BMC Bioinformatics Volume 11(Suppl 5); 2010

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Volume 11(Suppl 5); 2010

Introduction

Highlights of the BioTM 2010 workshop on advances in bio text mining

Thomas Abeel, Sofie Van Landeghem, Roser Morante, Vincent Van Asch, Yves Van de Peer, Walter Daelemans, Yvan Saeys

BMC Bioinformatics. 2010; 11(Suppl 5): I1. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-I1

PMCID:: PMC2956387

Full Text PDF–170K

Oral Presentation

The PPI affix dictionary (PPIAD) and BioMethod Lexicon: importance of affixes and tags for recognition of entity mentions and experimental protein interactions

Martin Krallinger, Ashish V Tendulkar, Florian Leitner, Andrew Chatr-aryamontri, Alfonso Valencia

BMC Bioinformatics. 2010; 11(Suppl 5): O1. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O1

PMCID:: PMC2956388

Full Text PDF–390K

Event extraction on PubMed scale

Filip Ginter, Jari Björne, Sampo Pyysalo

BMC Bioinformatics. 2010; 11(Suppl 5): O2. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O2

PMCID:: PMC2956389

Full Text PDF–149K

Integrating text mining into high-throughput assay analysis

K Bretonnel Cohen

BMC Bioinformatics. 2010; 11(Suppl 5): O3. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O3

PMCID:: PMC2956390

Full Text PDF–139K

Pitfalls in applying text mining to scientific literature

Jean-Marc Neefs

BMC Bioinformatics. 2010; 11(Suppl 5): O4. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O4

PMCID:: PMC2956391

Full Text PDF–137K

Integrating automated literature searches and text mining in biomarker discovery

Maté Ongenaert, Luc Dehaspe

BMC Bioinformatics. 2010; 11(Suppl 5): O5. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O5

PMCID:: PMC2956392

Full Text PDF–274K

Entities, relations, events: representing biomolecular semantics

Sampo Pyysalo

BMC Bioinformatics. 2010; 11(Suppl 5): O6. Published online 2010 September 20. doi: 10.1186/1471-2105-11-S5-O6

PMCID:: PMC2956393

Full Text PDF–206K

Poster Presentation

Functional variation of alternative splice forms in their protein interaction networks: a literature mining approach

Şenay Kafkas, Ekrem Varoğlu, Dietrich Rebholz-Schuhmann, Bahar Taneri

BMC Bioinformatics. 2010; 11(Suppl 5): P1. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P1

PMCID:: PMC2956394

Full Text PDF–153K

Supporting the search for cross-context links by outlier detection methods

Borut Sluban, Nada Lavrač

BMC Bioinformatics. 2010; 11(Suppl 5): P2. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P2

PMCID:: PMC2956395

Full Text PDF–206K

Semantic integration of isolation habitat and location in StrainInfo

Bert Verslyppe, Wim De Smet, Paul De Vos, Bernard De Baets, Peter Dawyndt

BMC Bioinformatics. 2010; 11(Suppl 5): P3. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P3

PMCID:: PMC2956396

Full Text PDF–153K

Identification of concepts bridging diverse biomedical domains

Matjaž Juršič, Igor Mozetič, Miha Grčar, Bojan Cestnik, Nada Lavrač

BMC Bioinformatics. 2010; 11(Suppl 5): P4. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P4

PMCID:: PMC2956397

Full Text PDF–253K

Species identification for gene name normalization

Illés Solt, Domonkos Tikk, Ulf Leser

BMC Bioinformatics. 2010; 11(Suppl 5): P5. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P5

PMCID:: PMC2956398

Full Text PDF–157K

BioLMiner and the BioCreative II.5 challenge

Yifei Chen, Feng Liu, Bernard Manderick

BMC Bioinformatics. 2010; 11(Suppl 5): P6. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P6

PMCID:: PMC2956399

Full Text PDF–208K

Medie and Info-pubmed: 2010 update

Tomoko Ohta, Takuya Matsuzaki, Naoaki Okazaki, Makoto Miwa, Rune Sætre, Sampo Pyysalo, Jun’ichi Tsujii

BMC Bioinformatics. 2010; 11(Suppl 5): P7. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P7

PMCID:: PMC2956400

Full Text PDF–238K

A fast and effective dependency graph kernel for PPI relation extraction

Domonkos Tikk, Peter Palaga, Ulf Leser

BMC Bioinformatics. 2010; 11(Suppl 5): P8. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P8

PMCID:: PMC2956401

Full Text PDF–156K

Extracting drug-drug interactions from biomedical texts

Isabel Segura-Bedmar, Paloma Martínez, César de Pablo-Sánchez

BMC Bioinformatics. 2010; 11(Suppl 5): P9. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-P9

PMCID:: PMC2956402

Full Text PDF–203K

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