TY - CHAP AU - Elliot, M. A. AU - Buttner, M. J. AU - Nodwell, J. R. ED - Whitworth, D. E. PY - 2008 DA - 2008// TI - Multicellular development in Streptomyces. BT - Myxobacteria: Multicellularity and Differentiation PB - ASM Press CY - Washinton DC UR - https://doi.org/10.1128/9781555815677.ch24 DO - 10.1128/9781555815677.ch24 ID - Elliot2008 ER - TY - JOUR AU - Bibb, M. J. PY - 2005 DA - 2005// TI - Regulation of secondary metabolism in streptomycetes. JO - Curr Opin Microbiol VL - 8 UR - https://doi.org/10.1016/j.mib.2005.02.016 DO - 10.1016/j.mib.2005.02.016 ID - Bibb2005 ER - TY - STD TI - Challis GL, Hopwood DA: Synergy and contingency as driving forces for the evolution of multiple secondary metabolite production by Streptomyces species. Proc Natl Acad Sci USA. 100: 14555-14561. 10.1073/pnas.1934677100. ID - ref3 ER - TY - JOUR AU - Bentley, S. D. AU - Chater, K. F. AU - Cerdeño-Tárraga, A. M. AU - Challis, G. L. AU - Thomson, N. R. AU - James, K. D. AU - Harris, D. E. AU - Quail, M. A. AU - Kieser, H. AU - Harper, D. AU - Bateman, A. AU - Brown, S. AU - Chandra, G. AU - Chen, C. W. AU - Collins, M. AU - Cronin, A. AU - Fraser, A. AU - Goble, A. AU - Hidalgo, J. AU - Hornsby, T. AU - Howarth, S. AU - Huang, C. H. AU - Kieser, T. AU - Larke, L. AU - Murphy, L. AU - Oliver, K. AU - O'Neil, S. AU - Rabbinowitsch, E. AU - Rajandream, M. A. AU - Rutherford, K. PY - 2002 DA - 2002// TI - Complete genome sequence of the model actinomycete Streptomyces coelicolorA3(2). JO - Nature VL - 417 UR - https://doi.org/10.1038/417141a DO - 10.1038/417141a ID - Bentley2002 ER - TY - JOUR AU - Huang, J. AU - Lih, C. J. AU - Pan, K. H. AU - Cohen, S. N. PY - 2001 DA - 2001// TI - Global analysis of growth phase responsive gene expression and regulation of antibiotic biosynthetic pathways in Streptomyces coelicolorusing DNA microarrays. JO - Genes Dev VL - 15 UR - https://doi.org/10.1101/gad.943401 DO - 10.1101/gad.943401 ID - Huang2001 ER - TY - JOUR AU - Bucca, G. AU - Brassington, A. M. AU - Hotchkiss, G. AU - Mersinias, V. AU - Smith, C. P. PY - 2003 DA - 2003// TI - Negative feedback regulation of dnaK, clpB and lon expression by the DnaK chaperone machine in Streptomyces coelicolor, identified by transcriptome and in vivoDnaK-depletion analysis. JO - Mol Microbiol VL - 50 UR - https://doi.org/10.1046/j.1365-2958.2003.03696.x DO - 10.1046/j.1365-2958.2003.03696.x ID - Bucca2003 ER - TY - JOUR AU - Hesketh, A. AU - Bucca, G. AU - Laing, E. AU - Flett, F. AU - Hotchkiss, G. AU - Smith, C. P. AU - Chater, K. F. PY - 2007 DA - 2007// TI - New pleiotropic effects of eliminating a rare tRNA from Streptomyces coelicolor, revealed by combined proteomic and transcriptomic analysis of liquid cultures. JO - BMC Genomics VL - 8 UR - https://doi.org/10.1186/1471-2164-8-261 DO - 10.1186/1471-2164-8-261 ID - Hesketh2007 ER - TY - JOUR AU - Borodina, I. AU - Krabben, P. AU - Nielsen, J. PY - 2005 DA - 2005// TI - Genome-scale analysis of Streptomyces coelicolorA3(2) metabolism. JO - Genome Res VL - 15 UR - https://doi.org/10.1101/gr.3364705 DO - 10.1101/gr.3364705 ID - Borodina2005 ER - TY - STD TI - The Streptomyces coelicolor Microarray Resource. [http://www.surrey.ac.uk/SBMS/Fgenomics/Microarrays/] UR - http://www.surrey.ac.uk/SBMS/Fgenomics/Microarrays/ ID - ref9 ER - TY - JOUR AU - Wade, J. T. AU - Struhl, K. AU - Busby, S. J. AU - Grainger, D. C. PY - 2007 DA - 2007// TI - Genomic analysis of protein-DNA interactions in bacteria: insights into transcription and chromosome organization. JO - Mol Microbiol VL - 65 UR - https://doi.org/10.1111/j.1365-2958.2007.05781.x DO - 10.1111/j.1365-2958.2007.05781.x ID - Wade2007 ER - TY - JOUR AU - Eichenberger, P. AU - Fujita, M. AU - Jensen, S. T. AU - Conlon, E. M. AU - Rudner, D. Z. AU - Wang, S. T. AU - Ferguson, C. AU - Haga, K. AU - Sato, T. AU - Liu, J. S. AU - Losick, R. PY - 2004 DA - 2004// TI - The program of gene transcription for a single differentiating cell type during sporulation in Bacillus subtilis. JO - PLoS Biol VL - 2 UR - https://doi.org/10.1371/journal.pbio.0020328 DO - 10.1371/journal.pbio.0020328 ID - Eichenberger2004 ER - TY - JOUR AU - Grainger, D. C. AU - Hurd, D. AU - Harrison, M. AU - Holdstock, J. AU - Busby, S. J. PY - 2005 DA - 2005// TI - Studies of the distribution of Escherichia coli cAMP-receptor protein and RNA polymerase along the E. colichromosome. JO - Proc Natl Acad Sci USA VL - 102 UR - https://doi.org/10.1073/pnas.0506687102 DO - 10.1073/pnas.0506687102 ID - Grainger2005 ER - TY - JOUR AU - Grainger, D. C. AU - Hurd, D. AU - Goldberg, M. D. AU - Busby, S. J. PY - 2006 DA - 2006// TI - Association of nucleoid proteins with coding and non-coding segments of the Escherichia coligenome. JO - Nucleic Acids Res VL - 34 UR - https://doi.org/10.1093/nar/gkl542 DO - 10.1093/nar/gkl542 ID - Grainger2006 ER - TY - JOUR AU - Grainger, D. C. AU - Aiba, H. AU - Hurd, D. AU - Browning, D. F. AU - Busby, S. J. PY - 2007 DA - 2007// TI - Transcription factor distribution in Escherichia coli: studies with FNR protein. JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkl1023 DO - 10.1093/nar/gkl1023 ID - Grainger2007 ER - TY - JOUR AU - Lucchini, S. AU - Rowley, G. AU - Goldberg, M. D. AU - Hurd, D. AU - Harrison, M. AU - Hinton, J. C. PY - 2006 DA - 2006// TI - H-NS mediates the silencing of laterally acquired genes in bacteria. JO - PLoS Pathog VL - 2 UR - https://doi.org/10.1371/journal.ppat.0020081 DO - 10.1371/journal.ppat.0020081 ID - Lucchini2006 ER - TY - JOUR AU - Kültz, D. PY - 2005 DA - 2005// TI - Molecular and evolutionary basis of the cellular stress response. JO - Annu Rev Physiol VL - 67 UR - https://doi.org/10.1146/annurev.physiol.67.040403.103635 DO - 10.1146/annurev.physiol.67.040403.103635 ID - Kültz2005 ER - TY - JOUR AU - Bukau, B. AU - Weissman, J. AU - Horwich, A. PY - 2006 DA - 2006// TI - Molecular chaperones and protein quality control. JO - Cell VL - 125 UR - https://doi.org/10.1016/j.cell.2006.04.014 DO - 10.1016/j.cell.2006.04.014 ID - Bukau2006 ER - TY - JOUR AU - Genevaux, P. AU - Georgopoulos, C. AU - Kelley, W. L. PY - 2007 DA - 2007// TI - The Hsp70 chaperone machines of Escherichia coli: a paradigm for the repartition of chaperone functions. JO - Mol Microbiol VL - 66 UR - https://doi.org/10.1111/j.1365-2958.2007.05961.x DO - 10.1111/j.1365-2958.2007.05961.x ID - Genevaux2007 ER - TY - JOUR AU - Narberhaus, F. PY - 1999 DA - 1999// TI - Negative regulation of bacterial heat shock genes. JO - Mol Microbiol VL - 31 UR - https://doi.org/10.1046/j.1365-2958.1999.01166.x DO - 10.1046/j.1365-2958.1999.01166.x ID - Narberhaus1999 ER - TY - JOUR AU - Yura, T. AU - Nagai, H. AU - Mori, H. PY - 1993 DA - 1993// TI - Regulation of the heat-shock response in bacteria. JO - Annu Rev Microbiol VL - 47 UR - https://doi.org/10.1146/annurev.mi.47.100193.001541 DO - 10.1146/annurev.mi.47.100193.001541 ID - Yura1993 ER - TY - JOUR AU - Alba, B. M. AU - Gross, C. A. PY - 2004 DA - 2004// TI - Regulation of the Escherichia colisigma-dependent envelope stress response. JO - Mol Microbiol VL - 52 UR - https://doi.org/10.1111/j.1365-2958.2003.03982.x DO - 10.1111/j.1365-2958.2003.03982.x ID - Alba2004 ER - TY - JOUR AU - Servant, P. AU - Mazodier, P. PY - 2001 DA - 2001// TI - Negative regulation of the heat shock response in Streptomyces. JO - Arch Microbiol VL - 176 UR - https://doi.org/10.1007/s002030100321 DO - 10.1007/s002030100321 ID - Servant2001 ER - TY - JOUR AU - Servant, P. AU - Rapoport, G. AU - Mazodier, P. PY - 1999 DA - 1999// TI - RheA repressor of hsp18 in Streptomyces albusG. JO - Microbiology VL - 145 UR - https://doi.org/10.1099/00221287-145-9-2385 DO - 10.1099/00221287-145-9-2385 ID - Servant1999 ER - TY - JOUR AU - Servant, P. AU - Grandvalet, C. AU - Mazodier, P. PY - 2000 DA - 2000// TI - The RheA repressor in the thermosensor of the HSP18 heat shock response in Streptomyces albus. JO - Proc Natl Acad Sci U S A VL - 97 UR - https://doi.org/10.1073/pnas.97.7.3538 DO - 10.1073/pnas.97.7.3538 ID - Servant2000 ER - TY - JOUR AU - Grandvalet, C. AU - Servant, P. AU - Mazodier, P. PY - 1997 DA - 1997// TI - Disruption of hspR, the repressor gene of the dnaK operon in Streptomyces albusG. JO - Mol Microbiol VL - 23 UR - https://doi.org/10.1046/j.1365-2958.1997.1811563.x DO - 10.1046/j.1365-2958.1997.1811563.x ID - Grandvalet1997 ER - TY - JOUR AU - Bucca, G. AU - Ferina, G. AU - Puglia, A. M. AU - Smith, C. P. PY - 1995 DA - 1995// TI - The dnaK operon of Streptomyces coelicolorencodes a novel heat-shock protein which binds to the promoter region of the operon. JO - Mol Microbiol VL - 17 UR - https://doi.org/10.1111/j.1365-2958.1995.mmi_17040663.x DO - 10.1111/j.1365-2958.1995.mmi_17040663.x ID - Bucca1995 ER - TY - JOUR AU - Bucca, G. AU - Hindle, Z. AU - Smith, C. P. PY - 1997 DA - 1997// TI - Regulation of the dnaK operon of Streptomyces coelicolorA3(2) is governed by HspR, an autoregulatory repressor protein. JO - J Bacteriol VL - 179 ID - Bucca1997 ER - TY - JOUR AU - Stewart, G. R. AU - Wernisch, L. AU - Stabler, R. AU - Mangan, J. A. AU - Hinds, J. AU - Laing, K. G. AU - Young, D. B. AU - Butcher, P. D. PY - 2002 DA - 2002// TI - Dissection of the heat-shock response in Mycobacterium tuberculosisusing mutants and microarrays. JO - Microbiology VL - 148 UR - https://doi.org/10.1099/00221287-148-10-3129 DO - 10.1099/00221287-148-10-3129 ID - Stewart2002 ER - TY - JOUR AU - Engels, S. AU - Schweitzer, J. E. AU - Ludwig, C. AU - Bott, M. AU - Schaffer, S. PY - 2004 DA - 2004// TI - clpC and clpP1P2 gene expression in Corynebacterium glutamicumis controlled by a regulatory network involving the transcriptional regulators ClgR and HspR as well as the ECF sigma factor sigmaH. JO - Mol Microbiol VL - 52 UR - https://doi.org/10.1111/j.1365-2958.2003.03979.x DO - 10.1111/j.1365-2958.2003.03979.x ID - Engels2004 ER - TY - JOUR AU - Spohn, G. AU - Scarlato, V. PY - 1999 DA - 1999// TI - The autoregulatory HspR repressor protein governs chaperone gene transcription in Helicobacter pylori. JO - Mol Microbiol VL - 34 UR - https://doi.org/10.1046/j.1365-2958.1999.01625.x DO - 10.1046/j.1365-2958.1999.01625.x ID - Spohn1999 ER - TY - JOUR AU - Spohn, G. AU - Danielli, A. AU - Roncarati, D. AU - Delany, I. AU - Rappouli, R. AU - Scarlato, V. PY - 2004 DA - 2004// TI - Dual control of Helicobacter pyloriheat shock gene transcription by HspR and HrcA. JO - J Bacteriol VL - 186 UR - https://doi.org/10.1128/JB.186.10.2956-2965.2004 DO - 10.1128/JB.186.10.2956-2965.2004 ID - Spohn2004 ER - TY - JOUR AU - Roncarati, D. AU - Danielli, A. AU - Spohn, G. AU - Delany, I. AU - Scarlato, V. PY - 2007 DA - 2007// TI - Transcriptional regulation of stress response and motility functions in Helicobacter pyloriis mediated by HspR and HrcA. JO - J Bacteriol VL - 189 UR - https://doi.org/10.1128/JB.00626-07 DO - 10.1128/JB.00626-07 ID - Roncarati2007 ER - TY - JOUR AU - Schmid, A. K. AU - Howell, H. A. AU - Battista, J. R. AU - Peterson, S. N. AU - Lidstrom, M. E. PY - 2005 DA - 2005// TI - HspR is a global negative regulator of heat shock gene expression in Deinococcus radiodurans. JO - Mol Microbiol VL - 55 UR - https://doi.org/10.1111/j.1365-2958.2005.04494.x DO - 10.1111/j.1365-2958.2005.04494.x ID - Schmid2005 ER - TY - JOUR AU - Ventura, M. AU - Kenny, J. G. AU - Zhang, Z. AU - Fitzgerald, G. F. AU - van Sinderen, D. PY - 2005 DA - 2005// TI - The clpB gene of Bifidobacterium breveUCC 2003: transcriptional analysis and first insights into stress induction. JO - Microbiology VL - 151 UR - https://doi.org/10.1099/mic.0.28176-0 DO - 10.1099/mic.0.28176-0 ID - Ventura2005 ER - TY - JOUR AU - Andersen, M. T. AU - Brøndsted, L. AU - Pearson, B. M. AU - Mulholland, F. AU - Parker, M. AU - Pin, C. AU - Wells, J. M. AU - Ingmer, H. PY - 2005 DA - 2005// TI - Diverse roles for HspR in Campylobacter jejunirevealed by the proteome, transcriptome and phenotypic characterization of an hspR mutant. JO - Microbiology VL - 151 UR - https://doi.org/10.1099/mic.0.27513-0 DO - 10.1099/mic.0.27513-0 ID - Andersen2005 ER - TY - JOUR AU - Laing, E. AU - Mersinias, V. AU - Smith, C. P. AU - Hubbard, S. J. PY - 2006 DA - 2006// TI - Analysis of gene expression in operons of Streptomyces coelicolor. JO - Genome Biol VL - 7 UR - https://doi.org/10.1186/gb-2006-7-6-r46 DO - 10.1186/gb-2006-7-6-r46 ID - Laing2006 ER - TY - JOUR AU - Breitling, R. AU - Armengaud, P. AU - Amtmann, A. AU - Herzyk, P. PY - 2004 DA - 2004// TI - Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. JO - FEBS Lett VL - 573 UR - https://doi.org/10.1016/j.febslet.2004.07.055 DO - 10.1016/j.febslet.2004.07.055 ID - Breitling2004 ER - TY - JOUR AU - Van Keulen, G. AU - Hopwood, D. A. AU - Dijkhuizen, L. AU - Sawers, R. G. PY - 2005 DA - 2005// TI - Gas vesicles in actinomycetes: old buoys in novel habitats? JO - Trends Microbiol VL - 13 UR - https://doi.org/10.1016/j.tim.2005.06.006 DO - 10.1016/j.tim.2005.06.006 ID - Van Keulen2005 ER - TY - JOUR AU - Hong, H. J. AU - Paget, M. S. AU - Buttner, M. J. PY - 2002 DA - 2002// TI - A signal transduction system in Streptomyces coelicolorthat activates the expression of a putative cell wall glycan operon in response to vancomycin and other cell wall-specific antibiotics. JO - Mol Microbiol VL - 44 UR - https://doi.org/10.1046/j.1365-2958.2002.02960.x DO - 10.1046/j.1365-2958.2002.02960.x ID - Hong2002 ER - TY - JOUR AU - Finn, R. D. AU - Mistry, J. AU - Schuser-Böckler, B. AU - Griffiths-Jones, S. AU - Hollich, V. AU - Lassmann, T. AU - Moxon, S. AU - Marshall, M. AU - Khanna, A. AU - Durbin, R. AU - Eddy, S. R. AU - Sonnhammer, E. L. L. AU - Bateman, A. PY - 2006 DA - 2006// TI - Pfam: clans, web tools and services. JO - Nucleic Acids Res VL - 34 UR - https://doi.org/10.1093/nar/gkj149 DO - 10.1093/nar/gkj149 ID - Finn2006 ER - TY - STD TI - SIB Blast Network Service. [http://www.expasy.org/tools/blast/] UR - http://www.expasy.org/tools/blast/ ID - ref41 ER - TY - JOUR AU - Altschul, S. F. AU - Madden, T. L. AU - Schäffer, A. A. AU - Zhang, J. AU - Zhang, Z. AU - Miller, W. AU - Lipman, D. J. PY - 1997 DA - 1997// TI - Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. JO - Nucleic Acids Res VL - 25 UR - https://doi.org/10.1093/nar/25.17.3389 DO - 10.1093/nar/25.17.3389 ID - Altschul1997 ER - TY - JOUR AU - Fox, D. S. AU - Cox, G. M. AU - Heitman, J. PY - 2003 DA - 2003// TI - Phospholipid-binding protein Cts1 controls septation and functions coordinately with calcineurin in Cryptococcus neoformans. JO - Eukaryot Cell VL - 2 UR - https://doi.org/10.1128/EC.2.5.1025-1035.2003 DO - 10.1128/EC.2.5.1025-1035.2003 ID - Fox2003 ER - TY - STD TI - Regulatory Sequence Analysis Tools. [http://rsat.ulb.ac.be/rsat/] UR - http://rsat.ulb.ac.be/rsat/ ID - ref44 ER - TY - JOUR AU - van Helden, J. PY - 2003 DA - 2003// TI - Regulatory sequence analysis tools. JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg567 DO - 10.1093/nar/gkg567 ID - van Helden2003 ER - TY - JOUR AU - Hartl, F. U. AU - Hayer-Hartl, M. PY - 2002 DA - 2002// TI - Molecular chaperones in the cytosol: from nascent chain to folded protein JO - Science VL - 295 UR - https://doi.org/10.1126/science.1068408 DO - 10.1126/science.1068408 ID - Hartl2002 ER - TY - JOUR AU - de León, P. AU - Mellado, R. PY - 1997 DA - 1997// TI - Ribosomal RNA synthesis in Streptomyces lividansunder heat shock conditions. JO - Gene VL - 194 UR - https://doi.org/10.1016/S0378-1119(97)00183-2 DO - 10.1016/S0378-1119(97)00183-2 ID - de León1997 ER - TY - JOUR AU - Newlands, J. T. AU - Gaal, T. AU - Mecsas, J. AU - Gourse, R. L. PY - 1993 DA - 1993// TI - Transcription of the Escherichia coli rrnB P1 promoter by the Heat shock RNA Polymerase (Eσ 32) in vitro. JO - J Bacteriol VL - 175 ID - Newlands1993 ER - TY - JOUR AU - Kim, H. L. AU - Shin, E. K. AU - Kim, H. M. AU - Ryou, S. M. AU - Kim, S. AU - Cha, C. J. AU - Bae, J. AU - Lee, K. PY - 2007 DA - 2007// TI - Heterogeneous rRNAs are differentially expressed during the morphological development of Streptomyces coelicolor. JO - FEMS Microbiol Lett VL - 275 UR - https://doi.org/10.1111/j.1574-6968.2007.00872.x DO - 10.1111/j.1574-6968.2007.00872.x ID - Kim2007 ER - TY - JOUR AU - Blanco, G. AU - Rodicio, M. R. AU - Puglia, A. M. AU - Méndez, C. AU - Thompson, C. J. AU - Salas, J. A. PY - 1994 DA - 1994// TI - Synthesis of ribosomal proteins during growth of Streptomyces coelicolor. JO - Mol Microbiol VL - 12 UR - https://doi.org/10.1111/j.1365-2958.1994.tb01027.x DO - 10.1111/j.1365-2958.1994.tb01027.x ID - Blanco1994 ER - TY - JOUR AU - Hahn, M. Y. AU - Roe, J. -. H. PY - 2007 DA - 2007// TI - Partial purification of factors for differential transcription of the rrnD promoters for ribosomal RNA synthesis in Streptomyces coelicolor. JO - J Microbiol VL - 45 ID - Hahn2007 ER - TY - JOUR AU - Feng, L. AU - Sheppard, K. AU - Namgoong, S. AU - Ambrogelly, A. AU - Polycarpo, C. AU - Randau, L. AU - Tumbula-Hansen, D. AU - Söll, D. PY - 2004 DA - 2004// TI - Aminoacyl-tRNA synthesis by pre-translational amino acid modification. JO - RNA Biol VL - 1 UR - https://doi.org/10.4161/rna.1.1.953 DO - 10.4161/rna.1.1.953 ID - Feng2004 ER - TY - CHAP AU - Cashel, M. AU - Gentry, V. AU - Hernandez, V. J. AU - Vinella, D. ED - Neidhardt, F. C. ED - Curtiss, R. PY - 1996 DA - 1996// TI - The stringent response. BT - Escherichia coli and Salmonella Cellular and Molecular Biology PB - ASM Press CY - Washington DC ID - Cashel1996 ER - TY - JOUR AU - Levicán, G. AU - Katz, A. AU - Valenzuela, P. AU - Söll, D. AU - Orellana, O. PY - 2005 DA - 2005// TI - A tRNAGluthat uncouples protein and tetrapyrrole biosynthesis. JO - FEBS Lett VL - 579 UR - https://doi.org/10.1016/j.febslet.2005.09.100 DO - 10.1016/j.febslet.2005.09.100 ID - Levicán2005 ER - TY - JOUR AU - Jahn, D. AU - Verkamp, E. AU - Söll, D. PY - 1992 DA - 1992// TI - Glutamyl-transfer RNA; a precursor of heme and chlorophyll biosynthesis. JO - Trends Biochem Sci VL - 17 UR - https://doi.org/10.1016/0968-0004(92)90380-R DO - 10.1016/0968-0004(92)90380-R ID - Jahn1992 ER - TY - JOUR AU - Farias, S. T. AU - Bonato, M. C. PY - 2003 DA - 2003// TI - Preferred amino acids and thermostability. JO - Genet Mol Res VL - 2 ID - Farias2003 ER - TY - JOUR AU - Hindle, Z. AU - Smith, C. P. PY - 1994 DA - 1994// TI - Substrate induction and catabolite repression of the Streptomyces coelicolorglycerol operon are mediated through the GylR protein. JO - Mol Microbiol VL - 12 UR - https://doi.org/10.1111/j.1365-2958.1994.tb01061.x DO - 10.1111/j.1365-2958.1994.tb01061.x ID - Hindle1994 ER - TY - BOOK AU - Kieser, T. AU - Bibb, M. J. AU - Buttner, M. J. AU - Chater, K. F. AU - Hopwood, D. A. PY - 2000 DA - 2000// TI - Practical Streptomyces Genetics PB - John Innes Centre CY - Norwich ID - Kieser2000 ER - TY - JOUR AU - Grainger, D. C. AU - Overton, T. W. AU - Reppas, N. AU - Wade, J. T. AU - Tamai, E. AU - Hobman, J. L. AU - Constantinidou, C. AU - Struhl, K. AU - Church, G. AU - Busby, S. J. PY - 2004 DA - 2004// TI - Genomic studies with Escherichia coliMelR protein: applications of chromatin immunoprecipitation and microarrays. JO - J Bacteriol VL - 186 UR - https://doi.org/10.1128/JB.186.20.6938-6943.2004 DO - 10.1128/JB.186.20.6938-6943.2004 ID - Grainger2004 ER - TY - JOUR AU - McKenzie, N. L. AU - Nodwell, J. R. PY - 2007 DA - 2007// TI - Phosphorylated AbsA2 negatively regulates antibiotic production in Streptomyces coelicolorthrough interactions with pathway-specific regulatory gene promoters. JO - J Bacteriol VL - 189 UR - https://doi.org/10.1128/JB.00305-07 DO - 10.1128/JB.00305-07 ID - McKenzie2007 ER - TY - JOUR AU - Bucca, G. AU - Brassington, A. M. AU - Schönfeld, H. J. AU - Smith, C. P. PY - 2000 DA - 2000// TI - The HspR regulon of Streptomyces coelicolor: a role for the DnaK chaperone as a transcriptional corepressor. JO - Mol Microbiol VL - 38 UR - https://doi.org/10.1046/j.1365-2958.2000.02194.x DO - 10.1046/j.1365-2958.2000.02194.x ID - Bucca2000 ER - TY - STD TI - University of Surrey Streptomyces Microarray Hybridisation Protocol. [http://www.surrey.ac.uk/SBMS/Fgenomics/Microarrays/docs/Strep_hyb_protocol_1005.pdf] UR - http://www.surrey.ac.uk/SBMS/Fgenomics/Microarrays/docs/Strep_hyb_protocol_1005.pdf ID - ref62 ER - TY - JOUR AU - Buck, M. J. AU - Lieb, J. D. PY - 2004 DA - 2004// TI - ChIP-chip: considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments. JO - Genomics VL - 83 UR - https://doi.org/10.1016/j.ygeno.2003.11.004 DO - 10.1016/j.ygeno.2003.11.004 ID - Buck2004 ER - TY - JOUR AU - Smyth, G. K. AU - Speed, T. P. PY - 2003 DA - 2003// TI - Normalization of cDNA microarray data. JO - Methods VL - 31 UR - https://doi.org/10.1016/S1046-2023(03)00155-5 DO - 10.1016/S1046-2023(03)00155-5 ID - Smyth2003 ER - TY - JOUR AU - Gentleman, R. C. AU - Carey, V. J. AU - Bates, D. M. AU - Bolstad, B. AU - Dettling, M. AU - Dudoit, S. AU - Ellis, B. AU - Gautier, L. AU - Ge, Y. AU - Gentry, J. AU - Hornik, K. AU - Hothorn, T. AU - Huber, W. AU - Iacus, S. AU - Irizarry, R. AU - Leisch, F. AU - Li, C. AU - Maechler, M. AU - Rossini, A. J. AU - Sawitzki, G. AU - Smith, C. AU - Smyth, G. AU - Tierney, L. AU - Yang, J. Y. AU - Zhang, J. PY - 2004 DA - 2004// TI - Bioconductor: open software development for computational biology and bioinformatics. JO - Genome Biol VL - 5 UR - https://doi.org/10.1186/gb-2004-5-10-r80 DO - 10.1186/gb-2004-5-10-r80 ID - Gentleman2004 ER - TY - STD TI - R. [http://www.R-project.org] UR - http://www.R-project.org ID - ref66 ER - TY - BOOK PY - 2005 DA - 2005// TI - R: a Language and Environment for Statistical Computing PB - Austria: R Foundation for Statistical Computing CY - Vienna ID - ref67 ER - TY - JOUR AU - Hong, F. AU - Breitling, R. AU - McEntee, C. W. AU - Wittner, B. S. AU - Nemhauser, J. L. AU - Chory, J. PY - 2006 DA - 2006// TI - RankProd: a Bioconductor package for detecting differentially expressed genes in meta-analysis. JO - Bioinformatics VL - 22 UR - https://doi.org/10.1093/bioinformatics/btl476 DO - 10.1093/bioinformatics/btl476 ID - Hong2006 ER - TY - JOUR AU - Jeffery, I. B. AU - Desmond, G. H. AU - Culhane, A. C. PY - 2006 DA - 2006// TI - Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. JO - BMC Bioinformatics VL - 7 UR - https://doi.org/10.1186/1471-2105-7-359 DO - 10.1186/1471-2105-7-359 ID - Jeffery2006 ER - TY - JOUR AU - Hong, F. AU - Breitling, R. PY - 2008 DA - 2008// TI - A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments. JO - Bioinformatics VL - 24 UR - https://doi.org/10.1093/bioinformatics/btm620 DO - 10.1093/bioinformatics/btm620 ID - Hong2008 ER - TY - JOUR AU - Benjamini, Y. AU - Hochberg, Y. PY - 1999 DA - 1999// TI - Controlling the false discovery rate: a practical and powerful approach to multiple testing. JO - J R Stat Soc VL - 57 ID - Benjamini1999 ER - TY - JOUR AU - Ben-Dor, A. AU - Shamir, R. AU - Yakhini, Z. PY - 1999 DA - 1999// TI - Clustering gene expression patterns. JO - J Comput Biol VL - 6 UR - https://doi.org/10.1089/106652799318274 DO - 10.1089/106652799318274 ID - Ben-Dor1999 ER - TY - JOUR AU - Larkin, M. A. AU - Blackshields, G. AU - Brown, N. P. AU - Chenna, R. AU - McGettigan, P. A. AU - McWilliam, H. AU - Valentin, F. AU - Wallace, I. M. AU - Wilm, A. AU - Lopez, R. AU - Thompson, J. D. AU - Gibson, T. J. AU - Higgins, D. G. PY - 2007 DA - 2007// TI - Clustal W and Clustal X version 2.0. JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm404 DO - 10.1093/bioinformatics/btm404 ID - Larkin2007 ER - TY - STD TI - MEME. [http://meme.sdsc.edu/meme] UR - http://meme.sdsc.edu/meme ID - ref74 ER - TY - CHAP AU - Bailey, T. L. AU - Elkan, C. ED - Altman, R. ED - Brutlag, D. ED - Karp, P. ED - Lathrop, R. ED - Searls, D. PY - 1994 DA - 1994// TI - Fitting a mixture model by expectation maximization to discover motifs in biopolymers. BT - Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology: August 14-17, 1994; Stanford, California PB - AAAI Press CY - Menlo Park, CA ID - Bailey1994 ER - TY - STD TI - WebLogo. [http://weblogo.berkeley.edu/] UR - http://weblogo.berkeley.edu/ ID - ref76 ER - TY - JOUR AU - Crooks, G. E. AU - Hon, G. AU - Chandonia, J. M. AU - Brenner, S. E. PY - 2004 DA - 2004// TI - WebLogo: a sequence logo generator. JO - Genome Res VL - 14 UR - https://doi.org/10.1101/gr.849004 DO - 10.1101/gr.849004 ID - Crooks2004 ER -