메뉴 건너뛰기




Volumn 26, Issue 7, 2010, Pages 905-911

GO-Bayes: Gene ontology-based overrepresentation analysis using a Bayesian approach

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BAYES THEOREM; BIOLOGY; DNA MICROARRAY; GENE EXPRESSION PROFILING; HUMAN; METHODOLOGY;

EID: 77951968341     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btq059     Document Type: Article
Times cited : (28)

References (34)
  • 1
    • 33745626459 scopus 로고    scopus 로고
    • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure
    • Alexa, A. et al. (2006) Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics, 22, 1600-1607.
    • (2006) Bioinformatics , vol.22 , pp. 1600-1607
    • Alexa, A.1
  • 2
    • 0037407306 scopus 로고    scopus 로고
    • Determinants of human B cell migration across brain endothelial cells
    • Alter, A. et al. (2003) Determinants of human B cell migration across brain endothelial cells. J. Immunol., 170, 4497-4505.
    • (2003) J. Immunol. , vol.170 , pp. 4497-4505
    • Alter, A.1
  • 3
    • 1542399989 scopus 로고    scopus 로고
    • FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes
    • Al-Shahrour, F. et al. (2004) FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes. Bioinformatics, 20, 578-580.
    • (2004) Bioinformatics , vol.20 , pp. 578-580
    • Al-Shahrour, F.1
  • 4
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: tool for the unification of biology The Gene Ontology Consortium
    • Ashburner, M. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
    • (2000) Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1
  • 5
    • 37249050237 scopus 로고    scopus 로고
    • Reverse engineering of regulatory networks in human B cells
    • Basso, K. et al. (2005) Reverse engineering of regulatory networks in human B cells. Nat. Genet., 17, 182-190.
    • (2005) Nat. Genet. , vol.17 , pp. 182-190
    • Basso, K.1
  • 6
    • 3142665525 scopus 로고    scopus 로고
    • GOstat: find statistically overrepresented gene ontologies within a group of genes
    • Beissbarth, T. and Speed, T.P. (2004) GOstat: find statistically overrepresented gene ontologies within a group of genes. Bioinformatics, 20, 1464-1465.
    • (2004) Bioinformatics , vol.20 , pp. 1464-1465
    • Beissbarth, T.1    Speed, T.P.2
  • 7
    • 36749032690 scopus 로고    scopus 로고
    • Tail posterior probability for inference in pairwise and multiclass gene expression data
    • Bochkina, N. and Richardson, S. (2007) Tail posterior probability for inference in pairwise and multiclass gene expression data. Biometrics, 63, 1117-1125.
    • (2007) Biometrics , vol.63 , pp. 1117-1125
    • Bochkina, N.1    Richardson, S.2
  • 8
    • 0028067339 scopus 로고
    • Neutrophil and B cell expansion in mice that lack the murine IL-8 receptor homolog
    • Cacalano, G. et al. (1994) Neutrophil and B cell expansion in mice that lack the murine IL-8 receptor homolog. Science, 265, 682-684.
    • (1994) Science , vol.265 , pp. 682-684
    • Cacalano, G.1
  • 9
    • 60849125094 scopus 로고    scopus 로고
    • Bayesian optimal discovery procedure for simultaneous significance testing
    • Cao, J. et al. (2009) Bayesian optimal discovery procedure for simultaneous significance testing. BMC Bioinformatics, 10, 5.
    • (2009) BMC Bioinformatics , vol.10 , pp. 5
    • Cao, J.1
  • 10
    • 0035163845 scopus 로고    scopus 로고
    • Transcriptional regulation and function during the human cell cycle
    • Cho, R.J. et al. (2001) Transcriptional regulation and function during the human cell cycle. Nat. Genet., 27, 48-54.
    • (2001) Nat. Genet. , vol.27 , pp. 48-54
    • Cho, R.J.1
  • 11
    • 18444401138 scopus 로고    scopus 로고
    • A Bayesian mixture model for differential gene expression
    • Do, K. et al. (2005) A Bayesian mixture model for differential gene expression. Appl. Stat., 54, 627-644.
    • (2005) Appl. Stat. , vol.54 , pp. 627-644
    • Do, K.1
  • 12
    • 0037293075 scopus 로고    scopus 로고
    • Global functional profiling of gene expression
    • Drǎghici, S. et al. (2003) Global functional profiling of gene expression. Genomics, 81, 98-104.
    • (2003) Genomics , vol.81 , pp. 98-104
    • Drǎghici, S.1
  • 13
    • 36448946146 scopus 로고    scopus 로고
    • Improved detection of overrepresentation of Gene-Ontology annotations with parent-child analysis
    • Grossmann, S. et al. (2007) Improved detection of overrepresentation of Gene-Ontology annotations with parent-child analysis. Bioinformatics, 23, 3024-3031.
    • (2007) Bioinformatics , vol.23 , pp. 3024-3031
    • Grossmann, S.1
  • 15
    • 0000324169 scopus 로고
    • Adaptive rejection sampling for Gibbs sampling
    • Gilks, W. and Wild, P. (1992) Adaptive rejection sampling for Gibbs sampling. Appl. Stat., 41, 337-348.
    • (1992) Appl. Stat. , vol.41 , pp. 337-348
    • Gilks, W.1    Wild, P.2
  • 16
    • 0033936847 scopus 로고    scopus 로고
    • Tyrosine kinase activation in the growth, differentiation and death responses initiated from the B cell antigen receptor
    • Hsueh, R. and Scheuermann, R.H. (2000) Tyrosine kinase activation in the growth, differentiation and death responses initiated from the B cell antigen receptor. Adv. Immunol., 75, 283-316.
    • (2000) Adv. Immunol. , vol.75 , pp. 283-316
    • Hsueh, R.1    Scheuermann, R.H.2
  • 17
    • 0035704901 scopus 로고    scopus 로고
    • Profiling gene expression using Onto-Express
    • Khatri, P. et al. (2002) Profiling gene expression using Onto-Express. Genomics, 79, 266-270.
    • (2002) Genomics , vol.79 , pp. 266-270
    • Khatri, P.1
  • 18
    • 24644470505 scopus 로고    scopus 로고
    • Ontological analysis of gene expression data: current tools, limitations, and open problems
    • Khatri, P. and Drǎghici, S. (2005) Ontological analysis of gene expression data: current tools, limitations, and open problems. Bioinformatics, 21, 3587-3595.
    • (2005) Bioinformatics , vol.21 , pp. 3587-3595
    • Khatri, P.1    Drǎghici, S.2
  • 19
    • 27944474776 scopus 로고    scopus 로고
    • ErmineJ: tool for functional analysis of gene expression data sets
    • Lee, H.K. et al. (2005) ErmineJ: tool for functional analysis of gene expression data sets. BMC Bioinformatics, 6, 269.
    • (2005) BMC Bioinformatics , vol.6 , pp. 269
    • Lee, H.K.1
  • 20
    • 33745062476 scopus 로고    scopus 로고
    • Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation
    • Lee, J.A. et al. (2006) Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation. BMC Bioinformatics, 7, 237.
    • (2006) BMC Bioinformatics , vol.7 , pp. 237
    • Lee, J.A.1
  • 21
    • 33846681448 scopus 로고    scopus 로고
    • Modular organization of protein Interaction networks
    • Luo, F. et al. (2007) Modular organization of protein Interaction networks. Bioinformatics, 23, 207-214.
    • (2007) Bioinformatics , vol.23 , pp. 207-214
    • Luo, F.1
  • 22
    • 33750580714 scopus 로고    scopus 로고
    • Grouping Gene Ontology terms to improve the assessment of gene set enrichment in microarray data
    • Lewin, A.M. and Grieve, I.C. (2006) Grouping Gene Ontology terms to improve the assessment of gene set enrichment in microarray data. BMC Bioinformatics, 7, 426.
    • (2006) BMC Bioinformatics , vol.7 , pp. 426
    • Lewin, A.M.1    Grieve, I.C.2
  • 23
    • 0942290443 scopus 로고    scopus 로고
    • Mechanisms of selection mediated by interleukin-7, the preBCR, and hemokinin-1 during B-cell development
    • Milne, C.D. et al. (2004) Mechanisms of selection mediated by interleukin-7, the preBCR, and hemokinin-1 during B-cell development. Immunol. Rev., 197, 75-88.
    • (2004) Immunol. Rev. , vol.197 , pp. 75-88
    • Milne, C.D.1
  • 24
    • 4444235995 scopus 로고    scopus 로고
    • Detecting differential gene expression with a semiparametric hierarchical mixture method
    • Newton, M.A. et al. (2004) Detecting differential gene expression with a semiparametric hierarchical mixture method. Biostatistics, 4, 155-176.
    • (2004) Biostatistics , vol.4 , pp. 155-176
    • Newton, M.A.1
  • 25
    • 0032766646 scopus 로고    scopus 로고
    • Impaired Immune Responses and B-Cell Proliferation in Mice Lacking the Id3 Gene
    • Pan, L. et al. (1999) Impaired Immune Responses and B-Cell Proliferation in Mice Lacking the Id3 Gene. Mol. Cell. Biol., 19, 5969-5980.
    • (1999) Mol. Cell. Biol. , vol.19 , pp. 5969-5980
    • Pan, L.1
  • 26
    • 0037457977 scopus 로고    scopus 로고
    • CTCF functions as a critical regulator of cell-cycle arrest and death after ligation of the B cell receptor on immature B cells
    • Qi, C. et al. (2003) CTCF functions as a critical regulator of cell-cycle arrest and death after ligation of the B cell receptor on immature B cells. Proc. Natl Acad. Sci. USA, 100, 633-638.
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 633-638
    • Qi, C.1
  • 27
    • 60749137393 scopus 로고    scopus 로고
    • Transforming growth factor β (TGFβ)-induced apoptosis
    • Ramesh, S. et al. (2009) Transforming growth factor β (TGFβ)-induced apoptosis. Cell Cycle, 8, 11-17.
    • (2009) Cell Cycle , vol.8 , pp. 11-17
    • Ramesh, S.1
  • 28
    • 0034144352 scopus 로고    scopus 로고
    • Genomic structure and DNA binding properties of the human zinc finger transcriptional repressor AP-2rep (KLF12)
    • Roth, C. et al. (2000) Genomic structure and DNA binding properties of the human zinc finger transcriptional repressor AP-2rep (KLF12). Genomics, 63, 384-390.
    • (2000) Genomics , vol.63 , pp. 384-390
    • Roth, C.1
  • 29
    • 27544434183 scopus 로고    scopus 로고
    • Essential function for the kinase TAK1 in innate and adaptive immune responses
    • Sato, S. et al. (2005) Essential function for the kinase TAK1 in innate and adaptive immune responses. Nat. Immunol., 6, 1087-1095.
    • (2005) Nat. Immunol. , vol.6 , pp. 1087-1095
    • Sato, S.1
  • 30
    • 0036020892 scopus 로고    scopus 로고
    • A direct approach to false discovery rate
    • Storey, J.D. (2002). A direct approach to false discovery rate. J. R. Stat. Soc. Ser. B, 64, 479-498.
    • (2002) J. R. Stat. Soc. Ser. B , vol.64 , pp. 479-498
    • Storey, J.D.1
  • 31
    • 0035942271 scopus 로고    scopus 로고
    • Significance analysis of microarrays applied to transcriptional responses to ionizing radiation
    • Tusher, V.G. et al. (2001) Significance analysis of microarrays applied to transcriptional responses to ionizing radiation. Proc. Natl Acad. Sci. USA, 98, 5116-5121.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 5116-5121
    • Tusher, V.G.1
  • 32
    • 35949000033 scopus 로고    scopus 로고
    • A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members
    • Xu, X. et al. (2000) A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members. Genome Res., 17, 1550-1561.
    • (2000) Genome Res. , vol.17 , pp. 1550-1561
    • Xu, X.1
  • 33
    • 41449093809 scopus 로고    scopus 로고
    • B-cell receptor activation induces BIC/miR-155 expression through a conserved AP-1 element
    • Yin, Q. et al. (2007) B-cell receptor activation induces BIC/miR-155 expression through a conserved AP-1 element. J. Biol. Chem., 283, 2654-2662.
    • (2007) J. Biol. Chem. , vol.283 , pp. 2654-2662
    • Yin, Q.1
  • 34
    • 61749100091 scopus 로고    scopus 로고
    • Alterations in cell growth and signaling in ErbB3 binding protein- 1 (Ebp1) deficient mice
    • Zhang, Y. et al. (2008)Alterations in cell growth and signaling in ErbB3 binding protein- 1 (Ebp1) deficient mice. BMC Cell Biol., 9, 69.
    • (2008) BMC Cell Biol. , vol.9 , pp. 69
    • Zhang, Y.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.