메뉴 건너뛰기




Volumn 23, Issue 2, 2005, Pages 238-243

Functional annotation and network reconstruction through cross-platform integration of microarray data

Author keywords

[No Author keywords available]

Indexed keywords

DATA REDUCTION; GENES; YEAST;

EID: 20844437991     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/nbt1058     Document Type: Article
Times cited : (125)

References (30)
  • 1
    • 0036081355 scopus 로고    scopus 로고
    • Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
    • Edgar, R., Domrachev, M. & Lash, A.E. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 30, 207-210 (2002).
    • (2002) Nucleic Acids Res. , vol.30 , pp. 207-210
    • Edgar, R.1    Domrachev, M.2    Lash, A.E.3
  • 2
    • 0037249405 scopus 로고    scopus 로고
    • The Stanford Microarray Database: Data access and quality assessment tools
    • Gollub, J. et al. The Stanford Microarray Database: data access and quality assessment tools. Nucleic Acids Res. 31, 94-96 (2003).
    • (2003) Nucleic Acids Res. , vol.31 , pp. 94-96
    • Gollub, J.1
  • 5
    • 0036790999 scopus 로고    scopus 로고
    • Transitive functional annotation by shortest-path analysis of gene expression data
    • Zhou, X., Kao, M.C. & Wong, W.H. Transitive functional annotation by shortest-path analysis of gene expression data. Proc. Natl. Acad. Sci. USA 99, 12783-12788 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 12783-12788
    • Zhou, X.1    Kao, M.C.2    Wong, W.H.3
  • 6
    • 3042694117 scopus 로고    scopus 로고
    • Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression
    • Rhodes, D.R. et al. Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression. Proc. Natl. Acad. Sci. USA 101, 9309-9314 (2004).
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 9309-9314
    • Rhodes, D.R.1
  • 7
    • 2942582468 scopus 로고    scopus 로고
    • Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data
    • Gao, F., Foat, B.C. & Bussemaker, H.J. Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data. BMC Bioinformatics 5, 31 (2004).
    • (2004) BMC Bioinformatics , vol.5 , pp. 31
    • Gao, F.1    Foat, B.C.2    Bussemaker, H.J.3
  • 8
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart, J.M., Segal, E., Koller, D. & Kim, S.K. A gene-coexpression network for global discovery of conserved genetic modules. Science 302, 249-255 (2003).
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 9
    • 0036894656 scopus 로고    scopus 로고
    • Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae
    • Horak, C.E. et al. Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev. 16, 3017-3033 (2002).
    • (2002) Genes Dev. , vol.16 , pp. 3017-3033
    • Horak, C.E.1
  • 10
    • 0032508637 scopus 로고    scopus 로고
    • Metalloregulation of FRE1 and FRE2 homologs in Saccharomyces cerevisiae
    • Martins, L.J. et al. Metalloregulation of FRE1 and FRE2 homologs in Saccharomyces cerevisiae. J. Biol. Chem. 273, 23716-23721 (1998).
    • (1998) J. Biol. Chem. , vol.273 , pp. 23716-23721
    • Martins, L.J.1
  • 11
    • 0037174671 scopus 로고    scopus 로고
    • Transcriptional regulatory networks in Saccharomyces cerevisiae
    • Lee, T.I. et al. Transcriptional regulatory networks in Saccharomyces cerevisiae. Science 298, 799-804 (2002).
    • (2002) Science , vol.298 , pp. 799-804
    • Lee, T.I.1
  • 12
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast protein interactome
    • Ito, T. et al. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl. Acad. Sci. USA 98, 4569-4574 (2001).
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 4569-4574
    • Ito, T.1
  • 13
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz, P. et al. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403, 623-627 (2000).
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1
  • 14
    • 0037050026 scopus 로고    scopus 로고
    • Functional organization of the yeast proteome by systematic analysis of protein complexes
    • Gavin, A.C. et al. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415, 141-147 (2002).
    • (2002) Nature , vol.415 , pp. 141-147
    • Gavin, A.C.1
  • 15
    • 0037050004 scopus 로고    scopus 로고
    • Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
    • Ho, Y. et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415, 180-183 (2002).
    • (2002) Nature , vol.415 , pp. 180-183
    • Ho, Y.1
  • 16
    • 0036900861 scopus 로고    scopus 로고
    • Transcriptional regulatory networks and the yeast cell cycle
    • Futcher, B. Transcriptional regulatory networks and the yeast cell cycle. Curr. Opin. Cell Biol. 14, 676-683 (2002).
    • (2002) Curr. Opin. Cell Biol. , vol.14 , pp. 676-683
    • Futcher, B.1
  • 17
    • 0027393364 scopus 로고
    • The general amino acid control regulates MET4, which encodes a methionine-pathway-specific transcriptional activator of Saccharomyces cerevisiae
    • Mountain, H.A., Bystrom, A.S. & Korch, C. The general amino acid control regulates MET4, which encodes a methionine-pathway-specific transcriptional activator of Saccharomyces cerevisiae. Mol. Microbiol. 7, 215-228 (1993).
    • (1993) Mol. Microbiol. , vol.7 , pp. 215-228
    • Mountain, H.A.1    Bystrom, A.S.2    Korch, C.3
  • 18
    • 0023649925 scopus 로고
    • Structure of yeast regulatory gene LEU3 and evidence that LEU3 itself is under general amino acid control
    • Zhou, K., Brisco, P.R., Hinkkanen, A.E. & Kohlhaw, G.B. Structure of yeast regulatory gene LEU3 and evidence that LEU3 itself is under general amino acid control. Nucleic Acids Res. 15, 5261-5273 (1987).
    • (1987) Nucleic Acids Res. , vol.15 , pp. 5261-5273
    • Zhou, K.1    Brisco, P.R.2    Hinkkanen, A.E.3    Kohlhaw, G.B.4
  • 19
    • 0037173615 scopus 로고    scopus 로고
    • Functional profiling of the Saccharomyces cerevisiae genome
    • Giaever, G. et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature 418, 387-391 (2002).
    • (2002) Nature , vol.418 , pp. 387-391
    • Giaever, G.1
  • 20
    • 0033672594 scopus 로고    scopus 로고
    • The core meiotic transcriptome in budding yeasts
    • Primig, M. et al. The core meiotic transcriptome in budding yeasts. Nat. Genet 26, 415-423 (2000).
    • (2000) Nat. Genet , vol.26 , pp. 415-423
    • Primig, M.1
  • 21
    • 0032561246 scopus 로고    scopus 로고
    • The transcriptional program of sporulation in budding yeast
    • Chu, S. et al. The transcriptional program of sporulation in budding yeast. Science 282, 699-705 (1998).
    • (1998) Science , vol.282 , pp. 699-705
    • Chu, S.1
  • 22
    • 1542357674 scopus 로고    scopus 로고
    • Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genome-wide data
    • Tanay, A., Sharan, R., Kupiec, M. & Shamir, R. Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genome-wide data. Proc. Natl. Acad. Sci. USA 101, 2981-2986 (2004).
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 2981-2986
    • Tanay, A.1    Sharan, R.2    Kupiec, M.3    Shamir, R.4
  • 23
    • 0037941585 scopus 로고    scopus 로고
    • Module networks: Identifying regulatory modules and their condition-specific regulators from gene expression data
    • Segal, E. et al. Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Nat. Genet. 34, 166-176 (2003).
    • (2003) Nat. Genet. , vol.34 , pp. 166-176
    • Segal, E.1
  • 24
    • 10744226222 scopus 로고    scopus 로고
    • Computational discovery of gene modules and regulatory networks
    • Bar-Joseph, Z. et al. Computational discovery of gene modules and regulatory networks. Nat. Biotechnol. 21, 1337-1342 (2003).
    • (2003) Nat. Biotechnol. , vol.21 , pp. 1337-1342
    • Bar-Joseph, Z.1
  • 25
    • 0034973590 scopus 로고    scopus 로고
    • Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast
    • Natarajan, K. et al. Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast. Mol. Cell. Biol. 21, 4347-4368 (2001).
    • (2001) Mol. Cell. Biol. , vol.21 , pp. 4347-4368
    • Natarajan, K.1
  • 26
    • 0034603061 scopus 로고    scopus 로고
    • Signaling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles
    • Roberts, C.J. et al. Signaling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles. Science 287, 873-880 (2000).
    • (2000) Science , vol.287 , pp. 873-880
    • Roberts, C.J.1
  • 27
    • 0034616930 scopus 로고    scopus 로고
    • Functional discovery via a compendium of expression profiles
    • Hughes, T.R. et al. Functional discovery via a compendium of expression profiles. Cell 102, 109-126 (2000).
    • (2000) Cell , vol.102 , pp. 109-126
    • Hughes, T.R.1
  • 28
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology
    • The Gene Ontology Consortium
    • Ashburner, M. et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25, 25-29 (2000).
    • (2000) Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.