(Selected) Papers, Poster and Talks by Jasmin Saric

Forthcoming in 2011

• Lee Harland, Christopher Larminie, Susanna-Assunta Sansone, Sorana Popa, M Scott Marshall, Michael Braxenthaler, Michael Cantor, Wendy Filsell, Mark J Forster, Enoch Huang, Andreas Matern, Mark Musen, Jasmin Saric, Ted Slater, Jabe Wilson, Nick Lynch, John Wise and Ian Dix (Forthcoming in 2011)
  Empowering Industrial Research With Shared Biomedical Vocabularies
  Drug Discovery Today

2011

• Jasmin Saric
  Target identification and beyond using Semantic Search
  Talk at 9th Pharmaceutical IT Congress 2011, London

2008

• Jasmin Saric, Henriette Engelken, and Uwe Reyle (2007)
  Discovering biomedical knowledge from Literature
  Functional Protemics

2007

• Massimiliano Ciaramita, Aldo Gangemi, Esther Ratsch, Jasmin Saric, Isabel Rojas (2007)
  Unsupervised Learning of Semantic Relations for Molecular Biology Ontologies
  To appear in: Bridging the Gap between Text and Knowledge - Selected Contributions to Ontology Learning and Population from Text
  Editors: P. Buitelaar and P. Cimiano, IOS Press

2006

• Lars J. Jensen, Jasmin Saric, and Peer Bork (2006)
  Literature mining for the biologist: from information retrieval to biological discovery
  Nature Reviews Genetics PMID: 16418747

2005

• Jasmin Saric , Lars J. Jensen, Rossitza Ouzounova, Isabel Rojas and Peer Bork (2005)
  Large-scale Extraction of Protein/Gene Relations for Model Organisms
  Accepted for: First International Symposium on Semantic Mining in Biomedicine 2005
  [PubMed] [Publisher]

• Massimiliano Ciaramita, Aldo Gangemi, Esther Ratsch, Jasmin Saric, Isabel Rojas (2005)
  Unsupervised Learning of Semantic Relations between Concepts of a Molecular Biology Ontology
  Accepted for: Proceedings of the Nineteenth International Joint Conference on Artificial Intelligence (IJCAI '05)
  

2004

• Saric, Jasmin; Lars J. Jensen; Isabel Rojas
  Large-scale Extraction of Gene Regulation for Model Organisms in an ontological context,
  Meeting Contribution for "The Third Workshop on Ontology and Genome -- Development and Applications of Ontologies on OMICS Research", Ontology Special, In Silico Biology5, 0004 (2004)
  (Online available)

• Cimiano, Philipp; Reyle, Uwe; Saric, Jasmin
  Ontology-Driven Discourse Analysis for Information Extraction, Data and Knowledge Engeneering Journal (2004).

• Saric, Jasmin;Rojas, Isabel; Ratsch, Esther; Kania, Renate; Wittig, Ulrike; Gangemi, Aldo (2004)
  Modelling gene expression Proceedings of Nettab 2004

• Saric, Jasmin; Lars J. Jensen; Ouzounova, Rossitza , Rojas, Isabel and Bork, Peer (2004)
  Extraction of Regulatory Gene Expression Networks from PubMed,
  Proceedings of the ACL 2004 Conference, Barcelona, Spain, 2004 (.pdf).

2003

• Isabel Rojas, Esther Ratsch, Jasmin Saric and U. Wittig (2003)
  Notes on the use of ontologies in the biochemical domain In Silico Biology 4, 0009.
  Online available

• Saric, Jasmin; Reyle, Uwe (2003)
  TIGERSearch attacks Proteins Poster at European Conference on Computational Biology (ECCB) in September 2003 (Please have a look at: ECCB 03).

• Ratsch, Esther; Schultz, Jörg; Saric, Jasmin; Cimiano Lavin, Philipp; Wittig, Ulrike; Reyle, Uwe and Rojas, Isabel (2003)
  Developing a protein-interactions ontology Comparative and Functional Genomics Volume 4, Issue 1, 2003: 85-89. Online ISSN: 1532-6268 Print ISSN: 1531-6912.
  Online available

2002

• Bernardi, Luca; Ratsch, Esther; Kania, Renate; Saric, Jasmin and Rojas, Isabel (2002)
  Interdisciplinary Work: The Key to Functional Genomics IEEE Intelligent Systems 17(3):66-68.

• Reyle, Uwe; Saric, Jasmin; Lavin, Philipp Cimiano and Zinsmeister, Heike (2002)
  Ontology-driven disambiguation of syntactic and semantic ambiguities in GenIE European Media Laboratory, Heidelberg. Poster at Workshop on Ontology for Biology.

• Reyle, Uwe; Saric, Jasmin; Lezius, Wolfgang and König, Esther (2002)
  TIGERSearch attacks Proteins European Media Laboratory, Heidelberg. Poster at Workshop on Ontology for Biology.

• Reyle, Uwe and Saric, Jasmin (2002)
  Corpus Driven Information Extraction in Robert Baud and Patrick Ruch, editors, Proceedings of the EFMI Workshop on Natural Language Processing in Biomedical Applications unknown, Nicosia, Cyprus.

• Rojas, Isabel; Bernardi, Luca; Ratsch, Esther; Kania, Renate; Wittig, Ulrike and Saric, Jasmin (2002)
  A database system for the analysis of biochemical pathways In Silico Biology 2, 0007.

2001

• Reyle, Uwe and Saric, Jasmin (2001)
  Ontology Driven Information Extraction in Proceedings of the nineteenth Twente Workshop on Language Technology, University of Twente, Enschede, Netherlands.

2000

• Saric, Jasmin (2000)
  Implementierung des Lexikons und der Tempuskonstruktion - Kompositionalität regelbasiert. in Uwe Reyle, editor, Presuppositions and Underspecification in the Computation of Temporal and other Relations in Discourse Arbeitsberichte des Sonderfoschungsbereichs 340, Stuttgart/Tübingen, Nr.164.