-
1
-
-
67249091712
-
Genetic dissection of an exogenously induced biofilm in laboratory and clinical isolates of E. coli
-
Amini S, Goodarzi H, Tavazoie S (2009) Genetic dissection of an exogenously induced biofilm in laboratory and clinical isolates of E. coli. PLoS Pathog 5: e1000432
-
(2009)
PLoS Pathog
, vol.5
-
-
Amini, S.1
Goodarzi, H.2
Tavazoie, S.3
-
2
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29
-
(2000)
The Gene Ontology Consortium. Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Ma, H.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
3
-
-
31544450286
-
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: The Keio collection
-
2006.008
-
Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006.008
-
(2006)
Mol Syst Biol
, vol.2
-
-
Baba, T.1
Ara, T.2
Hasegawa, M.3
Takai, Y.4
Okumura, Y.5
Baba, M.6
Datsenko, K.A.7
Tomita, M.8
Wanner, B.L.9
Mori, H.10
-
4
-
-
0034761603
-
Selection analyses of insertional mutants using subgenic-resolution arrays
-
Badarinarayana V, Estep PW, Shendure J, Edwards J, Tavazoie S, Lam F, Church GM (2001) Selection analyses of insertional mutants using subgenic-resolution arrays. Nat Biotech 19: 1060-1065
-
(2001)
Nat Biotech
, vol.19
, pp. 1060-1065
-
-
Badarinarayana, V.1
Estep, P.W.2
Shendure, J.3
Edwards, J.4
Tavazoie, S.5
Lam, F.6
Church, G.M.7
-
5
-
-
50349092811
-
Absolute quantitation of intracellular metabolite concentrations by an isotope ratio-based approach
-
Bennett BD, Yuan J, Kimball EH, Rabinowitz JD (2008) Absolute quantitation of intracellular metabolite concentrations by an isotope ratio-based approach. Nat Protoc 3: 1299-1311
-
(2008)
Nat Protoc
, vol.3
, pp. 1299-1311
-
-
Bennett, B.D.1
Yuan, J.2
Kimball, E.H.3
Rabinowitz, J.D.4
-
6
-
-
0019121338
-
Ethanol-induced changes in lipid composition of Escherichia coli: Inhibition of saturated fatty acid synthesis in vitro
-
Buttke TM, Ingram LO (1980) Ethanol-induced changes in lipid composition of Escherichia coli: inhibition of saturated fatty acid synthesis in vitro. Arch Biochem Biophys 203: 565-571
-
(1980)
Arch Biochem Biophys
, vol.203
, pp. 565-571
-
-
Buttke, T.M.1
Ingram, L.O.2
-
7
-
-
44249091644
-
Termination factor Rho and its cofactors NusA and NusG silence foreign DNA in E-coli
-
Cardinale CJ,Washburn RS, Tadigotla VR, Brown LM, Gottesman ME, Nudler E (2008) Termination factor Rho and its cofactors NusA and NusG silence foreign DNA in E-coli. Science 320: 935-938
-
(2008)
Science
, vol.320
, pp. 935-938
-
-
Cardinale, C.J.1
Washburn, R.S.2
Tadigotla, V.R.3
Brown, L.M.4
Gottesman, M.E.5
Nudler, E.6
-
8
-
-
0022623194
-
Ethanol dissipates the proton-motive force across the plasma membrane of Saccharomyces cerevisiae
-
Cartwright CP, Juroszek JR, Beaven MJ, Ruby FMS, De Morais SMF, Rose AH (1986) Ethanol dissipates the proton-motive force across the plasma membrane of Saccharomyces cerevisiae. J Gen Microbiol 132: 369-377
-
(1986)
J Gen Microbiol
, vol.132
, pp. 369-377
-
-
Cartwright, C.P.1
Juroszek, J.R.2
Beaven, M.J.3
Fms, R.4
De Morais Smf5
Rose, A.H.6
-
12
-
-
0034612342
-
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
-
Datsenko KA, Wanner BL (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97: 6640-6645
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 6640-6645
-
-
Datsenko, K.A.1
Wanner, B.L.2
-
13
-
-
0021884673
-
Genetic aspects of ethanol tolerance and production by Saccharomyces cerevisiae
-
del Castillo Agudo L (1985) Genetic aspects of ethanol tolerance and production by Saccharomyces cerevisiae. Current Microbiol 12: 41-44
-
(1985)
Current Microbiol
, vol.12
, pp. 41-44
-
-
Del Castillo Agudo, L.1
-
14
-
-
0021360943
-
Effects of ethanol on the Escherichia coli plasma membrane
-
Dombek KM, Ingram LO (1984) Effects of ethanol on the Escherichia coli plasma membrane. J Bacteriol 157: 233-239
-
(1984)
J Bacteriol
, vol.157
, pp. 233-239
-
-
Dombek, K.M.1
Ingram, L.O.2
-
15
-
-
0025885633
-
Murein-metabolizing enzymes from Escherichia coli: Sequence analysis and controlled overexpression of the slt gene, which encodes the soluble lytic transglycosylase
-
Engel H, Kazemier B, Keck W (1991) Murein-metabolizing enzymes from Escherichia coli: sequence analysis and controlled overexpression of the slt gene, which encodes the soluble lytic transglycosylase. J Bacteriol 173: 6773-6782
-
(1991)
J Bacteriol
, vol.173
, pp. 6773-6782
-
-
Engel, H.1
Kazemier, B.2
Keck, W.3
-
16
-
-
0034959944
-
Combining genomics, metabolome analysis, and biochemical modelling to understand metabolic networks
-
Fiehn O (2001) Combining genomics, metabolome analysis, and biochemical modelling to understand metabolic networks. Comp Funct Genomics 2: 155-168
-
(2001)
Comp Funct Genomics
, vol.2
, pp. 155-168
-
-
Fiehn, O.1
-
17
-
-
9444285788
-
Escherichia coli acid resistance: Tales of an amateur acidophile
-
Foster JW (2004) Escherichia coli acid resistance: tales of an amateur acidophile. Nat Rev Microbiol 2: 898-907
-
(2004)
Nat Rev Microbiol
, vol.2
, pp. 898-907
-
-
Foster, J.W.1
-
18
-
-
34848889244
-
A comprehensive genetic characterization of bacterial motility
-
Girgis HS, Liu Y, Ryu WS, Tavazoie S (2007) A comprehensive genetic characterization of bacterial motility. PLoS Genet 3: 1644-1660
-
(2007)
PLoS Genet
, vol.3
, pp. 1644-1660
-
-
Girgis, H.S.1
Liu, Y.2
Ryu, W.S.3
Tavazoie, S.4
-
19
-
-
0037357728
-
Gene array-based identification of changes that contribute to ethanol tolerance in ethanologenic Escherichia coli: Comparison of KO11 (parent) to LY01 (resistant mutant)
-
Gonzalez R, Tao H, Purvis JE, York SW, Shanmugam KT, Ingram LO (2003) Gene array-based identification of changes that contribute to ethanol tolerance in ethanologenic Escherichia coli: comparison of KO11 (parent) to LY01 (resistant mutant). Biotechnol Prog 19: 612-623
-
(2003)
Biotechnol Prog
, vol.19
, pp. 612-623
-
-
Gonzalez, R.1
Tao, H.2
Purvis, J.E.3
York, S.W.4
Shanmugam, K.T.5
Ingram, L.O.6
-
20
-
-
71149084382
-
Revealing global regulatory perturbations across human cancers
-
Goodarzi H, Elemento O, Tavazoie S (2009a) Revealing global regulatory perturbations across human cancers. Mol Cell 36: 900-911
-
(2009)
Mol Cell
, vol.36
, pp. 900-911
-
-
Goodarzi, H.1
Elemento, O.2
Tavazoie, S.3
-
23
-
-
0031957626
-
Ethanol-induced water stress in yeast
-
Hallsworth JE (1998) Ethanol-induced water stress in yeast. J Ferment Bioeng 85: 125-137
-
(1998)
J Ferment Bioeng
, vol.85
, pp. 125-137
-
-
Hallsworth, J.E.1
-
24
-
-
0033678920
-
Ethanol tolerance and membrane fatty acid adaptation in adh multiple and null mutants of Kluyveromyces lactis
-
Heipieper HJ, Isken S, Saliola M (2000) Ethanol tolerance and membrane fatty acid adaptation in adh multiple and null mutants of Kluyveromyces lactis. Res Microbiol 151: 777-784
-
(2000)
Res Microbiol
, vol.151
, pp. 777-784
-
-
Heipieper, H.J.1
Isken, S.2
Saliola, M.3
-
25
-
-
0017250532
-
Adaptation of membrane lipids to alcohols
-
Ingram LO (1976) Adaptation of membrane lipids to alcohols. J Bacteriol 125: 670-678
-
(1976)
J Bacteriol
, vol.125
, pp. 670-678
-
-
Ingram, L.O.1
-
26
-
-
0017660350
-
Preferential inhibition of phosphatidyl ethanolamine synthesis in E. coli by alcohols
-
Ingram LO (1977) Preferential inhibition of phosphatidyl ethanolamine synthesis in E. coli by alcohols. Can J Microbiol 23: 779-789
-
(1977)
Can J Microbiol
, vol.23
, pp. 779-789
-
-
Ingram, L.O.1
-
27
-
-
0022570989
-
Microbial tolerance to alcohols: Role of the cell membrane
-
Ingram LO (1986) Microbial tolerance to alcohols: role of the cell membrane. Trends Biotechnol 4: 40-44
-
(1986)
Trends Biotechnol
, vol.4
, pp. 40-44
-
-
Ingram, L.O.1
-
28
-
-
0021668356
-
Effects of alcohols on micro-organisms
-
Ingram LO, Buttke TM (1984) Effects of alcohols on micro-organisms. Adv Microb Physiol 25: 253-300
-
(1984)
Adv Microb Physiol
, vol.25
, pp. 253-300
-
-
Ingram, L.O.1
Buttke, T.M.2
-
30
-
-
34147172119
-
Products of the Escherichia coli acid fitness island attenuate metabolite stress at extremely low pH and mediate a cell density-dependent acid resistance
-
Mates AK, Sayed AK, Foster JW (2007) Products of the Escherichia coli acid fitness island attenuate metabolite stress at extremely low pH and mediate a cell density-dependent acid resistance. J Bacteriol 189: 2759-2768
-
(2007)
J Bacteriol
, vol.189
, pp. 2759-2768
-
-
Mates, A.K.1
Sayed, A.K.2
Foster, J.W.3
-
31
-
-
0034721882
-
Evolution of the adhE gene product of Escherichia coli from a functional reductase to a dehydrogenase. Genetic and biochemical studies of the mutant proteins
-
Membrillo-Hernandez J, Echave P, Cabiscol E, Tamarit J, Ros J, Lin EC (2000) Evolution of the adhE gene product of Escherichia coli from a functional reductase to a dehydrogenase. Genetic and biochemical studies of the mutant proteins. J Biol Chem 275: 33869-33875
-
(2000)
J Biol Chem
, vol.275
, pp. 33869-33875
-
-
Membrillo-Hernandez, J.1
Echave, P.2
Cabiscol, E.3
Tamarit, J.4
Ros, J.5
Lin, E.C.6
-
33
-
-
0041311397
-
Study of the feedback effect of ethanol on selected enzymes of the glycolytic pathway
-
Nagodawithana TW, Whitt JT, Cutaia AJ (1977) Study of the feedback effect of ethanol on selected enzymes of the glycolytic pathway. J Am Soc Brew Chem 35: 179-183
-
(1977)
J Am Soc Brew Chem
, vol.35
, pp. 179-183
-
-
Nagodawithana, T.W.1
Whitt, J.T.2
Cutaia, A.J.3
-
36
-
-
0042665928
-
RNase G of Escherichia coli exhibits only limited functional overlap with its essential homologue
-
Ow MC, Perwez T, Kushner SR (2003) RNase G of Escherichia coli exhibits only limited functional overlap with its essential homologue, RNase E. Mol Microbiol 49: 607-622
-
(2003)
RNase E. Mol Microbiol
, vol.49
, pp. 607-622
-
-
Ow, M.C.1
Perwez, T.2
Kushner, S.R.3
-
37
-
-
0033978997
-
PrpR, ntrA, and ihf functions are required for expression of the prpBCDE operon, encoding enzymes that catabolize propionate in Salmonella enterica serovar typhimurium LT2
-
Palacios S, Escalante-Semerena JC (2000) prpR, ntrA, and ihf functions are required for expression of the prpBCDE operon, encoding enzymes that catabolize propionate in Salmonella enterica serovar typhimurium LT2. J Bacteriol 182: 905-910
-
(2000)
J Bacteriol
, vol.182
, pp. 905-910
-
-
Palacios, S.1
Escalante-Semerena, J.C.2
-
38
-
-
34548023950
-
Acidic acetonitrile for cellular metabolome extraction from Escherichia coli
-
Rabinowitz JD, Kimball E (2007) Acidic acetonitrile for cellular metabolome extraction from Escherichia coli. Anal Chem 79: 6167-6173
-
(2007)
Anal Chem
, vol.79
, pp. 6167-6173
-
-
Rabinowitz, J.D.1
Kimball, E.2
-
39
-
-
33646851752
-
Pushing the envelope: Extracytoplasmic stress responses in bacterial pathogens
-
Rowley G, Spector M, Kormanec J, Roberts M (2006) Pushing the envelope: extracytoplasmic stress responses in bacterial pathogens. Nat Rev Microbiol 4: 383-394
-
(2006)
Nat Rev Microbiol
, vol.4
, pp. 383-394
-
-
Rowley, G.1
Spector, M.2
Kormanec, J.3
Roberts, M.4
-
40
-
-
33644873438
-
RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions
-
Salgado H, Gama-Castro S, Peralta-Gil M, Diaz-Peredo E, Sanchez-Solano F, Santos-Zavaleta A, Martinez-Flores I, Jimenez-Jacinto V, Bonavides-Martinez C, Segura-Salazar J, Martinez-Antonio A, Collado-Vides J (2006) RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions. Nucleic Acids Res 34: D394-D397
-
(2006)
Nucleic Acids Res
, 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
Martinez-Flores, I.7
Jimenez-Jacinto, V.8
Bonavides-Martinez, C.9
Segura-Salazar, J.10
Martinez-Antonio, A.11
Collado-Vides, J.12
-
41
-
-
33846061120
-
Metabolic networks in motion: 13C-based flux analysis
-
Sauer U (2006) Metabolic networks in motion: 13C-based flux analysis. Mol Syst Biol 2: 62
-
(2006)
Mol Syst Biol
, vol.2
, pp. 62
-
-
Sauer, U.1
-
43
-
-
0033797234
-
Binding of ferric enterobactin by the Escherichia coli periplasmic protein FepB
-
Sprencel C, Cao Z, Qi Z, Scott DC, Montague MA, Ivanoff N, Xu J, Raymond KM, Newton SM, Klebba PE (2000) Binding of ferric enterobactin by the Escherichia coli periplasmic protein FepB. J Bacteriol 182: 5359-5364
-
(2000)
J Bacteriol
, vol.182
, pp. 5359-5364
-
-
Sprencel, C.1
Cao, Z.2
Qi, Z.3
Scott, D.C.4
Ma, M.5
Ivanoff, N.6
Xu, J.7
Raymond, K.M.8
Newton, S.M.9
Klebba, P.E.10
-
45
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA 102: 15545-15550
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Ma, G.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
46
-
-
45549085296
-
Predictive behavior within microbial genetic networks
-
Tagkopoulos I, Liu YC, Tavazoie S (2008) Predictive behavior within microbial genetic networks. Science 320: 1313-1317
-
(2008)
Science
, vol.320
, pp. 1313-1317
-
-
Tagkopoulos, I.1
Liu, Y.C.2
Tavazoie, S.3
-
47
-
-
0031441411
-
Divergent effects of chaperone overexpression and ethanol supplementation on inclusion body formation in recombinant Escherichia coli
-
Thomas JG, Baneyx F (1997) Divergent effects of chaperone overexpression and ethanol supplementation on inclusion body formation in recombinant Escherichia coli. Protein Expr Purif 11: 289-296
-
(1997)
Protein Expr Purif
, vol.11
, pp. 289-296
-
-
Thomas, J.G.1
Baneyx, F.2
-
48
-
-
0035018365
-
Involvement of RNase G in in vivo mRNA metabolism in Escherichia coli
-
Umitsuki G, Wachi M, Takada A, Hikichi T, Nagai K (2001) Involvement of RNase G in in vivo mRNA metabolism in Escherichia coli. Genes Cells 6: 403-410
-
(2001)
Genes Cells
, vol.6
, pp. 403-410
-
-
Umitsuki, G.1
Wachi, M.2
Takada, A.3
Hikichi, T.4
Nagai, K.5
-
49
-
-
36649020263
-
Metabolomics identifies perturbations in human disorders of propionate metabolism
-
Wikoff WR, Gangoiti JA, Barshop BA, Siuzdak G (2007) Metabolomics identifies perturbations in human disorders of propionate metabolism. Clin Chem 53: 2169-2176
-
(2007)
Clin Chem
, vol.53
, pp. 2169-2176
-
-
Wikoff, W.R.1
Gangoiti, J.A.2
Barshop, B.A.3
Siuzdak, G.4
-
50
-
-
0036544760
-
Evaluating adaptive evolution
-
Yokoyama S (2002) Evaluating adaptive evolution. Nat Genet 30: 350-351
-
(2002)
Nat Genet
, vol.30
, pp. 350-351
-
-
Yokoyama, S.1
-
51
-
-
33748878445
-
Kinetic flux profiling of nitrogen assimilation in Escherichia coli
-
Yuan J, Fowler WU, Kimball E, LuW, Rabinowitz JD (2006) Kinetic flux profiling of nitrogen assimilation in Escherichia coli. Nat Chem Biol 2: 529-530
-
(2006)
Nat Chem Biol
, vol.2
, pp. 529-530
-
-
Yuan, J.1
Fowler, W.U.2
Kimball, E.3
Luw Rabinowitz, J.D.4
-
52
-
-
0034922896
-
Fuel ethanol production from lignocellulose: A challenge for metabolic engineering and process integration
-
Zaldivar J, Nielsen J, Olsson L (2001) Fuel ethanol production from lignocellulose: a challenge for metabolic engineering and process integration. Appl Microbiol Biotechnol 56: 17-34
-
(2001)
Appl Microbiol Biotechnol
, vol.56
, pp. 17-34
-
-
Zaldivar, J.1
Nielsen, J.2
Olsson, L.3
|