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Overview of BioCreAtIvE: critical assessment of information extraction for biology

Overview of BioCreAtIvE: critical assessment of information extraction for biology

http://www.wikidata.org/entity/Q21093643

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Will a biological database be different from a biological journal?Mining the Gene Wiki for functional genomic knowledge Text-mining and information-retrieval services for molecular biology.Biomedical language processing: what's beyond PubMed?The Gene Ontology (GO) project in 2006 Event-based text mining for biology and functional genomics Biomedical relation extraction: from binary to complex Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition.Automated systems for the de-identification of longitudinal clinical narratives: Overview of 2014 i2b2/UTHealth shared task Track 1 SherLoc: high-accuracy prediction of protein subcellular localization by integrating text and protein sequence data Getting personalized cancer genome analysis into the clinic: the challenges in bioinformatics Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011 Learning the Structure of Biomedical Relationships from Unstructured Text Extraction of pharmacokinetic evidence of drug-drug interactions from the literature Bidirectional RNN for Medical Event Detection in Electronic Health Records A Survey of Bioinformatics Database and Software Usage through Mining the Literature Micropublications: a semantic model for claims, evidence, arguments and annotations in biomedical communications Ambiguity and variability of database and software names in bioinformatics Quantifying the impact and extent of undocumented biomedical synonymy Biocuration workflows and text mining: overview of the BioCreative 2012 Workshop Track II Integrating various resources for gene name normalization Mining the pharmacogenomics literature--a survey of the state of the art Bioinformatics for personal genome interpretation How to link ontologies and protein-protein interactions to literature: text-mining approaches and the BioCreative experience Exploiting MeSH indexing in MEDLINE to generate a data set for word sense disambiguation Automatic extraction of angiogenesis bioprocess from text Full text and figure display improves bioscience literature search iHOP web services Gene and protein nomenclature in public databases Ten simple rules for a community computational challenge On Crowd-verification of Biological Networks Overview of the interactive task in BioCreative V Automatic extraction of protein point mutations using a graph bigram association.Community challenges in biomedical text mining over 10 years: success, failure and the future.An open-source framework for large-scale, flexible evaluation of biomedical text mining systems.BioLit: integrating biological literature with databases.Large-scale event extraction from literature with multi-level gene normalization.Industrial methodology for process verification in research (IMPROVER): toward systems biology verification Managing the data deluge: data-driven GO category assignment improves while complexity of functional annotation increases.Mutationmapper: a tool to aid the mapping of protein mutation data.

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Overview of BioCreAtIvE: critical assessment of information extraction for biology

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Gene ontology: tool for the unification of biology

Text detective: a rule-based system for gene annotation in biomedical texts

Overview of BioCreAtIvE task 1B: normalized gene lists

Data preparation and interannotator agreement: BioCreAtIvE task 1B

Evaluation of BioCreAtIvE assessment of task 2

BioCreAtIvE task 1A: gene mention finding evaluation

Accomplishments and challenges in literature data mining for biology.

Evaluation of text data mining for database curation: lessons learned from the KDD Challenge Cup.

Protein annotation as term categorization in the gene ontology using word proximity networks

Data-poor categorization and passage retrieval for gene ontology annotation in Swiss-Prot.

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