Metrics for GO based protein semantic similarity: a systematic evaluation
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Catia Pesquita | André O. Falcão | Daniel Faria | Francisco M. Couto | Hugo P. Bastos | António E. N. Ferreira | A. O. Falcão | Catia Pesquita | Daniel Faria | F. Couto
[1] Olivier Bodenreider,et al. Ontology-driven similarity approaches to supporting gene func- tional assessment , 2005 .
[2] Dekang Lin,et al. An Information-Theoretic Definition of Similarity , 1998, ICML.
[3] A. Valencia,et al. Intrinsic errors in genome annotation. , 2001, Trends in genetics : TIG.
[4] Mário J. Silva,et al. Semantic similarity over the gene ontology: family correlation and selecting disjunctive ancestors , 2005, CIKM '05.
[5] David W. Conrath,et al. Semantic Similarity Based on Corpus Statistics and Lexical Taxonomy , 1997, ROCLING/IJCLCLP.
[6] Trupti Joshi,et al. Quantitative assessment of relationship between sequence similarity and function similarity , 2007, BMC Genomics.
[7] Carol Friedman,et al. Information theory applied to the sparse gene ontology annotation network to predict novel gene function , 2007, ISMB/ECCB.
[8] Catia Pesquita,et al. Evaluating GO-based Semantic Similarity Measures , 2007 .
[9] Gene Ontology Consortium. The Gene Ontology (GO) database and informatics resource , 2003 .
[10] Rolf Apweiler,et al. GOAnnotator: linking protein GO annotations to evidence text , 2006, Journal of biomedical discovery and collaboration.
[11] A. Valencia. Automatic annotation of protein function. , 2005, Current opinion in structural biology.
[12] Lei Qin,et al. Semantic search among heterogeneous biological databases based on gene ontology. , 2004, Acta biochimica et biophysica Sinica.
[13] Carole A. Goble,et al. Semantic Similarity Measures as Tools for Exploring the Gene Ontology , 2002, Pacific Symposium on Biocomputing.
[14] Angel Rubio,et al. Correlation between gene expression and GO semantic similarity , 2005, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[15] Philip Resnik,et al. Semantic Similarity in a Taxonomy: An Information-Based Measure and its Application to Problems of Ambiguity in Natural Language , 1999, J. Artif. Intell. Res..
[16] Emily Dimmer,et al. The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology , 2004, Nucleic Acids Res..
[17] Xiaomei Wu,et al. Prediction of yeast protein–protein interaction network: insights from the Gene Ontology and annotations , 2006, Nucleic acids research.
[18] Thomas Lengauer,et al. A new measure for functional similarity of gene products based on Gene Ontology , 2006, BMC Bioinformatics.
[19] Christian Posse,et al. XOA: Web-Enabled Cross-Ontological Analytics , 2007, 2007 IEEE Congress on Services (Services 2007).
[20] Doheon Lee,et al. Modularized learning of genetic interaction networks from biological annotations and mRNA expression data , 2005, Bioinform..
[21] Hai Hu,et al. Assessing semantic similarity measures for the characterization of human regulatory pathways , 2006, Bioinform..
[22] Carole A. Goble,et al. Investigating Semantic Similarity Measures Across the Gene Ontology: The Relationship Between Sequence and Annotation , 2003, Bioinform..
[23] Mário J. Silva,et al. Measuring semantic similarity between Gene Ontology terms , 2007, Data Knowl. Eng..
[24] Anita Burgun-Parenthoine,et al. A transversal approach to predict gene product networks from ontology-based similarity , 2007, BMC Bioinformatics.
[25] Tero Aittokallio,et al. Improving missing value estimation in microarray data with gene ontology , 2006, Bioinform..
[26] Emily Dimmer,et al. An evaluation of GO annotation retrieval for BioCreAtIvE and GOA , 2005, BMC Bioinformatics.
[27] Lincoln Stein,et al. Genome annotation: from sequence to biology , 2001, Nature Reviews Genetics.
[28] Fatima Al-Shahrour,et al. Ontology-driven approaches to analyzing data in functional genomics. , 2006, Methods in molecular biology.
[29] B Marshall,et al. Gene Ontology Consortium: The Gene Ontology (GO) database and informatics resource , 2004, Nucleic Acids Res..
[30] Cathy H. Wu,et al. The Universal Protein Resource (UniProt): an expanding universe of protein information , 2005, Nucleic Acids Res..
[31] A. Valencia,et al. Practical limits of function prediction , 2000, Proteins.
[32] Lothar Reichel,et al. The relationship between protein sequences and their gene ontology functions , 2006, First International Multi-Symposiums on Computer and Computational Sciences (IMSCCS'06).
[33] Yang Dai,et al. Assessing protein similarity with Gene Ontology and its use in subnuclear localization prediction , 2006, BMC Bioinformatics.
[34] Catia Pesquita,et al. ProteInOn: A Web Tool for Protein Semantic Similarity , 2007 .
[35] Osamu Yoshie,et al. Extensive expansion and diversification of the chemokine gene family in zebrafish: Identification of a novel chemokine subfamily CX , 2008, BMC Genomics.
[36] Safaai Deris,et al. A genetic similarity algorithm for searching the Gene Ontology terms and annotating anonymous protein sequences , 2008, J. Biomed. Informatics.