Functional Cohesion of Gene Sets Determined by Latent Semantic Indexing of PubMed Abstracts
暂无分享,去创建一个
Michael W. Berry | Ramin Homayouni | Yunyue Lin | Lijing Xu | Kevin Heinrich | M. Berry | N. Furlotte | R. Homayouni | Kevin Heinrich | Lijing Xu | E. George | Nicholas Furlotte | Ebenezer O. George | Yunyue Lin
[1] Joaquín Dopazo,et al. SNOW, a web-based tool for the statistical analysis of protein–protein interaction networks , 2009, Nucleic Acids Res..
[2] José María Carazo,et al. Assessment of protein set coherence using functional annotations , 2008, BMC Bioinformatics.
[3] R. Altman,et al. Using text analysis to identify functionally coherent gene groups. , 2002, Genome research.
[4] Golan Yona,et al. Comparing algorithms for clustering of expression data: how to assess gene clusters. , 2009, Methods in molecular biology.
[5] Junguk Hur,et al. A graph-theoretic modeling on GO space for biological interpretation of gene clusters , 2004, Bioinform..
[6] Seon-Young Kim,et al. Gene-set approach for expression pattern analysis , 2008, Briefings Bioinform..
[7] M. Ashburner,et al. Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.
[8] M. Daly,et al. PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes , 2003, Nature Genetics.
[9] Tae-Min Kim,et al. Inferring biological functions and associated transcriptional regulators using gene set expression coherence analysis , 2007, BMC Bioinformatics.
[10] Ian B. Jeffery,et al. Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data , 2006, BMC Bioinformatics.
[11] Cliff Joslyn,et al. The Gene Ontology Categorizer , 2004, ISMB/ECCB.
[12] Pablo Tamayo,et al. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[13] Bin Zheng,et al. Using protein-semantic network metrics to evaluate functional coherence of protein groups. , 2007, AMIA ... Annual Symposium proceedings. AMIA Symposium.
[14] R. Gentleman,et al. Gene expression profile of adult T-cell acute lymphocytic leukemia identifies distinct subsets of patients with different response to therapy and survival. , 2004, Blood.
[15] Jonathan D. Wren,et al. Knowledge discovery by automated identification and ranking of implicit relationships , 2004, Bioinform..
[16] Zhen Jiang,et al. Gene set enrichment analysis using linear models and diagnostics , 2008, Bioinform..
[17] W. Pan,et al. How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach , 2002, Genome Biology.
[18] M. Schummer,et al. Selecting Differentially Expressed Genes from Microarray Experiments , 2003, Biometrics.
[19] Darrell Laham,et al. From paragraph to graph: Latent semantic analysis for information visualization , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[20] Barend Mons,et al. Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation , 2007, BMC Bioinformatics.
[21] Michael W. Berry,et al. Understanding search engines: mathematical modeling and text retrieval (software , 1999 .
[22] David Martin,et al. GOToolBox: functional analysis of gene datasets based on Gene Ontology , 2004, Genome Biology.
[23] Hinrich Schütze,et al. Book Reviews: Foundations of Statistical Natural Language Processing , 1999, CL.
[24] Yudi Pawitan,et al. False discovery rate, sensitivity and sample size for microarray studies , 2005, Bioinform..
[25] Joaquín Dopazo,et al. FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes , 2004, Bioinform..
[26] Ramin Homayouni,et al. Bioinformatic analysis reveals cRel as a regulator of a subset of interferon-stimulated genes. , 2008, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.
[27] Russ B. Altman,et al. A literature-based method for assessing the functional coherence of a gene group , 2003, Bioinform..
[28] John D. Storey. A direct approach to false discovery rates , 2002 .
[29] Zhen Jiang,et al. Bioconductor Project Bioconductor Project Working Papers Year Paper Extensions to Gene Set Enrichment , 2013 .
[30] Barend Mons,et al. Assignment of protein function and discovery of novel nucleolar proteins based on automatic analysis of MEDLINE , 2007, Proteomics.
[31] Bing Zhang,et al. WebGestalt: an integrated system for exploring gene sets in various biological contexts , 2005, Nucleic Acids Res..
[32] Xinghua Lu,et al. Novel metrics for evaluating the functional coherence of protein groups via protein semantic network , 2007, Genome Biology.
[33] Michael W. Berry,et al. Gene clustering by Latent Semantic Indexing of MEDLINE abstracts , 2005, Bioinform..
[34] Martijn J. Schuemie,et al. Novel Protein-Protein Interactions Inferred from Literature Context , 2009, PloS one.