Dagstuhl Seminar Proceedings 08131

Ontologies and Text Mining for Life Sciences : Current Status and Future Perspectives

M. Ashburner, U. Leser, D. Rebholz-Schuhmann (Eds.)

published by LZI
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ISSN  1862 - 4405

Dagstuhl Seminar 08131, 24.03. - 28.03.2008
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Authors
  • Albrecht, Mario
  • Alexopoulou, Dimitra
  • Alvers, Michael R.
  • Ashburner, Michael
  • Barrio-Alvers, Bill
  • Beisswanger, Elena
  • Briscoe, Ted
  • Buitelaar, Paul
  • Chan, Juancarlos
  • Dietze, Heiko
  • Domingues, Francisco S.
  • Doms, Andreas
  • Eyre, Cecilia
  • Gasperin, Caroline
  • Gibson, M.
  • Gkoutos, G.
  • Groth, Philip
  • Haendel, M.
  • Hahn, Udo
  • Hakenberg, Jörg
  • Hong, Huaqing
  • Huthmacher, Carola
  • Kell, Douglas B.
  • Kim, Jung-Jae
  • Krauthammer, Michael
  • Lengauer, Thomas
  • Leser, Ulf
  • Lewin, Ian
  • Lewis, S. E.
  • Luong, Thaibinh
  • Milward, David
  • Mueller, Hans-Michael
  • Mungall, C.J.
  • Mönnich, Jan
  • Nenadic, Goran
  • Park, Jong C.
  • Paton, Norman W.
  • Pickersgill, Laura
  • Pironti, Alejandro
  • Plake, Conrad
  • Pohlenz, Hans-Dieter
  • Poprat, Michael
  • Rahnenführer, Jörg
  • Ramírez, Fidel
  • Rangarajan, Arun
  • Rebholz-Schuhmann, Dietrich
  • Reischuck, Andreas
  • Royer, Loic
  • Sansone, Susanna-Assunta
  • Schlicker, Andreas
  • Schober, Daniel
  • Schroeder, Michael
  • Schuchhardt, Johannes
  • Schulz, Stefan
  • Spasic, Irena
  • Sternberg, Paul W.
  • Su, Jian
  • Tateisi, Yuka
  • Teal, Tracy K.
  • Tsujii, Jun'ichi
  • van Auken, Kimberly
  • Vlachos, Andreas
  • Washington, N.
  • Weiss, Bertram
  • Westerfield, M.
  • Wächter, Thomas
  • Yang, Xiaofeng
  • Zschunke, Matthias
    		•

    		  
    08131 Executive Summary -- Ontologies and Text Mining for Life Sciences : Current Status and Future Perspectives
    Authors: Ashburner, Michael ; Leser, Ulf ; Rebholz-Schuhmann, Dietrich

    Abstract | Document (230 KB) | BibTeX

    Applications of semantic similarity measures
    Authors: Schlicker, Andreas ; Ramírez, Fidel ; Rahnenführer, Jörg ; Huthmacher, Carola ; Pironti, Alejandro ; Domingues, Francisco S. ; Lengauer, Thomas ; Albrecht, Mario

    Abstract | Document (49 KB) | BibTeX

    Bootstrapping an interactive information extraction system for FlyBase curation
    Authors: Briscoe, Ted ; Gasperin, Caroline ; Lewin, Ian ; Vlachos, Andreas

    Abstract | Document (59 KB) | BibTeX

    Coreference Resolution in Biomedical Texts: a Machine Learning Approach
    Authors: Su, Jian ; Yang, Xiaofeng ; Hong, Huaqing ; Tateisi, Yuka ; Tsujii, Jun'ichi

    Abstract | Document (19 KB) | BibTeX

    Facilitating the development of controlled vocabularies for metabolomics technologies with text mining
    Authors: Spasic, Irena ; Schober, Daniel ; Sansone, Susanna-Assunta ; Rebholz-Schuhmann, Dietrich ; Kell, Douglas B. ; Paton, Norman W.

    Abstract | Document (115 KB) | BibTeX

    GoPubMed: Exploring Pubmed with Ontological Background Knowledge
    Authors: Dietze, Heiko ; Alexopoulou, Dimitra ; Alvers, Michael R. ; Barrio-Alvers, Bill ; Doms, Andreas ; Hakenberg, Jörg ; Mönnich, Jan ; Plake, Conrad ; Reischuck, Andreas ; Royer, Loic ; Wächter, Thomas ; Zschunke, Matthias ; Schroeder, Michael

    Abstract | Document (14 KB) | BibTeX

    Mining associations and roles: role of feature extraction
    Authors: Nenadic, Goran

    Abstract | Document (11 KB) | BibTeX

    Mining Phenotypes for Protein Function Prediction
    Authors: Leser, Ulf ; Groth, Philip ; Weiss, Bertram ; Pohlenz, Hans-Dieter

    Abstract | Document (14 KB) | BibTeX

    Named Entity or Entity Name?
    Authors: Schulz, Stefan

    Abstract | Document (12 KB) | BibTeX

    NLP and Phenotypes: using Ontologies to link Human Diseases to Animal Models
    Authors: Washington, N. ; Gibson, M. ; Mungall, C.J. ; Ashburner, Michael ; Gkoutos, G. ; Westerfield, M. ; Haendel, M. ; Lewis, S. E.

    Abstract | Document (16 KB) | BibTeX

    Ontologies & Text Mining (for Life Sciences)
    Authors: Buitelaar, Paul

    Abstract | Document (17 KB) | BibTeX

    Ontology learning with text mining: Two use cases in lipoprotein metabolism and toxicology
    Authors: Alexopoulou, Dimitra ; Wächter, Thomas ; Pickersgill, Laura ; Eyre, Cecilia ; Schroeder, Michael

    Abstract | Document (40 KB) | BibTeX

    Ontology-based Extraction of Transcription Regulation Events
    Authors: Kim, Jung-Jae

    Abstract | Document (10 KB) | BibTeX

    Ontology-Based Interactive Information Extraction
    Authors: Milward, David

    Abstract | Document (17 KB) | BibTeX

    Services for annotation of biomedical text
    Authors: Hakenberg, Jörg

    Abstract | Document (70 KB) | BibTeX

    Systems biology approaches for prioritizing therapeutic gene targets
    Authors: Schuchhardt, Johannes

    Abstract | Document (17 KB) | BibTeX

    Term Mapping Using Matrix Operations
    Authors: Krauthammer, Michael ; Luong, Thaibinh

    Abstract | Document (103 KB) | BibTeX

    Text Mining and Management Tools for Resource Construction and Validation in the Life Sciences
    Authors: Park, Jong C.

    Abstract | Document (14 KB) | BibTeX

    Textpresso - an Information Retrieval and Extraction System for Biological Literature
    Authors: Mueller, Hans-Michael ; Rangarajan, Arun ; Teal, Tracy K. ; van Auken, Kimberly ; Chan, Juancarlos ; Sternberg, Paul W.

    Abstract | Document (158 KB) | BibTeX

    WordNet-Inspired Terminological Resources for Bio-NLP
    Authors: Beisswanger, Elena ; Poprat, Michael ; Hahn, Udo

    Abstract | Document (44 KB) | BibTeX

    		  



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