Text-mining approaches in molecular biology and biomedicine.
暂无分享,去创建一个
Alfonso Valencia | Martin Krallinger | Ramon Alonso-Allende Erhardt | A. Valencia | Martin Krallinger
[1] Toshihisa Takagi,et al. Automated extraction of information on protein-protein interactions from the biological literature , 2001, Bioinform..
[2] D. Lindberg,et al. The Unified Medical Language System , 1993, Methods of Information in Medicine.
[3] Hagit Shatkay,et al. Genes, Themes, and Microarrays: Using Information Retrieval for Large-Scale Gene Analysis , 2000, ISMB.
[4] Michael Krauthammer,et al. GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles , 2001, ISMB.
[5] Ng,et al. Toward Routine Automatic Pathway Discovery from On-line Scientific Text Abstracts. , 1999, Genome informatics. Workshop on Genome Informatics.
[6] Peter Uetz,et al. Protein interaction maps on the fly , 2004, Nature Biotechnology.
[7] Hagit Shatkay,et al. Mining the Biomedical Literature in the Genomic Era: An Overview , 2003, J. Comput. Biol..
[8] Ronen Feldman,et al. Mining the biomedical literature using semantic analysis and natural language processing techniques , 2003 .
[9] Avi Shoshan,et al. Large-scale protein annotation through gene ontology. , 2002, Genome research.
[10] Alfonso Valencia,et al. Information extraction in molecular biology , 2002, Briefings Bioinform..
[11] T. Jenssen,et al. A literature network of human genes for high-throughput analysis of gene expression , 2001, Nature Genetics.
[12] Carol Friedman,et al. A broad-coverage natural language processing system , 2000, AMIA.
[13] Lawrence Hunter,et al. Mining molecular binding terminology from biomedical text , 1999, AMIA.
[14] Gabriele Ausiello,et al. MINT: the Molecular INTeraction database , 2006, Nucleic Acids Res..
[15] Michael J. E. Sternberg,et al. Predicting the Sub-Cellular Location of Proteins from Text Using Support Vector Machines , 2001, Pacific Symposium on Biocomputing.
[16] Chris Sander,et al. GeneQuiz: A Workbench for Sequence Analysis , 1994, ISMB.
[17] Kara Dolinski,et al. Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO) , 2002, Nucleic Acids Res..
[18] T. Takagi,et al. Toward information extraction: identifying protein names from biological papers. , 1998, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.
[19] Alexander A. Morgan,et al. Overview of BioCreAtIvE task 1B: normalized gene lists , 2005, BMC Bioinformatics.
[20] Joel D. Martin,et al. PreBIND and Textomy – mining the biomedical literature for protein-protein interactions using a support vector machine , 2003, BMC Bioinformatics.
[21] Alfonso Valencia,et al. Assessing the Correlation between Contextual Patterns and Biological Entity Tagging , 2004, NLPBA/BioNLP.
[22] W. John Wilbur,et al. The Effectiveness of Document Neighboring in Search Enhancement , 1994, Inf. Process. Manag..
[23] Alexander A. Morgan,et al. Evaluation of text data mining for database curation: lessons learned from the KDD Challenge Cup , 2003, ISMB.
[24] A. J. Schroeder,et al. The FlyBase database of the Drosophila Genome Projects and community literature. , 2002, Nucleic acids research.
[25] Jeffrey T. Chang,et al. Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature. , 2002, Genome research.
[26] Martin Vingron,et al. IntAct: an open source molecular interaction database , 2004, Nucleic Acids Res..
[27] Dmitrij Frishman,et al. Functional and structural genomics using PEDANT , 2001, Bioinform..
[28] Judith A. Blake,et al. MGD: the Mouse Genome Database , 2003, Nucleic Acids Res..
[29] C. Friedman,et al. Using BLAST for identifying gene and protein names in journal articles. , 2000, Gene.
[30] N R Smalheiser,et al. Using ARROWSMITH: a computer-assisted approach to formulating and assessing scientific hypotheses. , 1998, Computer methods and programs in biomedicine.
[31] Jun'ichi Tsujii,et al. Tuning support vector machines for biomedical named entity recognition , 2002, ACL Workshop on Natural Language Processing in the Biomedical Domain.
[32] Olivier Bodenreider,et al. The Unified Medical Language System (UMLS): integrating biomedical terminology , 2004, Nucleic Acids Res..
[33] Gary D Bader,et al. BIND--The Biomolecular Interaction Network Database. , 2001, Nucleic acids research.
[34] Vasileios Hatzivassiloglou,et al. Learning anchor verbs for biological interaction patterns from published text articles , 2002, Int. J. Medical Informatics.
[35] G. Schuler,et al. Entrez: molecular biology database and retrieval system. , 1996, Methods in enzymology.
[36] Michael Krauthammer,et al. GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data , 2004, J. Biomed. Informatics.
[37] Alfonso Valencia,et al. Evaluation of BioCreAtIvE assessment of task 2 , 2005, BMC Bioinformatics.
[38] C. Blaschke,et al. The potential use of SUISEKI as a protein interaction discovery tool. , 2001, Genome informatics. International Conference on Genome Informatics.
[39] Limsoon Wong,et al. Accomplishments and challenges in literature data mining for biology , 2002, Bioinform..
[40] Burkhard Rost,et al. Inferring sub-cellular localization through automated lexical analysis , 2002, ISMB.
[41] Jun'ichi Tsujii,et al. GENIA corpus - a semantically annotated corpus for bio-textmining , 2003, ISMB.
[42] Vasileios Hatzivassiloglou,et al. Disambiguating proteins, genes, and RNA in text: a machine learning approach , 2001, ISMB.
[43] A. Valencia,et al. Computational methods for the prediction of protein interactions. , 2002, Current opinion in structural biology.
[44] A. Valencia,et al. A gene network for navigating the literature , 2004, Nature Genetics.
[45] Rolf Apweiler,et al. A novel method for automatic functional annotation of proteins , 1999, Bioinform..
[46] W. Gelbart. The FlyBase database of the Drosophila genome projects and community literature. , 2002, Nucleic acids research.
[47] Joaquín Dopazo,et al. FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes , 2004, Bioinform..
[48] Miguel A. Andrade-Navarro,et al. Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions , 1999, ISMB.
[49] Gregory D. Schuler,et al. Database resources of the National Center for Biotechnology , 2003, Nucleic Acids Res..
[50] A. Valencia,et al. Practical limits of function prediction , 2000, Proteins.
[51] Alfonso Valencia,et al. The Frame-Based Module of the SUISEKI Information Extraction System , 2002, IEEE Intell. Syst..
[52] Allen C. Browne,et al. Analysis of biomedical text for chemical names: a comparison of three methods , 1999, AMIA.
[53] Alfonso Valencia,et al. Automatic annotation of protein function based on family identification , 2003, Proteins.
[54] Miguel A. Andrade-Navarro,et al. Automatic extraction of keywords from scientific text: application to the knowledge domain of protein families , 1998, Bioinform..
[55] Chris Sander,et al. EUCLID: automatic classification of proteins in functional classes by their database annotations , 1998, Bioinform..
[56] D. Swanson. Fish Oil, Raynaud's Syndrome, and Undiscovered Public Knowledge , 2015, Perspectives in biology and medicine.
[57] Russ B. Altman,et al. A literature-based method for assessing the functional coherence of a gene group , 2003, Bioinform..
[58] Emily Dimmer,et al. The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology , 2004, Nucleic Acids Res..
[59] Thomas C. Rindflesch,et al. EDGAR: extraction of drugs, genes and relations from the biomedical literature. , 1999, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.
[60] A. Valencia,et al. Mining functional information associated with expression arrays , 2001, Functional & Integrative Genomics.
[61] William R. Hersh,et al. TREC GENOMICS Track Overview , 2003, TREC.
[62] Maria Jesus Martin,et al. The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 , 2003, Nucleic Acids Res..
[63] C. Blaschke,et al. Expression profiles and biological function. , 2000, Genome informatics. Workshop on Genome Informatics.
[64] Nigel Collier,et al. Automatic Term Identification and Classification in Biology Texts. , 1999 .
[65] James A. Hendler,et al. The National Cancer Institute's Thésaurus and Ontology , 2003, J. Web Semant..
[66] Lorraine K. Tanabe,et al. Tagging gene and protein names in biomedical text , 2002, Bioinform..
[67] M. Ashburner,et al. Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.
[68] C. Lindberg. The Unified Medical Language System (UMLS) of the National Library of Medicine. , 1990, Journal.
[69] Michael J. E. Sternberg,et al. SAWTED: Structure Assignment With Text Description-Enhanced detection of remote homologues with automated SWISS-PROT annotation comparisons , 2000, Bioinform..
[70] Jerry R. Hobbs. Information extraction from biomedical text , 2002, J. Biomed. Informatics.
[71] Ioannis Xenarios,et al. DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions , 2002, Nucleic Acids Res..