembles correspond to IASI measurements with available EUMETSAT L2 data, and
we can execute the standard MUSICA IASI retrieval, which uses the EUMETSAT L2
temperature data as the a priori atmospheric temperatures. For the MI
ensemble the MDL value (thick black line) oscillates between <inline-formula><mml:math id="M288" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">23</mml:mn></mml:mrow></mml:math></inline-formula> % and
<inline-formula><mml:math id="M289" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">7</mml:mn></mml:mrow></mml:math></inline-formula> % below 10 km altitude and is close to zero at higher altitudes. The
scatter <inline-formula><mml:math id="M290" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is indicated by the black error bars and it is
generally within 20 %, except for the altitudes around 12 km where it is
slightly higher. For the LI08 ensemble the MDL value oscillates between
<inline-formula><mml:math id="M291" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">20</mml:mn></mml:mrow></mml:math></inline-formula> % and <inline-formula><mml:math id="M292" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">16</mml:mn></mml:mrow></mml:math></inline-formula> % and the scatter <inline-formula><mml:math id="M293" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is up to 42 % below
5 km and about 15 % at higher altitudes. For both ensembles (MI and LI08)
the <inline-formula><mml:math id="M294" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values are significantly smaller than the 1<inline-formula><mml:math id="M295" display="inline"><mml:mi mathvariant="italic">σ</mml:mi></mml:math></inline-formula>
variation in the smoothed radiosonde data (<inline-formula><mml:math id="M296" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula>).</p>
      <p id="d1e6078">The red shaded area around the MDL value represents the <inline-formula><mml:math id="M297" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
values, i.e. the scatter in the MDL value we expect due to the errors in the
MUSICA IASI and GRUAN <inline-formula><mml:math id="M298" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> data. The <inline-formula><mml:math id="M299" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values are
calculated according to Eq. (<xref ref-type="disp-formula" rid="Ch1.E19"/>) by considering MUSICA IASI
random errors due to measurement noise, emissivity, and atmospheric
temperature (actually we work with the error estimations as depicted in
Fig. <xref ref-type="fig" rid="Ch1.F7"/>) and the GRUAN random errors as discussed in
Appendix <xref ref-type="sec" rid="App1.Ch1.S1"/> and presented in
Fig. <xref ref-type="fig" rid="App1.Ch1.F2"/>. For the MI ensemble, the
<inline-formula><mml:math id="M300" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M301" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> show similar amplitudes and
vertical behaviour, meaning that the expected and the observed scatter agree
reasonably well. For the LI08 ensemble <inline-formula><mml:math id="M302" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and
<inline-formula><mml:math id="M303" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> only agree well above 5 km altitude. At lower
altitudes the actually observed scatter is significantly larger than the
scatter expected from the estimated MUSICA IASI and GRUAN errors, which might
indicate an underestimation of the MUSICA IASI random errors at Lindenberg
below 5 km altitude.</p>
      <p id="d1e6169">The comparison suggests a weak dry bias in the MUSICA IASI data between 2 and
10 km at Manus Island and above 10 km at Lindenberg. The former could be
explained by errors in the simulated line intensities and the latter by
errors in the simulated line shapes (see discussion in the context of
Fig. <xref ref-type="fig" rid="Ch1.F8"/>). However, given the small number of ensemble
members, we should be careful and avoid premature conclusions.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F12" specific-use="star"><caption><p id="d1e6176">Same as Fig. <xref ref-type="fig" rid="Ch1.F11"/>, but for MUSICA IASI
retrievals that use the GRUAN temperature profiles as the a priori atmospheric temperatures and all four ensembles (MI, LI08, LI07, and SO).</p></caption>
            <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f12.png"/>

          </fig>

      <?xmltex \floatpos{p}?><fig id="Ch1.F13"><caption><p id="d1e6190">Same as Fig. <xref ref-type="fig" rid="Ch1.F12"/>, but considering all four ensembles as a single data set.</p></caption>
            <?xmltex \igopts{width=213.395669pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f13.png"/>

          </fig>

      <?xmltex \floatpos{t}?><fig id="Ch1.F14" specific-use="star"><caption><p id="d1e6203">Correlation between GRUAN (along <inline-formula><mml:math id="M304" display="inline"><mml:mi>x</mml:mi></mml:math></inline-formula> axes)
and MUSICA IASI data (along <inline-formula><mml:math id="M305" display="inline"><mml:mi>y</mml:mi></mml:math></inline-formula> axes) for the six different atmospheric altitudes
that are highlighted in Figs. <xref ref-type="fig" rid="Ch1.F3"/> and <xref ref-type="fig" rid="Ch1.F5"/>. All the presented data are
for MUSICA IASI retrievals that use the GRUAN temperature profiles as the a priori atmospheric temperatures. The retrieval altitudes are given in the
individual scatter plots, together with correlation coefficient (<inline-formula><mml:math id="M306" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula>), bias (b) and scatter (s).
Data belonging to the different ensembles can be identified by the symbols and colours as described in the legend (bottom right).
The yellow stars represent the a priori value (the retrieval uses the same a
priori <inline-formula><mml:math id="M307" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> values globally) and the blue error bars indicate the typical GRAUN and IASI errors. The dotted line represents the 1–1 diagonal.</p></caption>
            <?xmltex \igopts{width=441.017717pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f14.pdf"/>

          </fig>

</sec>
<sec id="Ch1.S5.SS3.SSS2">
  <title>Retrieval using external temperature data</title>
      <p id="d1e6261">During summer 2007 EUMETSAT L2 data were not available, and the
retrievals for the LI07 and SK07 ensembles were executed using the
atmospheric temperatures measured by the GRUAN radiosondes as the a priori
atmospheric temperatures (see discussion in Sect. <xref ref-type="sec" rid="Ch1.S3.SS4"/>). In
order to avoid inconsistencies when comparing the different ensembles, we
simulate retrievals of the MI and LI08 ensembles that also use the GRUAN
radiosonde temperatures instead of the EUMETSAT L2 temperatures as the a
priori atmospheric temperatures. The simulated retrieval products are
obtained by adding
<inline-formula><mml:math id="M308" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">GK</mml:mi><mml:mi>T</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">T</mml:mi><mml:mrow><mml:mi mathvariant="normal">L</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="bold-italic">T</mml:mi><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> to the
standard MUSICA IASI retrieval products, where <inline-formula><mml:math id="M309" display="inline"><mml:mi mathvariant="bold">G</mml:mi></mml:math></inline-formula> is the gain
matrix, <inline-formula><mml:math id="M310" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">K</mml:mi><mml:mi>T</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the Jacobian matrix for atmospheric temperature, and
<inline-formula><mml:math id="M311" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">T</mml:mi><mml:mrow><mml:mi mathvariant="normal">L</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M312" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">T</mml:mi><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> are the atmospheric
temperature state vectors of the EUMETSAT L2 and GRUAN data, respectively.
For the altitudes above the radiosonde we extend the <inline-formula><mml:math id="M313" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">T</mml:mi><mml:mi mathvariant="normal">GRUAN</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
vector with a zonally and monthly mean temperature climatology
 <xref ref-type="bibr" rid="bib1.bibx23" id="paren.53"/>. For calculating the combined MUSICA IASI and GRUAN random
error (i.e. the expected scatter <inline-formula><mml:math id="M314" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) we have to consider
the uncertainties in the GRUAN temperatures instead of the uncertainties in
the EUMETSAT L2 temperatures. Appendix <xref ref-type="sec" rid="App1.Ch1.S2"/> gives a
brief overview of the GRUAN temperature uncertainties.</p>
      <p id="d1e6367">Figure <xref ref-type="fig" rid="Ch1.F12"/> depicts the data agreement for all
four ensembles when GRUAN radiosonde temperatures are used as the a priori
atmospheric temperatures. For Manus Island and Lindenberg (ensembles MI and
LI08), the scatter in MDL (<inline-formula><mml:math id="M315" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) is significantly reduced
when compared to Fig. <xref ref-type="fig" rid="Ch1.F11"/> (figure showing the
data agreement for MUSICA IASI retrievals that use EUMETSAT L2 temperatures
as the a priori atmospheric temperatures). A similar reduction is also
observed in the theoretically predicted scatter (<inline-formula><mml:math id="M316" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>)
because the GRUAN temperatures have a much smaller uncertainty (typically
0.1–0.3 K) than the EUMETSAT L2 temperatures (we assume 1–2 K). At
Lindenberg (ensemble LI08), <inline-formula><mml:math id="M317" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M318" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
agree much better for the retrieval products (obtained by using GRUAN
temperatures as a priori values) than for the MUSICA IASI standard retrieval products
(obtained by using EUMETSAT L2 temperatures as a priori values). This suggests that
for Lindenberg and the year 2008, our uncertainty assumptions for the EUMETSAT
L2 atmospheric temperatures (see Table <xref ref-type="table" rid="Ch1.T2"/>) are
probably too optimistic.</p>
      <p id="d1e6421">The bottom panels in Fig. <xref ref-type="fig" rid="Ch1.F12"/> show the data
agreement for the LI07 and SK07 ensembles. These ensembles are exclusively
representative of summer observations. We observe that the
<inline-formula><mml:math id="M319" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values are generally larger than the
<inline-formula><mml:math id="M320" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values, meaning that we probably underestimate the
MUSICA IASI random errors. In addition we find a wet bias of up to 30 % below
2 km altitude and a dry bias of about 20 % at around 14 km.</p>
      <p id="d1e6448">An upper tropospheric dry bias is consistently observed in the analysis of
the LI08, LI07, and SK07 ensembles, but not seen in the analysis of the MI
ensemble. A systematic uncertainty source that affects upper tropospheric
<inline-formula><mml:math id="M321" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> at Lindenberg and Sodankylä but not at Manus Island is the shape
of the water vapour lines (see discussion in the context of
Fig. <xref ref-type="fig" rid="Ch1.F8"/>). Therefore, deficits in simulating the line shapes might
explain this upper tropospheric dry bias. In the near-surface atmosphere we
observe a wet bias at the two continental sites, Lindenberg and Sodankylä,
but only for the ensembles that are limited to the summer season (LI07 and
SK07). Our error estimation study suggests that small uncertainties in the
emissivity can cause large errors at these continental sites. Therefore, an
uncertainty in the IREMIS emissivity used is a candidate for explaining the
near-surface wet bias; however, the <inline-formula><mml:math id="M322" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> retrieval response for a
<inline-formula><mml:math id="M323" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula> % uncertainty in the emissivity differs between observations and
can be positive or negative (see Fig. <xref ref-type="fig" rid="Ch1.F9"/>). This means that
emissivity uncertainties can only explain the bias if the sign of the
emissivity uncertainty is correlated with the atmospheric state (e.g. the
uncertainty in the used monthly IREMIS surface emissivity is typically
positive for dry atmospheric conditions and typically negative for humid
atmospheric conditions) or surface conditions (e.g. the uncertainty in the
IREMIS data is typically positive/negative for a surface with high/low
emissivity or high/low skin temperatures).</p>
</sec>
</sec>
<?pagebreak page4997?><sec id="Ch1.S5.SS4">
  <title>Global overview of data agreement</title>
      <p id="d1e6499">Figure <xref ref-type="fig" rid="Ch1.F13"/> depicts the vertical profiles of the data
agreement skill score parameters for all coinciding observations without
separating the different ensembles. This analysis is based on 100 individual
comparisons.</p>
      <p id="d1e6504">Below 12 km altitude the MDL value oscillates between <inline-formula><mml:math id="M324" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> % and <inline-formula><mml:math id="M325" display="inline"><mml:mrow><mml:mo>+</mml:mo><mml:mn mathvariant="normal">11</mml:mn></mml:mrow></mml:math></inline-formula> %
and at around 14 km altitude it reaches <inline-formula><mml:math id="M326" display="inline"><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">21</mml:mn></mml:mrow></mml:math></inline-formula> %. The scatter in MDL
(<inline-formula><mml:math id="M327" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) is almost 29 % close to the surface but generally
smaller than 20 % above 1 km altitude. Above 5 km altitude this observed
scatter is only slightly larger than the scatter predicted from the estimated
errors (<inline-formula><mml:math id="M328" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>). At lower altitudes the predicted scatter is
clearly smaller than the observed scatter. An explanation of the observed
upper tropospheric bias and increased scatter at low altitudes is given in
the previous section: the dry bias in the upper troposphere might have its
origin in incorrect modelling of the spectroscopic line shapes, and the
increased scatter near the surface might be due to uncertainties in the
IREMIS emissivities.</p>
      <?pagebreak page4998?><p id="d1e6559">The observed scatter between GRUAN and IASI (<inline-formula><mml:math id="M329" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) is
significantly smaller than the <inline-formula><mml:math id="M330" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mi mathvariant="italic">σ</mml:mi></mml:mrow></mml:math></inline-formula> variation of the smoothed radiosonde
data (<inline-formula><mml:math id="M331" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula>), which reaches about <inline-formula><mml:math id="M332" display="inline"><mml:mn mathvariant="normal">50</mml:mn></mml:math></inline-formula> % near the surface and
more than <inline-formula><mml:math id="M333" display="inline"><mml:mn mathvariant="normal">100</mml:mn></mml:math></inline-formula> % in the middle and upper troposphere. This reflects the
large variation in the atmospheric water vapour concentration data we use for
our evaluation study (see also Fig. <xref ref-type="fig" rid="Ch1.F2"/>). The MUSICA IASI
data product does capture most of these variations well. For demonstrating
this capability, Fig. <xref ref-type="fig" rid="Ch1.F14"/> illustrates correlation between
the MUSICA IASI retrieval products and the smoothed GRUAN data for selected
altitudes. The respective altitudes are highlighted in Figs. <xref ref-type="fig" rid="Ch1.F3"/>
and <xref ref-type="fig" rid="Ch1.F5"/>, which document that at all sites the MUSICA
IASI product for 1.8, 3.6, 6.4, and 9.8 km is independent and very sensitive to real atmospheric variations. Near the surface, the sensitivity is
generally limited, and at 13.6 km, only the Manus Island data are reasonably
sensitive to the actual atmospheric variations.</p>
      <p id="d1e6620">At the altitudes at which the MUSICA IASI product shows very good sensitivity
(1.8, 3.6, 6.4, and 9.8 km), we observe a very good correlation and can
demonstrate that the MUSICA IASI product can correctly capture the large
variations that are present in atmospheric water vapour. For instance, at
3.6 km the mixing ratios range from below 200 to almost 20000 ppmv
and at 9.8 km from 10 to more than 1000 ppmv. Please note that these
large variations are reliably reproduced by the MUSICA IASI processor,
although the retrieval works with a single humidity a priori value that is
used at all sites and during all seasons (indicated by the yellow stars in
Fig. <xref ref-type="fig" rid="Ch1.F14"/>). Near the surface the correlation is a bit
weaker than at higher altitudes, mainly due to some outliers belonging to the
LI07 and SK07 ensembles (the ensembles representing the summer season over
land). At 13.6 km altitude we observe a good correlation, which demonstrates
the possibility of detecting <inline-formula><mml:math id="M334" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> at Manus Island. However, at Lindenberg
and Sodankylä, these variations are strongly driven by actual atmospheric
variations that take place at lower altitudes (see magenta lines in
Figs. <xref ref-type="fig" rid="Ch1.F3"/> and <xref ref-type="fig" rid="Ch1.F5"/>).</p>
      <?pagebreak page4999?><p id="d1e6643">For our theoretical error analyses in Sect. <xref ref-type="sec" rid="Ch1.S4"/>, we assume
that the relative errors have a component that is mostly random
(Fig. <xref ref-type="fig" rid="Ch1.F7"/>) and another component that is mostly systematic
(Fig. <xref ref-type="fig" rid="Ch1.F8"/>). For the comparison study we proceed similarly and
examine bias and scatter, which means that we describe the variance in the
MUSICA IASI data by the variance in the GRUAN data (<inline-formula><mml:math id="M335" display="inline"><mml:mrow><mml:msubsup><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow></mml:math></inline-formula>)
and the variance in the difference between MUSICA IASI and GRUAN
(<inline-formula><mml:math id="M336" display="inline"><mml:mrow><mml:msubsup><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow></mml:math></inline-formula>). Using this description, we can calculate the <inline-formula><mml:math id="M337" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula>
value that represents the portion of the MUSICA IASI variance that is in full
agreement (fully correlated) with the GRUAN variance:

                <disp-formula id="Ch1.E20" content-type="numbered"><mml:math id="M338" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msubsup><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow><mml:mrow><mml:msubsup><mml:mi mathvariant="italic">σ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup><mml:mo>+</mml:mo><mml:msubsup><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

          Each panel of Fig. <xref ref-type="fig" rid="Ch1.F14"/> contains the <inline-formula><mml:math id="M339" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> value calculated
for the respective altitude.</p>
      <p id="d1e6755">The error blue bars on the diagonal of the plots of
Fig. <xref ref-type="fig" rid="Ch1.F14"/> indicate the typical GRUAN errors (<inline-formula><mml:math id="M340" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:mrow></mml:math></inline-formula> as detailed in Appendix <xref ref-type="sec" rid="App1.Ch1.S1"/>) and the
root square sum of the typical leading MUSICA IASI random errors (<inline-formula><mml:math id="M341" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mover accent="true"><mml:mi>x</mml:mi><mml:mo mathvariant="normal" stretchy="false">^</mml:mo></mml:mover></mml:mrow></mml:math></inline-formula>), whereby we have considered measurement noise, uncertainties in
surface emissivity, and uncertainties in the GRUAN temperatures. The MDL and
<inline-formula><mml:math id="M342" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">σ</mml:mi><mml:mi mathvariant="normal">MDL</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> values are also written in each panel as bias (b) and
scatter (s) values, respectively. They are the same as shown in
Fig. <xref ref-type="fig" rid="Ch1.F13"/>.</p>
      <p id="d1e6802">Figure <xref ref-type="fig" rid="Ch1.F15"/> resumes the capability of the MUSICA IASI
retrieval product for capturing real atmospheric <inline-formula><mml:math id="M343" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> variations at
different altitudes by showing vertical profiles of the <inline-formula><mml:math id="M344" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> values
calculated according to Eq. (<xref ref-type="disp-formula" rid="Ch1.E20"/>) for the different ensembles
individually and when considering all 100 individual comparisons together.
Between 1 and 12.5 km altitude (and when considering all comparisons of the
MUSICA IASI products together), the retrieval detects more than 90 % of the atmospheric
variations in agreement with GRUAN.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F15"><caption><p id="d1e6835"> Profiles of correlation coefficients (<inline-formula><mml:math id="M345" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula>) for comparison between GRUAN
and MUSICA IASI (for retrievals that use the GRUAN temperature profiles as the a priori atmospheric temperatures).
Different line colours and symbols show the different ensembles and thick black solid line for considering all four
ensembles as a single data set (the <inline-formula><mml:math id="M346" display="inline"><mml:mrow><mml:msup><mml:mi>R</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> values for the latter are also written in the panels of Fig. <xref ref-type="fig" rid="Ch1.F14"/>).</p></caption>
          <?xmltex \igopts{width=170.716535pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f15.pdf"/>

        </fig>

</sec>
</sec>
<sec id="Ch1.S6" sec-type="conclusions">
  <title>Summary and outlook</title>
      <p id="d1e6875">In this paper, we compare water vapour profiles retrieved from IASI
spectra by the MUSICA IASI retrieval with in situ measurements
from GRUAN radiosondes at three different reference sites
representative of three different climate zones (tropics,
mid-latitudes, and polar regions). In addition, we provide an extensive
theoretical error estimation of the retrieval's water vapour product
for the respective reference sites considering many different uncertainty sources.</p>
      <p id="d1e6878">The error estimations of the MUSICA IASI water vapour profiles at
the different reference sites reveal that for the lowermost 3 km,
the errors can be as large as 30 %. The most important uncertainty
sources are unrecognized clouds, and uncertainties in lower tropospheric
temperature and in surface emissivity. Between 3 and 6 km the error can be as large as 20 %, mainly due to middle
atmospheric temperature uncertainties and unrecognized high cirrus clouds.
Above 6 km the errors are typically smaller than 20 % and mainly caused
by uncertainties in upper tropospheric temperatures and uncertainties in
spectroscopic pressure-broadening parameters.</p>
      <p id="d1e6881">For the empirical validation study the remote sensing MUSICA
IASI <inline-formula><mml:math id="M347" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> profiles have been compared to 100 different
Vaisala RS92 radiosonde measurements that have been processed by the
GRUAN lead centre. The scatter found for the difference between GRUAN and
IASI is smaller than 21 % above 1.8 km altitude. It is
slightly higher near the ground. This is in
good agreement with errors as given for the GRUAN data and the errors
as estimated for the MUSICA IASI product. It is important to note that
the coincidences correspond to 5 different years and represent three
different climate zones, giving the study presented here a good global
representativeness. We demonstrate that the MUSICA
IASI retrieval is able to correctly capture variations in <inline-formula><mml:math id="M348" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula>
profiles between 1 km above ground and the upper troposphere.</p>
      <p id="d1e6910">The comparison indicates a dry bias of the remote sensing data of 20 % in the upper troposphere of the middle- and high-latitude sites, but not at the tropical site. We find that deficits in spectroscopic line shape modelling could explain such
behaviour. For the current MUSICA IASI retrieval, a Voigt line shape model is assumed and HITRAN 2016 pressure-broadening
parameters are used. It would be interesting to investigate if the usage of more sophisticated line shape models
(e.g. a speed-dependent Voigt line shape model) could reduce the upper tropospheric bias and improve the agreement
between the MUSICA IASI remote sensing and GRUAN in situ data. For the continental sites (Lindenberg and Sodankylä)
during summer, we observe a wet bias in the MUSICA IASI data with respect to GRUAN. Uncertainties in land surface
emissivity being correlated to atmospheric or surface conditions (e.g. negative/positive emissivity uncertainties
occurring in line with very dry/humid atmospheric conditions or hot/cold skin temperatures) could explain this behaviour.
It would be interesting to test if the usage of a daily surface emissivity product instead of the monthly mean IREMIS data
(which have been used for the retrievals presented here) improves the agreement between MUSICA IASI and GRUAN.</p>
</sec>

      
      </body>
    <back><notes notes-type="dataavailability">

      <p id="d1e6917">The MUSICA IASI data presented here are available on the
MUSICA website at <uri>http://www.imk-asf.kit.edu/english/musica.php</uri> (last
access: July 2018). Please contact Matthias Schneider for more details.</p>

      <p id="d1e6923">The GRUAN data are available on the GRUAN website at
<uri>https://www.gruan.org/data/data-products/gdp/rs92-gdp-2/</uri> (Sommer et
al., 2012).</p>
  </notes><?xmltex \hack{\clearpage}?><app-group>

<?pagebreak page5001?><app id="App1.Ch1.S1">
  <title>Uncertainties of GRUAN water vapour volume mixing ratios</title>
      <p id="d1e6938">In order to perform a valid comparison between remote sensing data
and in situ measurements, the uncertainties of the in situ data have
to be considered.</p>
      <p id="d1e6941">GRUAN provides uncertainties for the relative humidity
(<inline-formula><mml:math id="M349" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="italic">ϱ</mml:mi></mml:mrow></mml:math></inline-formula>), for the temperature (<inline-formula><mml:math id="M350" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi></mml:mrow></mml:math></inline-formula>), and
for the pressure (<inline-formula><mml:math id="M351" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>p</mml:mi></mml:mrow></mml:math></inline-formula>). The water vapour volume
mixing ratio (WVMR) is defined as

              <disp-formula id="App1.Ch1.E1" content-type="numbered"><mml:math id="M352" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="italic">ϱ</mml:mi><mml:mspace linebreak="nobreak" width="0.125em"/><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow><mml:mrow><mml:mi>p</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="italic">ϱ</mml:mi><mml:mspace linebreak="nobreak" width="0.125em"/><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>≈</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="italic">ϱ</mml:mi><mml:mspace width="0.125em" linebreak="nobreak"/><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow><mml:mi>p</mml:mi></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>

        where <inline-formula><mml:math id="M353" display="inline"><mml:mi>E</mml:mi></mml:math></inline-formula> is the water vapour saturation pressure. The GRUAN
WVMR error for each individual radiosonde can be calculated as

              <disp-formula id="App1.Ch1.E2" content-type="numbered"><mml:math id="M354" display="block"><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msub><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mi mathvariant="normal">e</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msqrt><mml:mrow><mml:msup><mml:mfenced close=")" open="("><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow><mml:mrow><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfrac></mml:mstyle></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>+</mml:mo><mml:msup><mml:mfenced open="(" close=")"><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi mathvariant="italic">ϱ</mml:mi></mml:mrow><mml:mi mathvariant="italic">ϱ</mml:mi></mml:mfrac></mml:mstyle></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:msqrt><mml:mo>×</mml:mo><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>

        Uncertainties in atmospheric pressure <inline-formula><mml:math id="M355" display="inline"><mml:mi>p</mml:mi></mml:math></inline-formula> can be neglected when
compared to the uncertainties of <inline-formula><mml:math id="M356" display="inline"><mml:mrow><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M357" display="inline"><mml:mi mathvariant="italic">ϱ</mml:mi></mml:math></inline-formula>. For the
calculation of the water vapour saturation pressure, we use the same
formula as GRUAN from <xref ref-type="bibr" rid="bib1.bibx15" id="text.54"/>. Since
<inline-formula><mml:math id="M358" display="inline"><mml:mrow><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> is a highly non-linear function, we estimate
the uncertainty of <inline-formula><mml:math id="M359" display="inline"><mml:mi>E</mml:mi></mml:math></inline-formula> by

              <disp-formula specific-use="align" content-type="numbered"><mml:math id="M360" display="block"><mml:mtable displaystyle="true"><mml:mtr><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>E</mml:mi></mml:mrow></mml:mtd><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mo>=</mml:mo><mml:mo movablelimits="false">max⁡</mml:mo><mml:mfenced close="" open="{"><mml:mfenced close="|" open="|"><mml:mrow><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>+</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfenced></mml:mfenced><mml:mo>;</mml:mo></mml:mrow></mml:mtd></mml:mtr><mml:mlabeledtr id="App1.Ch1.E3"><mml:mtd/><mml:mtd><mml:mstyle class="stylechange" displaystyle="true"/></mml:mtd><mml:mtd><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:mfenced open="." close="}"><mml:mfenced close="|" open="|"><mml:mrow><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>-</mml:mo><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>T</mml:mi><mml:mo>)</mml:mo><mml:mo>-</mml:mo><mml:mi>E</mml:mi><mml:mo>(</mml:mo><mml:mi>T</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:mfenced></mml:mfenced><mml:mo>.</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula></p>
      <p id="d1e7246">According to <xref ref-type="bibr" rid="bib1.bibx7" id="text.55"/> there are correlated and uncorrelated
errors. We investigate both separately. Figure <xref ref-type="fig" rid="App1.Ch1.F1"/> depicts the correlated and
uncorrelated GRUAN WVMR errors (<inline-formula><mml:math id="M361" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mi mathvariant="normal">e</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) in the top and
bottom panels, respectively. Black lines indicate the data ensembles
that cover all seasons (Manus Island and Lindenberg 2008), and red
lines the ensembles that are only representative of the summer
season (Lindenberg 2007 and Sodankylä).</p>
      <p id="d1e7265"><?xmltex \hack{\newpage}?>For a reasonable comparison, the vertically highly resolved GRUAN profiles have
to be adjusted to the vertical resolution of the remote sensing profiles
(see Sect. <xref ref-type="sec" rid="Ch1.S5.SS1"/>). This means a significant reduction of the vertical
resolution and cancelling out of the uncorrelated errors. The regridding and smoothing
of the correlated errors is accomplished as follows: first, the errors
<inline-formula><mml:math id="M362" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mi mathvariant="normal">e</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> are added to the measured WVMR data. Second, for
<inline-formula><mml:math id="M363" display="inline"><mml:mrow><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="normal">WVMR</mml:mi><mml:mi mathvariant="normal">e</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> we perform the regridding as described in
Sect. <xref ref-type="sec" rid="Ch1.S5.SS1"/>; i.e. we calculate the regridded version of
the erroneous GRUAN WVMR profile. The difference between the erroneous and
the original profiles (of the regridded versions) give the regridded GRUAN
WVMR uncertainty profile (<inline-formula><mml:math id="M364" display="inline"><mml:mrow><mml:mi mathvariant="bold">Δ</mml:mi><mml:mi>g</mml:mi></mml:mrow></mml:math></inline-formula>). Above the radiosonde (where we set <inline-formula><mml:math id="M365" display="inline"><mml:mi mathvariant="bold-italic">g</mml:mi></mml:math></inline-formula> equal to the retrievals a priori)
we set the uncertainty to 100 %. Then we calculate an uncertainty covariance matrix <inline-formula><mml:math id="M366" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi>g</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> using the values from the
uncertainty profile <inline-formula><mml:math id="M367" display="inline"><mml:mrow><mml:mi mathvariant="bold">Δ</mml:mi><mml:mi>g</mml:mi></mml:mrow></mml:math></inline-formula> and a large correlation length of 30 km individually for the two blocks representing
the data measured by the radiosonde and the data above the radiosonde. Third, in analogy to
Eq. (<xref ref-type="disp-formula" rid="Ch1.E13"/>) we apply the averaging kernels to
<inline-formula><mml:math id="M368" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi>g</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and obtain the error covariance for the regridded and smoothed GRUAN profiles as

              <disp-formula id="App1.Ch1.E4" content-type="numbered"><mml:math id="M369" display="block"><mml:mrow><mml:mstyle displaystyle="true" class="stylechange"/><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:msub><mml:mo>=</mml:mo><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub><mml:mo>)</mml:mo><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mi>g</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">11</mml:mn></mml:msub><mml:mo>+</mml:mo><mml:msub><mml:mi mathvariant="bold">A</mml:mi><mml:mn mathvariant="normal">12</mml:mn></mml:msub><mml:msup><mml:mo>)</mml:mo><mml:mi>T</mml:mi></mml:msup><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula></p>
      <p id="d1e7411">Figure <xref ref-type="fig" rid="App1.Ch1.F2"/> depicts the square root values of the diagonal of <inline-formula><mml:math id="M370" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold">S</mml:mi><mml:mover accent="true"><mml:mi>g</mml:mi><mml:mo stretchy="false" mathvariant="normal">^</mml:mo></mml:mover></mml:msub></mml:mrow></mml:math></inline-formula> for the different ensembles.
The uncertainties typically increase from 5 % near the ground to
5 %–20 % at around 10 km altitude. For higher altitudes they
decrease again due to the decaying sensitivity (see averaging
kernel plots of Fig. <xref ref-type="fig" rid="Ch1.F3"/>).</p>

      <?xmltex \floatpos{h!}?><fig id="App1.Ch1.F1"><caption><p id="d1e7434">Profiles of the
WVMR errors of the GRUAN radiosondes: panel <bold>(a)</bold> represents the
correlated errors and panel <bold>(b)</bold> the uncorrelated
errors. The colours distinguish between the different ensembles of the
retrieval set-up: black for MI and LI08, and red for LI07 and SK07.</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f16.pdf"/>

      </fig>

      <?xmltex \floatpos{h!}?><fig id="App1.Ch1.F2"><caption><p id="d1e7453">Same as top panels of
Fig. <xref ref-type="fig" rid="App1.Ch1.F1"/>, but for the correlated errors
in the regridded and smoothed GRUAN radiosonde data.</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f17.pdf"/>

      </fig>

<?xmltex \hack{\clearpage}?><?xmltex \floatpos{h!}?><fig id="App1.Ch1.F3"><caption><p id="d1e7469">Profiles of the
correlated temperature errors of the GRUAN radiosondes. Above the radiosonde's top height, we use a
zonally and monthly mean temperature climatology and assume an uncertainty of 5 K.</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=455.244094pt}?><graphic xlink:href="https://amt.copernicus.org/articles/11/4981/2018/amt-11-4981-2018-f18.pdf"/>

      </fig>

</app>

<?pagebreak page5003?><app id="App1.Ch1.S2">
  <title>Uncertainties of GRUAN temperatures</title>
      <p id="d1e7486">The MUSICA IASI retrieval uses the EUMETSAT L2 temperatures as the a priori atmospheric temperatures. However, in summer
2007 EUMETSAT L2 data are not available, and instead we use the GRUAN temperatures for the LI07 and SK07 retrievals.
In addition, for the MI and LI08 ensembles we simulate retrievals that use the GRUAN temperatures instead of the EUMETSAT L2
temperatures as the a priori atmospheric temperatures. For all these retrievals the uncertainty in the GRUAN temperatures and
not the uncertainty in the EUMETSAT L2 temperatures has to be considered for the error estimation.</p>
      <p id="d1e7489">Figure <xref ref-type="fig" rid="App1.Ch1.F3"/> depicts the correlated GRUAN temperature uncertainty profiles after regridding
the data to the MUSICA retrieval grid points by using a triangle inverse-distance-weighted averaging function (as for the
first <inline-formula><mml:math id="M371" display="inline"><mml:mrow class="chem"><mml:msub><mml:mi mathvariant="normal">H</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msub><mml:mi mathvariant="normal">O</mml:mi></mml:mrow></mml:math></inline-formula> regridding step, see Sect. <xref ref-type="sec" rid="Ch1.S5.SS1"/>). We assume that the uncorrelated uncertainties are cancelled out by
this averaging. Below 20 km altitude the GRUAN temperature uncertainties are well within 0.3 K; i.e. they are much
smaller than the uncertainties of 1–2 K we assume for the EUMETSAT L2 temperatures. The GRUAN nighttime temperature
data have an uncertainty that is rather constant with altitude, whereas for the daytime data the uncertainty monotonically
increases with altitude. Above the top altitude of the radiosonde, we use a monthly and zonally averaged temperature
climatology <xref ref-type="bibr" rid="bib1.bibx23" id="paren.56"><named-content content-type="pre">COSPAR International Reference Atmosphere;</named-content></xref> and assume a temperature uncertainty of
5 K (this explains the instantaneous uncertainty increase that can be observed for some Manus Island and Lindenberg radiosondes).</p><?xmltex \hack{\clearpage}?>
</app>
  </app-group><notes notes-type="authorcontribution">

      <p id="d1e7519">CB performed most calculations for this work during his
master thesis at KIT IMK-ASF and prepared the manuscript together with MS and in collaboration
with all coauthors.
MS developed the IASI retrievals in the
framework of the MUSICA project and BE supported these developments
by making the processing chain more efficient.
FH wrote the PROFFIT and PRFFWD codes.
OG helped in reading and formatting the EUMETSAT IASI L2 data.
MS provided the GRUAN radiosonde measurements in a very useful data
format for the sites of Lindenberg and Sodankylä.
MH helped us with the KOPRA calculations used for estimating the
effect of the scattering by cirrus and mineral dust particles.
ST provided all necessary data for the site of Manus Island in a very
useful data format in the framework of a planned exercise called
“Intercomparison of Hyperspectral Retrieval Codes”.
XC collected the IASI/GRUAN coincidences over Manus Island and helped us
in the interpretation of the radiosonde's measurement uncertainties.</p>
  </notes><notes notes-type="competinginterests">

      <p id="d1e7525">The authors declare that they have no conflict of
interest.</p>
  </notes><notes notes-type="sistatement">

      <p id="d1e7531">This article is part of the special issue “Towards Unified Error Reporting (TUNER)”.
It is not associated with a conference.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e7537">This research has largely benefited from results of the projects MUSICA
(funded by the European Research Council under the European Community's
Seventh Framework Programme (FP7/2007-2013)/ERC Grant Agreement number
256961), MOTIV (funded by the Deutsche Forschungsgemeinschaft under GZ SCHN
1126/2-1), and INMENSE (funded by the Ministerio de Economía y
Competividad from Spain, CGL2016-80688-P). We acknowledge the support of the
Deutsche Forschungsgemeinschaft and the Open Access Publishing Fund of the
Karlsruhe Institute of Technology. <?xmltex \hack{\newline}?><?xmltex \hack{\newline}?> The
article processing charges for this open-access <?xmltex \hack{\newline}?> publication
were covered by a Research <?xmltex \hack{\newline}?> Centre of the Helmholtz
Association. <?xmltex \hack{\newline}?><?xmltex \hack{\newline}?> Edited by: Helen
Worden<?xmltex \hack{\newline}?> Reviewed by: two anonymous referees</p></ack><ref-list>
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    <!--<article-title-html>Evaluation of MUSICA IASI tropospheric water vapour profiles using theoretical error assessments and comparisons to GRUAN Vaisala RS92 measurements</article-title-html>
<abstract-html><p>Volume mixing ratio water vapour profiles have been retrieved from IASI
(Infrared Atmospheric Sounding Interferometer) spectra using the MUSICA
(MUlti-platform remote Sensing of Isotopologues for investigating the Cycle
of Atmospheric water) processor. The retrievals are done for IASI
observations that coincide with Vaisala RS92 radiosonde measurements
performed in the framework of the GCOS (Global Climate Observing System)
Reference Upper-Air Network (GRUAN) in three different climate zones: the
tropics (Manus Island, 2°&thinsp;S), mid-latitudes (Lindenberg,
52°&thinsp;N), and polar regions (Sodankylä, 67°&thinsp;N).</p><p>The retrievals show good sensitivity with respect to the vertical H<sub>2</sub>O
distribution between 1&thinsp;km above ground and the upper troposphere.
Typical DOFS (degrees of freedom for signal) values are about 5.6
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wintertime mid-latitudes, and 4.4 for summertime polar regions.
The errors of the MUSICA IASI water vapour profiles have been
theoretically estimated considering the contribution of many different
uncertainty sources. For all three climate regions, unrecognized cirrus
clouds and uncertainties in atmospheric temperature have been identified
as the most important error sources and they can reach about 25&thinsp;%.</p><p>The MUSICA IASI water vapour profiles have been compared to 100 individual
coincident GRUAN water vapour profiles. The systematic difference between the
data is within 11&thinsp;% below 12&thinsp;km altitude; however, at higher altitudes the MUSICA IASI data show a dry bias with respect to
the GRUAN data of up to 21&thinsp;%. The scatter is largest
close to the surface (30&thinsp;%), but never exceeds 21&thinsp;% above 1&thinsp;km altitude.
The comparison study documents that the MUSICA IASI retrieval processor provides
H<sub>2</sub>O profiles that capture the large variations in H<sub>2</sub>O
volume mixing ratio profiles well from 1&thinsp;km above ground up to
altitudes close to the tropopause. Above 5&thinsp;km the observed scatter with respect to GRUAN data is in reasonable agreement
with the combined MUSICA IASI and GRUAN random errors. The increased scatter at lower altitudes might be explained by
surface emissivity uncertainties at the summertime continental sites of Lindenberg and Sodankylä, and the upper
tropospheric dry bias might suggest deficits in correctly modelling the spectroscopic line shapes of water vapour.</p></abstract-html>
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