메뉴 건너뛰기




Volumn 11, Issue SUPPLL.1, 2010, Pages

Knowledge-based analysis of microarrays for the discovery of transcriptional regulation relationships

Author keywords

[No Author keywords available]

Indexed keywords

GENE EXPRESSION DATA; GENE REGULATORY RELATIONSHIPS; INTEGRATING INFORMATION; KNOWLEDGE-BASED PREDICTIONS; PREDICTION PERFORMANCE; REGULATORY RELATIONSHIPS; SENSITIVITY AND SPECIFICITY; TRANSCRIPTIONAL REGULATION;

EID: 75149115174     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-11-S1-S8     Document Type: Article
Times cited : (8)

References (25)
  • 1
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genome-wide expression patterns
    • 10.1073/pnas.95.25.14863, 24541, 9843981
    • Eisen MB, Spellman PT, Brown PO, Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci USA 1998, 95:14863-8. 10.1073/pnas.95.25.14863, 24541, 9843981.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 14863-14868
    • Eisen, M.B.1    Spellman, P.T.2    Brown, P.O.3    Botstein, D.4
  • 2
    • 0033027794 scopus 로고    scopus 로고
    • Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation
    • 10.1073/pnas.96.6.2907, 15868, 10077610
    • Tamayo P, Slonim D, Mesirov J, Zhu Q, Kitareewan S, Dmitrovsky E, Lander ES, Golub TR. Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc Natl Acad Sci USA 1999, 96:2907-12. 10.1073/pnas.96.6.2907, 15868, 10077610.
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 2907-2912
    • Tamayo, P.1    Slonim, D.2    Mesirov, J.3    Zhu, Q.4    Kitareewan, S.5    Dmitrovsky, E.6    Lander, E.S.7    Golub, T.R.8
  • 3
    • 0037941585 scopus 로고    scopus 로고
    • Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data
    • 10.1038/ng1165, 12740579
    • Segal E, Shapira M, Regev A, Pe'er D, Botstein D, Koller D, Friedman N. Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Nat Genet 2003, 34:166-176. 10.1038/ng1165, 12740579.
    • (2003) Nat Genet , vol.34 , pp. 166-176
    • Segal, E.1    Shapira, M.2    Regev, A.3    Pe'er, D.4    Botstein, D.5    Koller, D.6    Friedman, N.7
  • 4
    • 33846400424 scopus 로고    scopus 로고
    • Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles
    • 10.1371/journal.pbio.0050008, 1764438,1764438, 17214507
    • Faith JJ, Hayete B, Thaden JT, Mogno I, Wierzbowski J, Cottarel G, Kasif S, Collins JJ, Gardner TS. Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles. PLoS Biol 2007, 5:e8. 10.1371/journal.pbio.0050008, 1764438,1764438, 17214507.
    • (2007) PLoS Biol , vol.5
    • Faith, J.J.1    Hayete, B.2    Thaden, J.T.3    Mogno, I.4    Wierzbowski, J.5    Cottarel, G.6    Kasif, S.7    Collins, J.J.8    Gardner, T.S.9
  • 6
    • 0242559054 scopus 로고    scopus 로고
    • Pathway studio--the analysis and navigation of molecular networks
    • 10.1093/bioinformatics/btg290, 14594725
    • Nikitin A, Egorov S, Daraselia N, Mazo I. Pathway studio--the analysis and navigation of molecular networks. Bioinformatics 2003, 19:2155-7. 10.1093/bioinformatics/btg290, 14594725.
    • (2003) Bioinformatics , vol.19 , pp. 2155-2157
    • Nikitin, A.1    Egorov, S.2    Daraselia, N.3    Mazo, I.4
  • 10
    • 33846910173 scopus 로고    scopus 로고
    • Global reconstruction of the human metabolic network based on genomic and bibliomic data
    • 10.1073/pnas.0610772104, 1794290, 17267599
    • Duarte NC, Becker SA, Jamshidi N, Thiele I, Mo ML, Vo TD, Srivas R, Palsson B. Global reconstruction of the human metabolic network based on genomic and bibliomic data. Proc Natl Acad Sci USA 2007, 104:1777-82. 10.1073/pnas.0610772104, 1794290, 17267599.
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 1777-1782
    • Duarte, N.C.1    Becker, S.A.2    Jamshidi, N.3    Thiele, I.4    Mo, M.L.5    Vo, T.D.6    Srivas, R.7    Palsson, B.8
  • 11
    • 0345824737 scopus 로고    scopus 로고
    • Network component analysis: reconstruction of regulatory signals in biological systems
    • 10.1073/pnas.2136632100, 307600, 14673099
    • Liao JC, Boscolo R, Yang YL, Tran LM, Sabatti C, Roychowdhury VP. Network component analysis: reconstruction of regulatory signals in biological systems. Proc Natl Acad Sci USA 2003, 100:15522-7. 10.1073/pnas.2136632100, 307600, 14673099.
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 15522-15527
    • Liao, J.C.1    Boscolo, R.2    Yang, Y.L.3    Tran, L.M.4    Sabatti, C.5    Roychowdhury, V.P.6
  • 13
    • 35348890683 scopus 로고    scopus 로고
    • On testing for the significance of sets of genes
    • Efron B, Tibshirani R. On testing for the significance of sets of genes. Ann Appl Biol 2007, 1:107-29.
    • (2007) Ann Appl Biol , vol.1 , pp. 107-129
    • Efron, B.1    Tibshirani, R.2
  • 14
    • 42049098601 scopus 로고    scopus 로고
    • Bisphenol A induces a profile of tumor aggressiveness in high-risk cells from breast cancer patients
    • 10.1158/0008-5472.CAN-07-6526, 18381411
    • Dairkee SH, Seok J, Champion S, Sayeed A, Mindrinos M, Xiao W, Davis RW, Goodson WH. Bisphenol A induces a profile of tumor aggressiveness in high-risk cells from breast cancer patients. Cancer Res 2008, 68:2076-80. 10.1158/0008-5472.CAN-07-6526, 18381411.
    • (2008) Cancer Res , vol.68 , pp. 2076-2080
    • Dairkee, S.H.1    Seok, J.2    Champion, S.3    Sayeed, A.4    Mindrinos, M.5    Xiao, W.6    Davis, R.W.7    Goodson, W.H.8
  • 16
  • 17
    • 0142179209 scopus 로고    scopus 로고
    • Prediction of regulatory networks: genome-wide idientification of transcription factor targets from gene expression data
    • 10.1093/bioinformatics/btg347, 14555624
    • Qian J, Lin J, Luscombe NM, Yu H, Gerstein M. Prediction of regulatory networks: genome-wide idientification of transcription factor targets from gene expression data. Bioinformatics 2003, 19:1917-26. 10.1093/bioinformatics/btg347, 14555624.
    • (2003) Bioinformatics , vol.19 , pp. 1917-1926
    • Qian, J.1    Lin, J.2    Luscombe, N.M.3    Yu, H.4    Gerstein, M.5
  • 18
    • 41849115550 scopus 로고    scopus 로고
    • A semi-supervised method for predicting transcription factor-gene interactions in Escherichia coli
    • 10.1371/journal.pcbi.1000044, 2266799, 18369434
    • Ernst J, Beg QK, Kay KA, Balázsi G, Oltvai ZN, Bar-Joseph Z. A semi-supervised method for predicting transcription factor-gene interactions in Escherichia coli. PLoS Comput Biol 2008, 4:e1000044. 10.1371/journal.pcbi.1000044, 2266799, 18369434.
    • (2008) PLoS Comput Biol , vol.4
    • Ernst, J.1    Beg, Q.K.2    Kay, K.A.3    Balázsi, G.4    Oltvai, Z.N.5    Bar-Joseph, Z.6
  • 20
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpreesion network for global discovery of conserved genetic modules
    • 10.1126/science.1087447, 12934013
    • Stuart JM, Segal E, Koller D, Kim SK. A gene-coexpreesion network for global discovery of conserved genetic modules. Science 2003, 302:249-55. 10.1126/science.1087447, 12934013.
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 22
    • 1542609551 scopus 로고    scopus 로고
    • Support vector machine classification on the web
    • 10.1093/bioinformatics/btg461, 14990457
    • Pavlidis P, Wapinski I, Noble WS. Support vector machine classification on the web. Bioinformatics 2004, 20:586-7. 10.1093/bioinformatics/btg461, 14990457.
    • (2004) Bioinformatics , vol.20 , pp. 586-587
    • Pavlidis, P.1    Wapinski, I.2    Noble, W.S.3
  • 23
    • 84888274364 scopus 로고    scopus 로고
    • SVM-light
    • SVM-light. , http://svmlight.joachims.org/
  • 24
    • 33745433124 scopus 로고    scopus 로고
    • Fine-structure analysis of ribosomal protein gene transcription
    • 10.1128/MCB.02367-05, 1489154, 16782874
    • Zhao Y, McIntosh KB, Rudra D, Schawalder S, Shore D. Fine-structure analysis of ribosomal protein gene transcription. Mol Cell Biol 2006, 26:4853-62. 10.1128/MCB.02367-05, 1489154, 16782874.
    • (2006) Mol Cell Biol , vol.26 , pp. 4853-4862
    • Zhao, Y.1    McIntosh, K.B.2    Rudra, D.3    Schawalder, S.4    Shore, D.5
  • 25
    • 0034973590 scopus 로고    scopus 로고
    • Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast
    • 10.1128/MCB.21.13.4347-4368.2001, 87095, 11390663
    • Natarajan K, Meyer MR, Jackson BM, Slade D, Roberts C, Hinnebusch AG, Marton MJ. Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast. Mol Cell Biol 2001, 21:4347-68. 10.1128/MCB.21.13.4347-4368.2001, 87095, 11390663.
    • (2001) Mol Cell Biol , vol.21 , pp. 4347-4368
    • Natarajan, K.1    Meyer, M.R.2    Jackson, B.M.3    Slade, D.4    Roberts, C.5    Hinnebusch, A.G.6    Marton, M.J.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.