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    <journal-meta />
    <article-meta>
      <title-group>
        <article-title>An evaluation of the concept retrieval annotation for Spanish-English CLEFER parallel corpora</article-title>
      </title-group>
      <contrib-group>
        <contrib contrib-type="author">
          <string-name>Rafael Berlanga</string-name>
          <xref ref-type="aff" rid="aff1">1</xref>
        </contrib>
        <contrib contrib-type="author">
          <string-name>Antonio Jimeno-Yepes</string-name>
          <email>antonio.jimeno@gmail.com</email>
          <xref ref-type="aff" rid="aff2">2</xref>
        </contrib>
        <contrib contrib-type="author">
          <string-name>Mar a Perez-Catalan</string-name>
          <email>maria.perezg@uji.es</email>
          <xref ref-type="aff" rid="aff1">1</xref>
        </contrib>
        <contrib contrib-type="author">
          <string-name>Dietrich Rebholz-Shuchmann</string-name>
          <email>rebholz@ifi.uzh.ch</email>
          <xref ref-type="aff" rid="aff0">0</xref>
        </contrib>
        <aff id="aff0">
          <label>0</label>
          <institution>Department of Computational Linguistics, University of Zurich</institution>
          ,
          <addr-line>Ch</addr-line>
        </aff>
        <aff id="aff1">
          <label>1</label>
          <institution>Department of Languages and Computer Systems Universitat Jaume I</institution>
          ,
          <addr-line>Castello</addr-line>
          ,
          <country country="ES">Spain</country>
        </aff>
        <aff id="aff2">
          <label>2</label>
          <institution>National ICT</institution>
          <country country="AU">Australia</country>
        </aff>
      </contrib-group>
      <abstract>
        <p>Concept retrieval-based semantic annotation Performing the semantic annotation of a document D consists of nding mappings between text chunks of D (i.e., sequences of adjacent terms), and the concepts provided by a knowledge resource (KR) that best semantically describes the contents of D. As concepts of a KR are usually expressed as noun phrases, text chunks are usually associated to these syntactic structures. We assume that 4 http://www.ebi.ac.uk/Rebholz-srv/CALBC/</p>
      </abstract>
    </article-meta>
  </front>
  <body>
    <sec id="sec-1">
      <title>Introduction</title>
      <p>
        This paper presents a study about the use of the concept retrieval annotation
method for parallel corpora. The concept retrieval annotation method (CRA)
consists of considering concepts as documents and text chunks as queries [
        <xref ref-type="bibr" rid="ref1">1</xref>
        ].
Concepts with higher similarity to text chunks are considered for generating the
nal semantic annotation. CRA makes use of an existing knowledge resource
(KR) from which lexicons are extracted to perform the semantic annotation.
Until now, CRA has been applied to mono-lingual scenarios showing a good
performance over both very large collections (e.g., CALBCII-SSC4) and very
large lexicons (e.g., UMLS R [
        <xref ref-type="bibr" rid="ref2">2</xref>
        ]). We have also applied this semantic annotator to
di erent tasks in Biomedicine such as resource discovery [
        <xref ref-type="bibr" rid="ref3">3</xref>
        ], relation extraction
[
        <xref ref-type="bibr" rid="ref4">4</xref>
        ], and sicenti c bibliography analysis [
        <xref ref-type="bibr" rid="ref5">5</xref>
        ].
      </p>
      <p>In this work, we will apply CRA in a bi-lingual scenario. For this purpose,
we make use of the provided lexicons at CLEFER workshop. More speci cally,
we have made use of the English and Spanish lexicons. In this extended
abstract, we rst summarize the main features of CRM as a cross-lingual
annotator, and then obtained results over the two provided parallel corpora, EMEA
and MEDLINE R .
there exists a function lexKR(C) that returns the set of strings describing the
concept C. This set of strings can contain di erent lexical variants of C,
synonyms of these variants, and a short de nition of the concept.</p>
      <p>
        Given a text chunk T = (w1 wn), and the concept C of the KR, the
retrieval score of C w.r.t. to T is calculated as follows [
        <xref ref-type="bibr" rid="ref1">1</xref>
        ]:
sim(T; C) = maxs2lex(C)
inf o(s \ T ) inf o(T
inf o(s)
s)
      </p>
      <p>The function inf o(s) provides the information the string s brings, which is
calculated as inf o(s) = Pw2s log(p(wjBackground)).</p>
      <p>The retrieval of candidate concepts is e ciently performed by using an
inverted le where each entry is a vocabulary word, and the hit list contains the
concept strings containing the word. In this way, the text chunk T is executed
as a query over this inverted le, and the retrieved concept strings are ranked
according to sim(T; C). Finally, the top-ranked concepts that best cover the
words in T are included in the semantic annotation of T .</p>
      <p>We propose a simple strategy to annotate texts given a multi-lingual KR:
{ Build a di erent inverted le for each language supported by the KR.
{ De ne a series of simple lexical rules to generate variants from one language
to the other (e.g., prote na ! protein).
{ Fetch the query to each inverted le with the variants corresponding to its
language.
{ Return the set of all concepts retrieved by each lexicon.</p>
      <p>
        In the multi-lingual scenario we also have to estimate the word probabilities
in large text collections for each language. Fortunately, there exist several
publicly available resources providing such word estimations 5. We have performed
Word Sense Disambiguation (WSD) based on the MRD (Machine Readable
Dictionary) method [
        <xref ref-type="bibr" rid="ref6">6</xref>
        ] built on the UMLS2012AB, for both English and Spanish.
In EMEA, the context for disambiguaton is the document instead of the unit,
since broader context has shown to produce better disambiguation results. In
the MEDLINE annotation, there is only one unit per document.
3
      </p>
    </sec>
    <sec id="sec-2">
      <title>Results</title>
      <p>Table 1 shows the main features of the annotated collections. Annotated
collections provided at CLEFER are indicated with SSC (Silver Standard Corpus),
and they are in English. Annotations are calculated as the number of text chunks
having associated some concept. The average size of an annotation is the
average of the number of words of annotated text chunks. We also measure the
percentage of ambiguous annotations, which are those having more than one
entity type associated to the text chunk. In general, English collections
generate more ambiguous annotations than the Spanish ones. However, this result is
5 http://invokeit.wordpress.com/frequency-word-lists/</p>
      <p>Annotated Collection Documents/Units Annotations Ann. Avg. size Ambiguity
mainly due to the higher noise of the English lexicon. We noticed that many
ambiguous annotations were derived from contextual descriptions. To alleviate
this problem, we developed a simple heuristic to detect these false ambiguities,
and accordingly edited the lexicons. Thus, collections EMEA EN/ES (Ed) and
MEDLINE EN/ES (Ed) have been annotated using the edited lexicons. Notice
that for the EMEA English collection, this heuristic has reduced notably the
ambiguity degree of the annotations (compare the second and third rows of the
table).</p>
      <p>Table 2 shows the concept overlap at both collection and the aligned unit
levels. As it can be noticed, the edition of the lexicon increases the overlap
between the collections. This is because wrongly annotated concepts are unlikely
to appear in the parallel collection. It must be also noticed that overlap at
collection level is much higher than at unit level.</p>
      <p>Collection</p>
      <p>Collection level Unit level</p>
    </sec>
    <sec id="sec-3">
      <title>Acknowledgements</title>
      <p>This work has been partially funded by the Spanish National R&amp;D Programme
project with contract number TIN2011-24147 of the \Ministerio de Econom a y
Competitividad", and the EU STREP project grant 296410 (\Mantra") under
the 7th EU Framework Programme within Theme \Information Content
Technologies, Technologies for Digital Content and Languages" [FP7-ICT-2011-4.1].
It has been also supported by Australian Federal and Victoria State Governments
and the Australian Research Council through the ICT Centre of Excellence
program, National ICT Australia (NICTA).</p>
    </sec>
  </body>
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