Supplements
Editor-in-Chief Melissa Norton, MD
Biology Editor Penelope Webb, PhD
In-house Editor Tim Sands PhD
BMC Bioinformatics publishes selected research, proceedings and collections of thematic reviews as supplements. All articles published in supplements are subject to peer review and are free to access online. The journal also publishes supplements containing meeting abstracts.
Contents of Volume 6 Suppl 1
A critical assessment of text mining methods in molecular biology
Reports
from A critical assessment of text mining methods in molecular biology
Granada, Spain. March 28
31, 2004
Edited by Christian Blaschke, Lynette Hirschman, Alfonso Valencia, Alexander Yeh
Introduction
Overview of BioCreAtIvE: critical assessment of information extraction for biology Lynette Hirschman, Alexander Yeh, Christian Blaschke, Alfonso Valencia BMC Bioinformatics 2005, 6 (Suppl 1):S1 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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BioCreAtIvE Task 1A: gene mention finding evaluation Alexander Yeh, Alexander Morgan, Marc Colosimo, Lynette Hirschman BMC Bioinformatics 2005, 6 (Suppl 1):S2 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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GENETAG: a tagged corpus for gene/protein named entity recognition Lorraine Tanabe, Natalie Xie, Lynne H Thom, Wayne Matten, W John Wilbur BMC Bioinformatics 2005, 6 (Suppl 1):S3 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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BioCreAtIvE Task1A: entity identification with a stochastic tagger Shuhei Kinoshita, K Bretonnel Cohen, Philip V Ogren, Lawrence Hunter BMC Bioinformatics 2005, 6 (Suppl 1):S4 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Exploring the boundaries: gene and protein identification in biomedical text Jenny Finkel, Shipra Dingare, Christopher D Manning, Malvina Nissim, Beatrice Alex, Claire Grover BMC Bioinformatics 2005, 6 (Suppl 1):S5 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Identifying gene and protein mentions in text using conditional random fields Ryan McDonald, Fernando Pereira BMC Bioinformatics 2005, 6 (Suppl 1):S6 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Recognition of protein/gene names from text using an ensemble of classifiers GuoDong Zhou, Dan Shen, Jie Zhang, Jian Su, SoonHeng Tan BMC Bioinformatics 2005, 6 (Suppl 1):S7 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Gene/protein name recognition based on support vector machine using dictionary as features Tomohiro Mitsumori, Sevrani Fation, Masaki Murata, Kouichi Doi, Hirohumi Doi BMC Bioinformatics 2005, 6 (Suppl 1):S8 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Systematic feature evaluation for gene name recognition J BMC Bioinformatics 2005, 6 (Suppl 1):S9 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Text Detective: a rule-based system for gene annotation in biomedical texts Javier Tamames BMC Bioinformatics 2005, 6 (Suppl 1):S10 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Overview of BioCreAtIvE task 1B: normalized gene lists Lynette Hirschman, Marc Colosimo, Alexander Morgan, Alexander Yeh BMC Bioinformatics 2005, 6 (Suppl 1):S11 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Data preparation and interannotator agreement: BioCreAtIvE Task 1B Marc E Colosimo, Alexander A Morgan, Alexander S Yeh, Jeffrey B Colombe, Lynette Hirschman BMC Bioinformatics 2005, 6 (Suppl 1):S12 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Automatically annotating documents with normalized gene lists Jeremiah Crim, Ryan McDonald, Fernando Pereira BMC Bioinformatics 2005, 6 (Suppl 1):S13 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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ProMiner: rule-based protein and gene entity recognition Daniel Hanisch, Katrin Fundel, Heinz-Theodor Mevissen, Ralf Zimmer, Juliane Fluck BMC Bioinformatics 2005, 6 (Suppl 1):S14 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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A simple approach for protein name identification: prospects and limits Katrin Fundel, Daniel G BMC Bioinformatics 2005, 6 (Suppl 1):S15 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Evaluation of BioCreAtIvE assessment of task 2 Christian Blaschke, Eduardo Andres Leon, Martin Krallinger, Alfonso Valencia BMC Bioinformatics 2005, 6 (Suppl 1):S16 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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An evaluation of GO annotation retrieval for BioCreAtIvE and GOA Evelyn B Camon, Daniel G Barrell, Emily C Dimmer, Vivian Lee, Michele Magrane, John Maslen, David Binns, Rolf Apweiler BMC Bioinformatics 2005, 6 (Suppl 1):S17 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Learning Statistical Models for Annotating Proteins with Function Information using Biomedical Text Soumya Ray, Mark Craven BMC Bioinformatics 2005, 6 (Suppl 1):S18 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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A sentence sliding window approach to extract protein annotations from biomedical articles Martin Krallinger, Maria Padron, Alfonso Valencia BMC Bioinformatics 2005, 6 (Suppl 1):S19 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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Protein annotation as term categorization in the gene ontology using word proximity networks Karin Verspoor, Judith Cohn, Cliff Joslyn, Sue Mniszewski, Andreas Rechtsteiner, Luis M Rocha, Tiago Simas BMC Bioinformatics 2005, 6 (Suppl 1):S20 (24 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
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31, 2004
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