Published in BMC Bioinformatics on October 03, 2011
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Extraction of pharmacokinetic evidence of drug-drug interactions from the literature. PLoS One (2015) 0.79
The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge. Database (Oxford) (2016) 0.78
BioCreative V CDR task corpus: a resource for chemical disease relation extraction. Database (Oxford) (2016) 0.76
Detection and categorization of bacteria habitats using shallow linguistic analysis. BMC Bioinformatics (2015) 0.76
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NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease. J Biomed Semantics (2016) 0.75
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The BioC-BioGRID corpus: full text articles annotated for curation of protein-protein and genetic interactions. Database (Oxford) (2017) 0.75
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Coreference resolution improves extraction of Biological Expression Language statements from texts. Database (Oxford) (2016) 0.75
Improving chemical disease relation extraction with rich features and weakly labeled data. J Cheminform (2016) 0.75
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The IntAct molecular interaction database in 2010. Nucleic Acids Res (2009) 9.85
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BioCreAtIvE task 1A: gene mention finding evaluation. BMC Bioinformatics (2005) 8.09
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PreBIND and Textomy--mining the biomedical literature for protein-protein interactions using a support vector machine. BMC Bioinformatics (2003) 6.31
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Automated extraction of information on protein-protein interactions from the biological literature. Bioinformatics (2001) 4.57
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An effective general purpose approach for automated biomedical document classification. AMIA Annu Symp Proc (2006) 3.47
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Evaluation of linguistic features useful in extraction of interactions from PubMed; application to annotating known, high-throughput and predicted interactions in I2D. Bioinformatics (2009) 2.78
Introducing meta-services for biomedical information extraction. Genome Biol (2008) 2.78
The TREC 2004 genomics track categorization task: classifying full text biomedical documents. J Biomed Discov Collab (2006) 2.55
Multi-dimensional classification of biomedical text: toward automated, practical provision of high-utility text to diverse users. Bioinformatics (2008) 2.54
The use of common ontologies and controlled vocabularies to enable data exchange and deposition for complex proteomic experiments. Pac Symp Biocomput (2005) 2.29
MScanner: a classifier for retrieving Medline citations. BMC Bioinformatics (2008) 2.24
Integrating text mining into the MGI biocuration workflow. Database (Oxford) (2009) 2.21
The FEBS Letters/BioCreative II.5 experiment: making biological information accessible. Nat Biotechnol (2010) 2.18
Automating document classification for the Immune Epitope Database. BMC Bioinformatics (2007) 1.76
MINT and IntAct contribute to the Second BioCreative challenge: serving the text-mining community with high quality molecular interaction data. Genome Biol (2008) 1.76
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OntoGene in BioCreative II. Genome Biol (2008) 1.65
MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Res (2009) 1.64
OntoGene in BioCreative II.5. IEEE/ACM Trans Comput Biol Bioinform (2010) 1.62
Ranking the whole MEDLINE database according to a large training set using text indexing. BMC Bioinformatics (2005) 1.47
Bayesian inference of protein-protein interactions from biological literature. Bioinformatics (2009) 1.35
Classifying protein-protein interaction articles using word and syntactic features. BMC Bioinformatics (2011) 1.27
Uncovering protein interaction in abstracts and text using a novel linear model and word proximity networks. Genome Biol (2008) 1.19
The Ineffectiveness of Within - Document Term Frequency in Text Classification. Inf Retr Boston (2009) 1.04
Creating reference datasets for systems biology applications using text mining. Ann N Y Acad Sci (2009) 1.04
Classification of protein-protein interaction full-text documents using text and citation network features. IEEE/ACM Trans Comput Biol Bioinform (2010) 1.02
Protein interaction: same network, different hubs. Trends Genet (2003) 0.96
A linear classifier based on entity recognition tools and a statistical approach to method extraction in the protein-protein interaction literature. BMC Bioinformatics (2011) 0.89
A comparative analysis of retrieval features used in the TREC 2006 Genomics Track passage retrieval task. AMIA Annu Symp Proc (2007) 0.84
Identifying relevant data for a biological database: handcrafted rules versus machine learning. IEEE/ACM Trans Comput Biol Bioinform (2011) 0.83
Extract interaction detection methods from the biological literature. BMC Bioinformatics (2009) 0.83
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature (2002) 37.66
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International network of cancer genome projects. Nature (2010) 20.35
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GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res (2012) 19.19
MINT: a Molecular INTeraction database. FEBS Lett (2002) 17.21
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IntAct: an open source molecular interaction database. Nucleic Acids Res (2004) 15.02
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Whole-genome sequencing identifies recurrent mutations in chronic lymphocytic leukaemia. Nature (2011) 13.18
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MINT: the Molecular INTeraction database. Nucleic Acids Res (2006) 11.90
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Tagging gene and protein names in biomedical text. Bioinformatics (2002) 10.03
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2011) 8.62
The chemical genomic portrait of yeast: uncovering a phenotype for all genes. Science (2008) 8.52
The BioGRID Interaction Database: 2011 update. Nucleic Acids Res (2010) 8.46
The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol (2007) 8.24
Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol (2007) 8.03
Global analysis of protein phosphorylation in yeast. Nature (2005) 7.46
MINT, the molecular interaction database: 2009 update. Nucleic Acids Res (2009) 7.19
A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules. Science (2001) 7.08
Systematic identification of pathways that couple cell growth and division in yeast. Science (2002) 6.95
ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res (2003) 6.86
Exome sequencing identifies recurrent mutations of the splicing factor SF3B1 gene in chronic lymphocytic leukemia. Nat Genet (2011) 6.43
A gene network for navigating the literature. Nat Genet (2004) 6.43
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Osprey: a network visualization system. Genome Biol (2003) 6.23
GENETAG: a tagged corpus for gene/protein named entity recognition. BMC Bioinformatics (2005) 6.19
The BioGRID interaction database: 2013 update. Nucleic Acids Res (2012) 6.09
Whole-genome shotgun assembly and comparison of human genome assemblies. Proc Natl Acad Sci U S A (2004) 6.08
Evaluation of BioCreAtIvE assessment of task 2. BMC Bioinformatics (2005) 6.02
BANNER: an executable survey of advances in biomedical named entity recognition. Pac Symp Biocomput (2008) 5.98
A global protein kinase and phosphatase interaction network in yeast. Science (2010) 5.95
Structural basis for phosphodependent substrate selection and orientation by the SCFCdc4 ubiquitin ligase. Cell (2003) 5.72
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F-SNP: computationally predicted functional SNPs for disease association studies. Nucleic Acids Res (2007) 5.34
PubMed related articles: a probabilistic topic-based model for content similarity. BMC Bioinformatics (2007) 5.30
MINT, the molecular interaction database: 2012 update. Nucleic Acids Res (2011) 5.25
A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev (2004) 5.08
Overview of BioCreative II gene normalization. Genome Biol (2008) 5.05
PSICQUIC and PSISCORE: accessing and scoring molecular interactions. Nat Methods (2011) 5.01
Reductive genome evolution in Buchnera aphidicola. Proc Natl Acad Sci U S A (2003) 4.88
How cells coordinate growth and division. Curr Biol (2004) 4.81
A large-scale evaluation of computational protein function prediction. Nat Methods (2013) 4.61
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J Biomed Inform (2004) 4.57
A hitchhiker's guide to the cullin ubiquitin ligases: SCF and its kin. Biochim Biophys Acta (2004) 4.53
The MIntAct project--IntAct as a common curation platform for 11 molecular interaction databases. Nucleic Acids Res (2013) 4.39
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The Transporter Classification Database: recent advances. Nucleic Acids Res (2008) 4.26
Distinct DNA methylomes of newborns and centenarians. Proc Natl Acad Sci U S A (2012) 4.26
A mechanism for cell-cycle regulation of MAP kinase signaling in a yeast differentiation pathway. Cell (2007) 4.21
The BTB protein MEL-26 is a substrate-specific adaptor of the CUL-3 ubiquitin-ligase. Nature (2003) 4.18
The GRID: the General Repository for Interaction Datasets. Genome Biol (2003) 4.09
CDK activity antagonizes Whi5, an inhibitor of G1/S transcription in yeast. Cell (2004) 4.04
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GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Res (2009) 3.91
Implementing the iHOP concept for navigation of biomedical literature. Bioinformatics (2005) 3.85
Linear motif atlas for phosphorylation-dependent signaling. Sci Signal (2008) 3.77
HomoMINT: an inferred human network based on orthology mapping of protein interactions discovered in model organisms. BMC Bioinformatics (2005) 3.75
DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction. Nat Genet (2009) 3.73
Molecular profiling of non-small cell lung cancer and correlation with disease-free survival. Cancer Res (2002) 3.68
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SAINT: probabilistic scoring of affinity purification-mass spectrometry data. Nat Methods (2010) 3.50