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Volumn , Issue , 2009, Pages 1-27

What are gene regulatory networks?

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EID: 84898521305     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.4018/978-1-60566-685-3.ch001     Document Type: Chapter
Times cited : (14)

References (82)
  • 1
    • 0742305866 scopus 로고    scopus 로고
    • Network biology: Understanding the cell's functional organization
    • doi:10.1038/nrg1272
    • Barabasi, A. L., & Oltvai, Z. N. (2004). Network biology: Understanding the cell's functional organization. Nature Reviews. Genetics, 5(2), 101-113. doi:10.1038/nrg1272
    • (2004) Nature Reviews. Genetics , vol.5 , Issue.2 , pp. 101-113
    • Barabasi, A.L.1    Oltvai, Z.N.2
  • 2
    • 2542529262 scopus 로고    scopus 로고
    • Pajek-analysis and visualization of large networks
    • In M. Jünger & P. Mutzel (Eds.), Springer
    • Batagelj, V., & Mrvar, A. (2003). Pajek-analysis and visualization of large networks. In M. Jünger & P. Mutzel (Eds.), Graph drawing software (pp. 77-103). Springer.
    • (2003) Graph Drawing Software , pp. 77-103
    • Batagelj, V.1    Mrvar, A.2
  • 3
    • 22144454660 scopus 로고    scopus 로고
    • Genetical genomics analysis of a yeast segregant population for transcription network inference
    • doi:10.1534/genetics.105.041103
    • Bing, N., & Hoeschele, I. (2005). Genetical genomics analysis of a yeast segregant population for transcription network inference. Genetics, 170(2), 533-542. doi:10.1534/genetics.105.041103
    • (2005) Genetics , vol.170 , Issue.2 , pp. 533-542
    • Bing, N.1    Hoeschele, I.2
  • 6
    • 0042424655 scopus 로고    scopus 로고
    • Transcriptional regulatory cascades in development: Initial rates, not steady state, determine network kinetics
    • doi:10.1073/pnas.1533293100
    • Bolouri, H., & Davidson, E. H. (2003). Transcriptional regulatory cascades in development: Initial rates, not steady state, determine network kinetics. Proceedings of the National Academy of Sciences of the United States of America, 100(16), 9371-9376. doi:10.1073/pnas.1533293100
    • (2003) Proceedings of the National Academy of Sciences of the United States of America , vol.100 , Issue.16 , pp. 9371-9376
    • Bolouri, H.1    Davidson, E.H.2
  • 7
    • 0036843965 scopus 로고    scopus 로고
    • Gene networks: How to put the function in genomics
    • doi:10.1016/S0167-7799(02)02053-X
    • Brazhnik, P., de la Fuente, A., & Mendes, P. (2002). Gene networks: How to put the function in genomics. Trends in Biotechnology, 20(11), 467-472. doi:10.1016/S0167-7799(02)02053-X
    • (2002) Trends in Biotechnology , vol.20 , Issue.11 , pp. 467-472
    • Brazhnik, P.1    de la Fuente, A.2    Mendes, P.3
  • 9
    • 1242316281 scopus 로고    scopus 로고
    • Chip-chip: Considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments
    • doi:10.1016/j. ygeno.2003.11.004
    • Buck, M. J., & Lieb, J. D. (2004). ChIP-chip: Considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments. Genomics, 83(3), 349-360. doi:10.1016/j. ygeno.2003.11.004
    • (2004) Genomics , vol.83 , Issue.3 , pp. 349-360
    • Buck, M.J.1    Lieb, J.D.2
  • 11
    • 0034710924 scopus 로고    scopus 로고
    • Discovering functional relationships between rna expression and chemotherapeutic susceptibility using relevance networks
    • doi:10.1073/pnas.220392197
    • Butte, A. J., Tamayo, P., Slonim, D., Golub, T. R., & Kohane, I. S. (2000). Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks. Proceedings of the National Academy of Sciences of the United States of America, 97(22), 12182-12186. doi:10.1073/pnas.220392197
    • (2000) Proceedings of the National Academy of Sciences of the United States of America , vol.97 , Issue.22 , pp. 12182-12186
    • Butte, A.J.1    Tamayo, P.2    Slonim, D.3    Golub, T.R.4    Kohane, I.S.5
  • 12
    • 20144383240 scopus 로고    scopus 로고
    • Uncovering regulatory pathways that affect hematopoietic stem cell function using 'genetical genomics.'
    • doi:10.1038/ng1497
    • Bystrykh, L., Weersing, E., Dontje, B., Sutton, S., Pletcher, M. T., & Wiltshire, T. (2005). Uncovering regulatory pathways that affect hematopoietic stem cell function using 'genetical genomics.'. Nature Genetics, 37(3), 225-232. doi:10.1038/ng1497
    • (2005) Nature Genetics , vol.37 , Issue.3 , pp. 225-232
    • Bystrykh, L.1    Weersing, E.2    Dontje, B.3    Sutton, S.4    Pletcher, M.T.5    Wiltshire, T.6
  • 13
    • 20344365760 scopus 로고    scopus 로고
    • The origin of correlations in metabolomic data
    • doi:10.1007/s11306-005-1107-3
    • Camacho, D., de la Fuente, A., & Mendes, P. (2005). The origin of correlations in metabolomic data. Metabolomics, 1(1), 53-63. doi:10.1007/s11306-005-1107-3
    • (2005) Metabolomics , vol.1 , Issue.1 , pp. 53-63
    • Camacho, D.1    de la Fuente, A.2    Mendes, P.3
  • 14
    • 33947728976 scopus 로고    scopus 로고
    • Beyond reductionism: Metabolic circularity as a guiding vision for a real biology of systems
    • doi:10.1002/pmic.200600431
    • Cornish-Bowden, A., Cardenas, M. L., Letelier, J. C., & Soto-Andrade, J. (2007). Beyond reductionism: Metabolic circularity as a guiding vision for a real biology of systems. Proteomics, 7(6), 839-845. doi:10.1002/pmic.200600431
    • (2007) Proteomics , vol.7 , Issue.6 , pp. 839-845
    • Cornish-Bowden, A.1    Cardenas, M.L.2    Letelier, J.C.3    Soto-Andrade, J.4
  • 16
    • 0033736476 scopus 로고    scopus 로고
    • Genetic network inference: From co-expression clustering to reverse engineering
    • doi:10.1093/ bioinformatics/16.8.707
    • D'Haeseleer, P., Liang, S., & Somogyi, R. (2000). Genetic network inference: From co-expression clustering to reverse engineering. Bioinformatics (Oxford, England), 16(8), 707-726. doi:10.1093/ bioinformatics/16.8.707
    • (2000) Bioinformatics (Oxford, England) , vol.16 , Issue.8 , pp. 707-726
    • D'Haeseleer, P.1    Liang, S.2    Somogyi, R.3
  • 17
    • 12344321571 scopus 로고    scopus 로고
    • Discovery of meaningful associations in genomic data using partial correlation coefficients
    • doi:10.1093/bioinformatics/bth445
    • de la Fuente, A., Bing, N., Hoeschele, I., & Mendes, P. (2004). Discovery of meaningful associations in genomic data using partial correlation coefficients. Bioinformatics (Oxford, England), 20, 3565-3574. doi:10.1093/bioinformatics/bth445
    • (2004) Bioinformatics (Oxford, England) , vol.20 , pp. 3565-3574
    • de la Fuente, A.1    Bing, N.2    Hoeschele, I.3    Mendes, P.4
  • 19
    • 0036683181 scopus 로고    scopus 로고
    • Linking the genes: Inferring quantitative gene networks from microarray data
    • doi:10.1016/S0168-9525(02)02692-6
    • de la Fuente, A., Brazhnik, P., & Mendes, P. (2002). Linking the genes: Inferring quantitative gene networks from microarray data. Trends in Genetics, 18(8), 395-398. doi:10.1016/S0168-9525(02)02692-6
    • (2002) Trends in Genetics , vol.18 , Issue.8 , pp. 395-398
    • de la Fuente, A.1    Brazhnik, P.2    Mendes, P.3
  • 20
    • 27744554166 scopus 로고    scopus 로고
    • Regulatory strength analysis for inferring gene networks
    • In K. B. N. & W. H. V. (Eds.), Wymondham, UK: Horizon Bioscience
    • de la Fuente, A., Brazhnik, P., & Mendes, P. (2004). Regulatory strength analysis for inferring gene networks. In K. B. N. & W. H. V. (Eds.), Metabolic engineering in the post genomic era (pp. 107-137). Wymondham, UK: Horizon Bioscience.
    • (2004) Metabolic Engineering in the Post Genomic Era , pp. 107-137
    • de la Fuente, A.1    Brazhnik, P.2    Mendes, P.3
  • 21
    • 0036041072 scopus 로고    scopus 로고
    • Quantifying gene networks with regulatory strengths
    • doi:10.1023/A:1020310504986
    • de la Fuente, A., & Mendes, P. (2002). Quantifying gene networks with regulatory strengths. Molecular Biology Reports, 29(1-2), 73-77. doi:10.1023/A:1020310504986
    • (2002) Molecular Biology Reports , vol.29 , Issue.1-2 , pp. 73-77
    • de la Fuente, A.1    Mendes, P.2
  • 22
    • 0001038826 scopus 로고
    • Covariance selection
    • doi:10.2307/2528966
    • Dempster, A. P. (1972). Covariance selection. Biometrics, 28, 157-175. doi:10.2307/2528966
    • (1972) Biometrics , vol.28 , pp. 157-175
    • Dempster, A.P.1
  • 26
    • 33846400424 scopus 로고    scopus 로고
    • Large-scale mapping and validation of escherichia coli transcriptional regulation from a compendium of expression profiles
    • e8, doi:10.1371/journal.pbio.0050008
    • Faith, J. J., Hayete, B., Thaden, J. T., Mogno, I., Wierzbowski, J., & Cottarel, G. (2007). Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles. PLoS Biology, 5(1), e8. doi:10.1371/journal.pbio.0050008
    • (2007) PLoS Biology , vol.5 , Issue.1
    • Faith, J.J.1    Hayete, B.2    Thaden, J.T.3    Mogno, I.4    Wierzbowski, J.5    Cottarel, G.6
  • 27
    • 38549140094 scopus 로고    scopus 로고
    • Regulondb (version 6.0): Gene regulation model of escherichia coli k-12 beyond transcription, active (experimental) annotated promoters and textpresso navigation
    • (Database issue), D120-D124. doi:10.1093/nar/gkm994
    • Gama-Castro, S., Jimenez-Jacinto, V., Peralta-Gil, M., Santos-Zavaleta, A., Penaloza-Spinola, M. I., & Contreras-Moreira, B. (2008). RegulonDB (version 6.0): Gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation. Nucleic Acids Research, 36(Database issue), D120-D124. doi:10.1093/nar/gkm994
    • (2008) Nucleic Acids Research , vol.36
    • Gama-Castro, S.1    Jimenez-Jacinto, V.2    Peralta-Gil, M.3    Santos-Zavaleta, A.4    Penaloza-Spinola, M.I.5    Contreras-Moreira, B.6
  • 29
    • 0038048325 scopus 로고    scopus 로고
    • Inferring genetic networks and identifying compound mode of action via expression profiling
    • doi:10.1126/ science.1081900
    • Gardner, T., di Bernardo, D., Lorenz, D., & Collins, J. (2003). Inferring genetic networks and identifying compound mode of action via expression profiling. Science, 301(5629), 102-105. doi:10.1126/ science.1081900
    • (2003) Science , vol.301 , Issue.5629 , pp. 102-105
    • Gardner, T.1    di Bernardo, D.2    Lorenz, D.3    Collins, J.4
  • 30
    • 0036578654 scopus 로고    scopus 로고
    • Topological and causal structure of the yeast transcriptional regulatory network
    • doi:10.1038/ng873
    • Guelzim, N., Bottani, S., Bourgine, P., & Kepes, F. (2002). Topological and causal structure of the yeast transcriptional regulatory network. Nature Genetics, 31(1), 60-63. doi:10.1038/ng873
    • (2002) Nature Genetics , vol.31 , Issue.1 , pp. 60-63
    • Guelzim, N.1    Bottani, S.2    Bourgine, P.3    Kepes, F.4
  • 31
    • 4544352942 scopus 로고    scopus 로고
    • Transcriptional regulatory code of a eukaryotic genome
    • doi:10.1038/ nature02800
    • Harbison, C. T., Gordon, D. B., Lee, T. I., Rinaldi, N. J., Macisaac, K. D., & Danford, T. W. (2004). Transcriptional regulatory code of a eukaryotic genome. Nature, 431(7004), 99-104. doi:10.1038/ nature02800
    • (2004) Nature , vol.431 , Issue.7004 , pp. 99-104
    • Harbison, C.T.1    Gordon, D.B.2    Lee, T.I.3    Rinaldi, N.J.4    Macisaac, K.D.5    Danford, T.W.6
  • 33
    • 0031811851 scopus 로고    scopus 로고
    • Regulondb: A database on transcriptional regulation in escherichia coli
    • doi:10.1093/nar/26.1.55
    • Huerta, A. M., Salgado, H., Thieffry, D., & Collado-Vides, J. (1998). RegulonDB: A database on transcriptional regulation in Escherichia coli. Nucleic Acids Research, 26(1), 55-59. doi:10.1093/nar/26.1.55
    • (1998) Nucleic Acids Research , vol.26 , Issue.1 , pp. 55-59
    • Huerta, A.M.1    Salgado, H.2    Thieffry, D.3    Collado-Vides, J.4
  • 34
    • 0034616930 scopus 로고    scopus 로고
    • Functional discovery via a compendium of expression profiles
    • doi:10.1016/ S0092-8674(00)00015-5
    • Hughes, T. R., Marton, M. J., Jones, A. R., Roberts, C. J., Stoughton, R., & Armour, C. D. (2000). Functional discovery via a compendium of expression profiles. Cell, 102(1), 109-126. doi:10.1016/ S0092-8674(00)00015-5
    • (2000) Cell , vol.102 , Issue.1 , pp. 109-126
    • Hughes, T.R.1    Marton, M.J.2    Jones, A.R.3    Roberts, C.J.4    Stoughton, R.5    Armour, C.D.6
  • 35
    • 0035945567 scopus 로고    scopus 로고
    • Genomic binding sites of the yeast cell-cycle transcription factors sbf and mbf
    • doi:10.1038/35054095
    • Iyer, V. R., Horak, C. E., Scafe, C. S., Botstein, D., Snyder, M., & Brown, P. O. (2001). Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature, 409(6819), 533-538. doi:10.1038/35054095
    • (2001) Nature , vol.409 , Issue.6819 , pp. 533-538
    • Iyer, V.R.1    Horak, C.E.2    Scafe, C.S.3    Botstein, D.4    Snyder, M.5    Brown, P.O.6
  • 36
    • 0014671878 scopus 로고
    • Homeostasis and differentiation in random genetic control networks
    • doi:10.1038/224177a0
    • Kauffman, S. (1969). Homeostasis and differentiation in random genetic control networks. Nature, 224(215), 177-178. doi:10.1038/224177a0
    • (1969) Nature , vol.224 , Issue.215 , pp. 177-178
    • Kauffman, S.1
  • 38
    • 0037174671 scopus 로고    scopus 로고
    • Transcriptional regulatory networks in saccharomyces cerevisiae
    • doi:10.1126/ science.1075090
    • Lee, T. I., Rinaldi, N. J., Robert, F., Odom, D. T., Bar-Joseph, Z., & Gerber, G. K. (2002). Transcriptional regulatory networks in Saccharomyces cerevisiae. Science, 298(5594), 799-804. doi:10.1126/ science.1075090
    • (2002) Science , vol.298 , Issue.5594 , pp. 799-804
    • Lee, T.I.1    Rinaldi, N.J.2    Robert, F.3    Odom, D.T.4    Bar-Joseph, Z.5    Gerber, G.K.6
  • 39
    • 40149095913 scopus 로고    scopus 로고
    • Transcription factors bind thousands of active and inactive regions in the drosophila blastoderm
    • doi:10.1371/journal.pbio.0060027
    • Li, X. Y., MacArthur, S., Bourgon, R., Nix, D., Pollard, D. A., & Iyer, V. N. (2008). Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm. PLoS Biology, 6(2), e27. doi:10.1371/journal.pbio.0060027
    • (2008) PLoS Biology , vol.6 , Issue.2
    • Li, X.Y.1    Macarthur, S.2    Bourgon, R.3    Nix, D.4    Pollard, D.A.5    Iyer, V.N.6
  • 40
    • 0034934774 scopus 로고    scopus 로고
    • Promoter-specific binding of rap1 revealed by genome-wide maps of protein-dna association
    • doi:10.1038/ng569
    • Lieb, J. D., Liu, X., Botstein, D., & Brown, P. O. (2001). Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. Nature Genetics, 28(4), 327-334. doi:10.1038/ng569
    • (2001) Nature Genetics , vol.28 , Issue.4 , pp. 327-334
    • Lieb, J.D.1    Liu, X.2    Botstein, D.3    Brown, P.O.4
  • 41
    • 45149096374 scopus 로고    scopus 로고
    • Gene network inference via structural equation modeling in genetical genomics experiments
    • doi:10.1534/genetics.107.080069
    • Liu, B., de la Fuente, A., & Hoeschele, I. (2008). Gene network inference via structural equation modeling in genetical genomics experiments. Genetics, 178, 1763-1776. doi:10.1534/genetics.107.080069
    • (2008) Genetics , vol.178 , pp. 1763-1776
    • Liu, B.1    de la Fuente, A.2    Hoeschele, I.3
  • 42
    • 4644326931 scopus 로고    scopus 로고
    • Genomic analysis of regulatory network dynamics reveals large topological changes
    • doi:10.1038/nature02782
    • Luscombe, N. M., Babu, M. M., Yu, H., Snyder, M., Teichmann, S. A., & Gerstein, M. (2004). Genomic analysis of regulatory network dynamics reveals large topological changes. Nature, 431(7006), 308-312. doi:10.1038/nature02782
    • (2004) Nature , vol.431 , Issue.7006 , pp. 308-312
    • Luscombe, N.M.1    Babu, M.M.2    Yu, H.3    Snyder, M.4    Teichmann, S.A.5    Gerstein, M.6
  • 43
    • 0042093610 scopus 로고    scopus 로고
    • The connectivity structure, giant strong component and centrality of metabolic networks
    • doi:10.1093/bioinformatics/btg177
    • Ma, H. W., & Zeng, A. P. (2003). The connectivity structure, giant strong component and centrality of metabolic networks. Bioinformatics (Oxford, England), 19(11), 1423-1430. doi:10.1093/bioinformatics/btg177
    • (2003) Bioinformatics (Oxford, England) , vol.19 , Issue.11 , pp. 1423-1430
    • Ma, H.W.1    Zeng, A.P.2
  • 45
    • 47649086309 scopus 로고    scopus 로고
    • Chip-on-chip significance analysis reveals ubiquitous transcription factor binding
    • doi:10.1186/1471-2105-8-S8-S2
    • Margolin, A. A., Palomero, T., Ferrando, A. A., Califano, A., & Stolovitzky, G. (2007). ChIP-on-chip significance analysis reveals ubiquitous transcription factor binding. BMC Bioinformatics, 8(Suppl 8), S2. doi:10.1186/1471-2105-8-S8-S2
    • (2007) BMC Bioinformatics , vol.8 , Issue.SUPPL. 8
    • Margolin, A.A.1    Palomero, T.2    Ferrando, A.A.3    Califano, A.4    Stolovitzky, G.5
  • 46
    • 27644549928 scopus 로고    scopus 로고
    • Integrating genotypic and expression data in a segregating mouse population to identify 5-lipoxygenase as a susceptibility gene for obesity and bone traits
    • doi:10.1038/ng1619
    • Mehrabian, M., Allayee, H., Stockton, J., Lum, P. Y., Drake, T. A., & Castellani, L. W. (2005). Integrating genotypic and expression data in a segregating mouse population to identify 5-lipoxygenase as a susceptibility gene for obesity and bone traits. Nature Genetics, 37(11), 1224-1233. doi:10.1038/ng1619
    • (2005) Nature Genetics , vol.37 , Issue.11 , pp. 1224-1233
    • Mehrabian, M.1    Allayee, H.2    Stockton, J.3    Lum, P.Y.4    Drake, T.A.5    Castellani, L.W.6
  • 47
    • 3142536716 scopus 로고    scopus 로고
    • Exploration of essential gene functions via titratable promoter alleles
    • doi:10.1016/j. cell.2004.06.013
    • Mnaimneh, S., Davierwala, A. P., Haynes, J., Moffat, J., Peng, W. T., & Zhang, W. (2004). Exploration of essential gene functions via titratable promoter alleles. Cell, 118(1), 31-44. doi:10.1016/j. cell.2004.06.013
    • (2004) Cell , vol.118 , Issue.1 , pp. 31-44
    • Mnaimneh, S.1    Davierwala, A.P.2    Haynes, J.3    Moffat, J.4    Peng, W.T.5    Zhang, W.6
  • 49
    • 0038718854 scopus 로고    scopus 로고
    • The structure and function of complex networks
    • doi:10.1137/S003614450342480
    • Newman, M. (2003). The structure and function of complex networks. SIAM Review, 45(2), 167-256. doi:10.1137/S003614450342480
    • (2003) SIAM Review , vol.45 , Issue.2 , pp. 167-256
    • Newman, M.1
  • 52
    • 40549110559 scopus 로고    scopus 로고
    • Protein networking: Insights into global functional organization of proteomes
    • doi:10.1002/pmic.200700767
    • Pieroni, E.,de la Fuente van Bentem, S., Mancosu, G., Capobianco, E., Hirt, H., &de la Fuente, A. (2008). Protein networking: Insights into global functional organization of proteomes. Proteomics, 8(4), 799-816. doi:10.1002/pmic.200700767
    • (2008) Proteomics , vol.8 , Issue.4 , pp. 799-816
    • Pieroni, E.1    de la Fuente van Bentem, S.2    Mancosu, G.3    Capobianco, E.4    Hirt, H.5    de la Fuente, A.6
  • 53
    • 0034704248 scopus 로고    scopus 로고
    • Genome-wide location and function of dna binding proteins
    • doi:10.1126/science.290.5500.2306
    • Ren, B., Robert, F., Wyrick, J. J., Aparicio, O., Jennings, E. G., & Simon, I. (2000). Genome-wide location and function of DNA binding proteins. Science, 290(5500), 2306-2309. doi:10.1126/science.290.5500.2306
    • (2000) Science , vol.290 , Issue.5500 , pp. 2306-2309
    • Ren, B.1    Robert, F.2    Wyrick, J.J.3    Aparicio, O.4    Jennings, E.G.5    Simon, I.6
  • 54
    • 9144270496 scopus 로고    scopus 로고
    • Regulondb (version 4.0): Transcriptional regulation, operon organization and growth conditions in escherichia coli k-12
    • (Database issue, doi:10.1093/ nar/gkh140
    • Salgado, H., Gama-Castro, S., Martinez-Antonio, A., Diaz-Peredo, E., Sanchez-Solano, F., & Peralta-Gil, M. (2004). RegulonDB (version 4.0): Transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12. Nucleic Acids Research, 32(Database issue), D303-D306. doi:10.1093/ nar/gkh140
    • (2004) Nucleic Acids Research , vol.32
    • Salgado, H.1    Gama-Castro, S.2    Martinez-Antonio, A.3    Diaz-Peredo, E.4    Sanchez-Solano, F.5    Peralta-Gil, M.6
  • 55
    • 33644873438 scopus 로고    scopus 로고
    • Regulondb (version 5.0): Escherichia coli k-12 transcriptional regulatory network, operon organization, and growth conditions
    • (Database issue), doi:10.1093/nar/gkj156
    • Salgado, H., Gama-Castro, S., Peralta-Gil, M., Diaz-Peredo, E., Sanchez-Solano, F., & Santos-Zavaleta, A. (2006a). RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions. Nucleic Acids Research, 34(Database issue), D394-D397. doi:10.1093/nar/gkj156
    • (2006) Nucleic Acids Research , vol.34
    • Salgado, H.1    Gama-Castro, S.2    Peralta-Gil, M.3    Diaz-Peredo, E.4    Sanchez-Solano, F.5    Santos-Zavaleta, A.6
  • 56
    • 0032947086 scopus 로고    scopus 로고
    • Regulondb (version 2.0): A database on transcriptional regulation in escherichia coli
    • doi:10.1093/nar/27.1.59
    • Salgado, H., Santos, A., Garza-Ramos, U., van Helden, J., Diaz, E., & Collado-Vides, J. (1999). RegulonDB (version 2.0): A database on transcriptional regulation in Escherichia coli. Nucleic Acids Research, 27(1), 59-60. doi:10.1093/nar/27.1.59
    • (1999) Nucleic Acids Research , vol.27 , Issue.1 , pp. 59-60
    • Salgado, H.1    Santos, A.2    Garza-Ramos, U.3    van Helden, J.4    Diaz, E.5    Collado-Vides, J.6
  • 57
  • 60
    • 0035852686 scopus 로고    scopus 로고
    • Dynamic regulation of the tryptophan operon: A modeling study and comparison with experimental data
    • doi:10.1073/pnas.98.4.1364
    • Santillan, M., & Mackey, M. C. (2001). Dynamic regulation of the tryptophan operon: A modeling study and comparison with experimental data. Proceedings of the National Academy of Sciences of the United States of America, 98(4), 1364-1369. doi:10.1073/pnas.98.4.1364
    • (2001) Proceedings of the National Academy of Sciences of the United States of America , vol.98 , Issue.4 , pp. 1364-1369
    • Santillan, M.1    Mackey, M.C.2
  • 61
    • 22844446947 scopus 로고    scopus 로고
    • An integrative genomics approach to infer causal associations between gene expression and disease
    • doi:10.1038/ng1589
    • Schadt, E., Lamb, J., Yang, X., Zhu, J., Edwards, S., & Guhathakurta, D. (2005). An integrative genomics approach to infer causal associations between gene expression and disease. Nature Genetics, 37(7), 710. doi:10.1038/ng1589
    • (2005) Nature Genetics , vol.37 , Issue.7 , pp. 710
    • Schadt, E.1    Lamb, J.2    Yang, X.3    Zhu, J.4    Edwards, S.5    Guhathakurta, D.6
  • 62
    • 15944364151 scopus 로고    scopus 로고
    • An empirical bayes approach to inferring large-scale gene association networks
    • doi:10.1093/bioinformatics/bti062
    • Schäfer, J., & Strimmer, K. (2005a). An empirical Bayes approach to inferring large-scale gene association networks. Bioinformatics (Oxford, England), 21, 754-764. doi:10.1093/bioinformatics/bti062
    • (2005) Bioinformatics (Oxford, England) , vol.21 , pp. 754-764
    • Schäfer, J.1    Strimmer, K.2
  • 63
    • 27844521293 scopus 로고    scopus 로고
    • A shrinkage approach to large-scale covariance matrix estimation and implications for functional genomics
    • doi:10.2202/1544-6115.1175
    • Schäfer, J., & Strimmer, K. (2005b). A shrinkage approach to large-scale covariance matrix estimation and implications for functional genomics. Statistical Applications in Genetics and Molecular Biology, 4, 32. doi:10.2202/1544-6115.1175
    • (2005) Statistical Applications in Genetics and Molecular Biology , vol.4 , pp. 32
    • Schäfer, J.1    Strimmer, K.2
  • 64
    • 0036578795 scopus 로고    scopus 로고
    • Network motifs in the transcriptional regulation network of escherichia coli
    • doi:10.1038/ng881
    • Shen-Orr, S. S., Milo, R., Mangan, S., & Alon, U. (2002). Network motifs in the transcriptional regulation network of Escherichia coli. Nature Genetics, 31(1), 64-68. doi:10.1038/ng881
    • (2002) Nature Genetics , vol.31 , Issue.1 , pp. 64-68
    • Shen-Orr, S.S.1    Milo, R.2    Mangan, S.3    Alon, U.4
  • 65
    • 34748871477 scopus 로고    scopus 로고
    • Regulation of gene expression by small non-coding rnas: A quantitative view
    • doi:10.1038/msb4100181
    • Shimoni, Y., Friedlander, G., Hetzroni, G., Niv, G., Altuvia, S., & Biham, O. (2007). Regulation of gene expression by small non-coding RNAs: A quantitative view. Molecular Systems Biology, 3, 138. doi:10.1038/msb4100181
    • (2007) Molecular Systems Biology , vol.3 , pp. 138
    • Shimoni, Y.1    Friedlander, G.2    Hetzroni, G.3    Niv, G.4    Altuvia, S.5    Biham, O.6
  • 67
    • 0042526388 scopus 로고    scopus 로고
    • The mutual information: Detecting and evaluating dependencies between variables
    • Steuer, R., Kurths, J., Daub, C. O., Weise, J., & Selbig, J. (2002). The mutual information: Detecting and evaluating dependencies between variables. Bioinformatics (Oxford, England), 18(Suppl 2), S231-S240.
    • (2002) Bioinformatics (Oxford, England) , vol.18 , Issue.SUPPL. 2
    • Steuer, R.1    Kurths, J.2    Daub, C.O.3    Weise, J.4    Selbig, J.5
  • 70
    • 0015823097 scopus 로고
    • Boolean formalization of genetic control circuits
    • doi:10.1016/0022-5193(73)90247-6
    • Thomas, R. (1973). Boolean formalization of genetic control circuits. Journal of Theoretical Biology, 42(3), 563-585. doi:10.1016/0022-5193(73)90247-6
    • (1973) Journal of Theoretical Biology , vol.42 , Issue.3 , pp. 563-585
    • Thomas, R.1
  • 71
    • 10744230485 scopus 로고    scopus 로고
    • Global mapping of the yeast genetic interaction network
    • doi:10.1126/science.1091317
    • Tong, A. H., Lesage, G., Bader, G. D., Ding, H., Xu, H., & Xin, X. (2004). Global mapping of the yeast genetic interaction network. Science, 303(5659), 808-813. doi:10.1126/science.1091317
    • (2004) Science , vol.303 , Issue.5659 , pp. 808-813
    • Tong, A.H.1    Lesage, G.2    Bader, G.D.3    Ding, H.4    Xu, H.5    Xin, X.6
  • 72
    • 0037376655 scopus 로고    scopus 로고
    • Sniffers, buzzers, toggles, and blinkers: Dynamics of regulatory and signaling pathways in the cell
    • doi:10.1016/ S0955-0674(03)00017-6
    • Tyson, J. J., Chen, K. C., & Novak, B. (2003). Sniffers, buzzers, toggles, and blinkers: Dynamics of regulatory and signaling pathways in the cell. Current Opinion in Cell Biology, 15(2), 221-231. doi:10.1016/ S0955-0674(03)00017-6
    • (2003) Current Opinion in Cell Biology , vol.15 , Issue.2 , pp. 221-231
    • Tyson, J.J.1    Chen, K.C.2    Novak, B.3
  • 75
    • 0036138322 scopus 로고    scopus 로고
    • How to reconstruct a large genetic network from n gene perturbations in fewer than n(2) easy steps
    • doi:10.1093/bioinformatics/17.12.1183
    • Wagner, A. (2001). How to reconstruct a large genetic network from n gene perturbations in fewer than n(2) easy steps. Bioinformatics (Oxford, England), 17(12), 1183-1197. doi:10.1093/bioinformatics/17.12.1183
    • (2001) Bioinformatics (Oxford, England) , vol.17 , Issue.12 , pp. 1183-1197
    • Wagner, A.1
  • 76
    • 0032482432 scopus 로고    scopus 로고
    • Collective dynamics of 'small-world' networks
    • doi:10.1038/30918
    • Watts, D. J., & Strogatz, S. H. (1998). Collective dynamics of 'small-world' networks. Nature, 393(6684), 440-442. doi:10.1038/30918
    • (1998) Nature , vol.393 , Issue.6684 , pp. 440-442
    • Watts, D.J.1    Strogatz, S.H.2
  • 79
    • 30044444291 scopus 로고    scopus 로고
    • Low-order conditional independence graphs for inferring genetic networks
    • Article 1
    • Wille, A., & Buhlmann, P. (2006). Low-order conditional independence graphs for inferring genetic networks. Stat. Appl. Genet. Mol. Biol., 5(1), Article 1.
    • (2006) Stat. Appl. Genet. Mol. Biol , vol.5 , Issue.1
    • Wille, A.1    Buhlmann, P.2
  • 80
    • 22044448669 scopus 로고    scopus 로고
    • Sparse graphical gaussian modeling of the isoprenoid gene network in arabidopsis thaliana
    • doi:10.1186/gb-2004-5-11-r92
    • Wille, A., Zimmermann, P., Vranova, E., Furholz, A., Laule, O., & Bleuler, S. (2004). Sparse graphical Gaussian modeling of the isoprenoid gene network in Arabidopsis thaliana. Genome Biology, 5(11), R92. doi:10.1186/gb-2004-5-11-r92
    • (2004) Genome Biology , vol.5 , Issue.11
    • Wille, A.1    Zimmermann, P.2    Vranova, E.3    Furholz, A.4    Laule, O.5    Bleuler, S.6
  • 81
  • 82
    • 3242806720 scopus 로고    scopus 로고
    • An integrative genomics approach to the reconstruction of gene networks in segregating populations
    • doi:10.1159/000078209
    • Zhu, J., Lum, P. Y., Lamb, J., GuhaThakurta, D., Edwards, S. W., & Thieringer, R. (2004). An integrative genomics approach to the reconstruction of gene networks in segregating populations. Cytogenetic and Genome Research, 105(2-4), 363-374. doi:10.1159/000078209
    • (2004) Cytogenetic and Genome Research , vol.105 , Issue.2-4 , pp. 363-374
    • Zhu, J.1    Lum, P.Y.2    Lamb, J.3    Guhathakurta, D.4    Edwards, S.W.5    Thieringer, R.6


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