-
1
-
-
33751429178
-
The evolution of two-component systems in bacteria reveals different strategies for niche adaptation
-
Alm E, Huang K, Arkin A (2006) The evolution of two-component systems in bacteria reveals different strategies for niche adaptation. PLoS Comput Biol 2: e143
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Alm, E.1
Huang, K.2
Arkin, A.3
-
2
-
-
33845442201
-
Engineering yeast transcription machinery for improved ethanol tolerance and production
-
DOI 10.1126/science.1131969
-
Alper H, Moxley J, Nevoigt E, Fink GR, Stephanopoulos G (2006) Engineering yeast transcription machinery for improved ethanol tolerance and production. Science 314: 1565-1568 (Pubitemid 44907143)
-
(2006)
Science
, vol.314
, Issue.5805
, pp. 1565-1568
-
-
Alper, H.1
Moxley, J.2
Nevoigt, E.3
Fink, G.R.4
Stephanopoulos, G.5
-
3
-
-
3042615963
-
Systems level insights into the stress response to UV radiation in the halophilic archaeon Halobacterium NRC-1
-
DOI 10.1101/gr.1993504
-
Baliga NS, Bjork SJ, Bonneau R, Pan M, Iloanusi C, Kottemann MC, Hood L, DiRuggiero J (2004) Systems level insights into the stress response to UVradiation in the halophilic archaeon Halobacterium NRC-1. Genome Res 14: 1025-1035 (Pubitemid 38811538)
-
(2004)
Genome Research
, vol.14
, Issue.6
, pp. 1025-1035
-
-
Baliga, N.S.1
Bjork, S.J.2
Bonneau, R.3
Pan, M.4
Iloanusi, C.5
Kottemann, M.C.H.6
Hood, L.7
DiRuggiero, J.8
-
4
-
-
78649703966
-
Rewiring of genetic networks in response to DNA damage
-
Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guenole A, van Attikum H, Shokat KM, Kolodner RD, Huh WK, Aebersold R, Keogh MC, Krogan NJ et al (2010) Rewiring of genetic networks in response to DNA damage. Science 330: 1385-1389
-
(2010)
Science
, vol.330
, pp. 1385-1389
-
-
Bandyopadhyay, S.1
Mehta, M.2
Kuo, D.3
Sung, M.K.4
Chuang, R.5
Jaehnig, E.J.6
Bodenmiller, B.7
Licon, K.8
Copeland, W.9
Shales, M.10
Fiedler, D.11
Dutkowski, J.12
Guenole, A.13
Van Attikum, H.14
Shokat, K.M.15
Kolodner, R.D.16
Huh, W.K.17
Aebersold, R.18
Keogh, M.C.19
Krogan, N.J.20
more..
-
5
-
-
77954667629
-
Integration and visualization of systems biology data in context of the genome
-
Bare JC, Koide T, Reiss DJ, Tenenbaum D, Baliga NS (2010) Integration and visualization of systems biology data in context of the genome. BMC Bioinformatics 11: 382
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 382
-
-
Bare, J.C.1
Koide, T.2
Reiss, D.J.3
Tenenbaum, D.4
Baliga, N.S.5
-
6
-
-
0032417610
-
Temperature, template topology, and factor requirements of archaeal transcription
-
DOI 10.1073/pnas.95.26.15218
-
Bell SD, Jaxel C, Nadal M, Kosa PF, Jackson SP (1998) Temperature, template topology, and factor requirements of archaeal transcription. Proc Natl Acad Sci USA 95: 15218-15222 (Pubitemid 29018679)
-
(1998)
Proceedings of the National Academy of Sciences of the United States of America
, vol.95
, Issue.26
, pp. 15218-15222
-
-
Bell, S.D.1
Jaxel, C.2
Nadal, M.3
Kosa, P.F.4
Jackson, S.P.5
-
8
-
-
65349180167
-
Maximal extraction of biological information from genetic interaction data
-
CarterGW, Galas DJ, Galitski T (2009) Maximal extraction of biological information from genetic interaction data. PLoS Comput Biol 5: e1000347
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Cartergw Galas, D.J.1
Galitski, T.2
-
9
-
-
77954421693
-
Evolution of the RpoS regulon: Origin of RpoS and the conservation of RpoS-dependent regulation in bacteria
-
Chiang SM, Schellhorn HE (2010) Evolution of the RpoS regulon: origin of RpoS and the conservation of RpoS-dependent regulation in bacteria. J Mol Evol 70: 557-571
-
(2010)
J Mol Evol
, vol.70
, pp. 557-571
-
-
Chiang, S.M.1
Schellhorn, H.E.2
-
10
-
-
37049013315
-
Genetic and transcriptomic analysis of transcription factor genes in the model halophilic Archaeon: Coordinate action of TbpD and TfbA
-
Coker JA, DasSarma S (2007) Genetic and transcriptomic analysis of transcription factor genes in the model halophilic Archaeon: coordinate action of TbpD and TfbA. BMC Genet 8: 61
-
(2007)
BMC Genet
, vol.8
, pp. 61
-
-
Coker, J.A.1
Dassarma, S.2
-
11
-
-
72149130298
-
Shifting players and paradigms in cell-specific transcription
-
DAlessio JA,Wright KJ, Tjian R (2009) Shifting players and paradigms in cell-specific transcription. Mol Cell 36: 924-931
-
(2009)
Mol Cell
, vol.36
, pp. 924-931
-
-
Dalessio, J.A.1
Wright, K.J.2
Tjian, R.3
-
12
-
-
77956526507
-
Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases
-
da Fonseca RR, Johnson WE, OBrien SJ, Vasconcelos V, Antunes A (2010) Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases. BMC Evol Biol 10: 281
-
(2010)
BMC Evol Biol
, vol.10
, pp. 281
-
-
Da Fonseca, R.R.1
Johnson, W.E.2
Obrien, S.J.3
Vasconcelos, V.4
Antunes, A.5
-
13
-
-
0004670445
-
Media for halophiles
-
Robb FT, Place AR, Sowers KR, Schreier HJ, DasSarma S, Fleischmann ME (eds) Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press
-
DasSarma S, Fleischmann EM, Rodriguez-Valera F (1995) Media for halophiles. In Archaea: A Laboratory Manual, Robb FT, Place AR, Sowers KR, Schreier HJ, DasSarma S, Fleischmann ME (eds), Vol. 1, pp 225-230. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press
-
(1995)
Archaea: A Laboratory Manual
, vol.1
, pp. 225-230
-
-
Dassarma, S.1
Fleischmann, E.M.2
Rodriguez-Valera, F.3
-
14
-
-
78650987950
-
Rapid evolutionary innovation during an Archaean genetic expansion
-
David LA, Alm EJ (2011) Rapid evolutionary innovation during an Archaean genetic expansion. Nature 469: 93-96
-
(2011)
Nature
, vol.469
, pp. 93-96
-
-
David, L.A.1
Alm, E.J.2
-
15
-
-
48349131359
-
Genome duplication and gene-family evolution: The case of three OXPHOS gene families
-
De Grassi A, Lanave C, Saccone C (2008) Genome duplication and gene-family evolution: the case of three OXPHOS gene families. Gene 421: 1-6
-
(2008)
Gene
, vol.421
, pp. 1-6
-
-
De Grassi, A.1
Lanave, C.2
Saccone, C.3
-
17
-
-
75549088819
-
MicrobesOnline: An integrated portal for comparative and functional genomics
-
Dehal PS, Joachimiak MP, Price MN, Bates JT, Baumohl JK, Chivian D, Friedland GD, Huang KH, Keller K, Novichkov PS, Dubchak IL, Alm EJ, Arkin AP (2010) MicrobesOnline: an integrated portal for comparative and functional genomics. Nucleic Acids Res 38: D396-D400
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Dehal, P.S.1
Joachimiak, M.P.2
Price, M.N.3
Bates, J.T.4
Baumohl, J.K.5
Chivian, D.6
Friedland, G.D.7
Huang, K.H.8
Keller, K.9
Novichkov, P.S.10
Dubchak, I.L.11
Alm, E.J.12
Arkin, A.P.13
-
18
-
-
0035527414
-
Environmental diversity of bacteria and archaea
-
DeLong EF, Pace NR (2001) Environmental diversity of bacteria and archaea. Syst Biol 50: 470-478
-
(2001)
Syst Biol
, vol.50
, pp. 470-478
-
-
Delong, E.F.1
Pace, N.R.2
-
19
-
-
41149121347
-
The evolution of mammalian gene families
-
Demuth JP, De Bie T, Stajich JE, Cristianini N, Hahn MW (2006) The evolution of mammalian gene families. PLoS One 1: e85
-
(2006)
PLoS One
, vol.1
-
-
Demuth, J.P.1
De Bie, T.2
Stajich, J.E.3
Cristianini, N.4
Hahn, M.W.5
-
20
-
-
0018843979
-
An immunoglobulin heavy chain variable region gene is generated from three segments of DNA: V(H), D and J(H)
-
Early P, Huang H, Davis M, Calame K, Hood L (1980) An immunoglobulin heavy chain variable region gene is generated from three segments of DNA: VH, D and JH. Cell 19: 981-992 (Pubitemid 10155232)
-
(1980)
Cell
, vol.19
, Issue.4
, pp. 981-992
-
-
Early, P.1
Huang, H.2
Davis, M.3
-
21
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
DOI 10.1093/nar/gkh340
-
Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797 (Pubitemid 38832724)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
22
-
-
58949084539
-
Adaptive evolution in zinc finger transcription factors
-
Emerson RO, Thomas JH (2009) Adaptive evolution in zinc finger transcription factors. PLoS Genet 5: e1000325
-
(2009)
PLoS Genet
, vol.5
-
-
Emerson, R.O.1
Thomas, J.H.2
-
23
-
-
77952053061
-
Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis
-
Facciotti MT, Pang WL, Lo FY, Whitehead K, Koide T, Masumura K, Pan M, Kaur A, Larsen DJ, Reiss DJ, Hoang L, Kalisiak E, Northen T, Trauger SA, Siuzdak G, Baliga NS (2010) Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis. BMC Syst Biol 4: 64
-
(2010)
BMC Syst Biol
, vol.4
, pp. 64
-
-
Facciotti, M.T.1
Pang, W.L.2
Lo, F.Y.3
Whitehead, K.4
Koide, T.5
Masumura, K.6
Pan, M.7
Kaur, A.8
Larsen, D.J.9
Reiss, D.J.10
Hoang, L.11
Kalisiak, E.12
Northen, T.13
Trauger, S.A.14
Siuzdak, G.15
Baliga, N.S.16
-
24
-
-
34248399625
-
General transcription factor specified global gene regulation in archaea
-
DOI 10.1073/pnas.0611663104
-
Facciotti MT, Reiss DJ, Pan M, Kaur A, Vuthoori M, Bonneau R, Shannon P, Srivastava A, Donohoe SM, Hood LE, Baliga NS (2007) General transcription factor specified global gene regulation in archaea. Proc Natl Acad Sci USA 104: 4630-4635 (Pubitemid 47186276)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.11
, pp. 4630-4635
-
-
Facciotti, M.T.1
Reiss, D.J.2
Pan, M.3
Kaur, A.4
Vuthoori, M.5
Bonneau, R.6
Shannon, P.7
Srivastava, A.8
Donohoe, S.M.9
Hood, L.E.10
Baliga, N.S.11
-
25
-
-
0036021697
-
Genome deterioration: Loss of repeated sequences and accumulation of junk DNA
-
DOI 10.1023/A:1016064511533
-
Frank AC, Amiri H, Andersson SG (2002) Genome deterioration: loss of repeated sequences and accumulation of junk DNA. Genetica 115: 1-12 (Pubitemid 34842166)
-
(2002)
Genetica
, vol.115
, Issue.1
, pp. 1-12
-
-
Frank, A.C.1
Amiri, H.2
Andersson, S.G.E.3
-
26
-
-
61449140896
-
Specific variants of general transcription factors regulate germ cell development in diverse organisms
-
Freiman RN (2009) Specific variants of general transcription factors regulate germ cell development in diverse organisms. Biochim Biophys Acta 1789: 161-166
-
(2009)
Biochim Biophys Acta
, vol.1789
, pp. 161-166
-
-
Freiman, R.N.1
-
27
-
-
77954763022
-
Unexpected roles for core promoter recognition factors in cell-type-specific transcription and gene regulation
-
Goodrich JA, Tjian R (2010) Unexpected roles for core promoter recognition factors in cell-type-specific transcription and gene regulation. Nat Rev Genet 11: 549-558
-
(2010)
Nat Rev Genet
, vol.11
, pp. 549-558
-
-
Goodrich, J.A.1
Tjian, R.2
-
28
-
-
36749072168
-
Responses of hyperthermophilic crenarchaea to UV irradiation
-
Gotz D, Paytubi S, Munro S, Lundgren M, Bernander R, White MF (2007) Responses of hyperthermophilic crenarchaea to UV irradiation. Genome Biol 8: R220
-
(2007)
Genome Biol
, vol.8
-
-
Gotz, D.1
Paytubi, S.2
Munro, S.3
Lundgren, M.4
Bernander, R.5
White, M.F.6
-
29
-
-
13444262558
-
In vivo analyses of constitutive and regulated promoters in halophilic archaea
-
DOI 10.1099/mic.0.27541-0
-
Gregor D, Pfeifer F (2005) In vivo analyses of constitutive and regulated promoters in halophilic archaea. Microbiology 151: 25-33 (Pubitemid 40207666)
-
(2005)
Microbiology
, vol.151
, Issue.1
, pp. 25-33
-
-
Gregor, D.1
Pfeifer, F.2
-
30
-
-
0242692671
-
Multiple Sigma Subunits and the Partitioning of Bacterial Transcription Space
-
DOI 10.1146/annurev.micro.57.030502.090913
-
Gruber TM, Gross CA (2003) Multiple sigma subunits and the partitioning of bacterial transcription space. Annu Rev Microbiol 57: 441-466 (Pubitemid 37392951)
-
(2003)
Annual Review of Microbiology
, vol.57
, pp. 441-466
-
-
Gruber, T.M.1
Gross, C.A.2
-
31
-
-
71749099862
-
PhyloXML: XML for evolutionary biology and comparative genomics
-
Han MV, Zmasek CM (2009) phyloXML: XML for evolutionary biology and comparative genomics. BMC Bioinformatics 10: 356
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 356
-
-
Han, M.V.1
Zmasek, C.M.2
-
32
-
-
79955623470
-
Does positive selection drive transcription factor binding site turnover? A test with Drosophila cis-regulatory modules
-
He BZ, Holloway AK, Maerkl SJ, Kreitman M (2011) Does positive selection drive transcription factor binding site turnover? A test with Drosophila cis-regulatory modules. PLoS Genet 7: e1002053
-
(2011)
PLoS Genet
, vol.7
-
-
He, B.Z.1
Holloway, A.K.2
Maerkl, S.J.3
Kreitman, M.4
-
33
-
-
68749092014
-
Plasticity of transcriptional machinery in bacteria is increased by the repertoire of regulatory families
-
Janga SC, Perez-Rueda E (2009) Plasticity of transcriptional machinery in bacteria is increased by the repertoire of regulatory families. Comput Biol Chem 33: 261-268
-
(2009)
Comput Biol Chem
, vol.33
, pp. 261-268
-
-
Janga, S.C.1
Perez-Rueda, E.2
-
35
-
-
77149174487
-
Regulation of gene expression via the core promoter and the basal transcriptional machinery
-
Juven-Gershon T, Kadonaga JT (2010) Regulation of gene expression via the core promoter and the basal transcriptional machinery. Dev Biol 339: 225-229
-
(2010)
Dev Biol
, vol.339
, pp. 225-229
-
-
Juven-Gershon, T.1
Kadonaga, J.T.2
-
36
-
-
77953169216
-
Grofit: Fitting biological growth curves with R
-
Kahm M, Hasenbrink G, Lichtenberg-Frate H, Ludwig J, Kschischo M (2010) grofit: fitting biological growth curves with R. J Statist Softw 33: 1-21
-
(2010)
J Statist Softw
, vol.33
, pp. 1-21
-
-
Kahm, M.1
Hasenbrink, G.2
Lichtenberg-Frate, H.3
Ludwig, J.4
Kschischo, M.5
-
37
-
-
33745619803
-
A systems view of haloarchaeal strategies to withstand stress from transition metals
-
DOI 10.1101/gr.5189606
-
Kaur A, PanM, Meislin M, Facciotti MT, El-Gewely R, Baliga NS (2006) A systems view of haloarchaeal strategies to withstand stress from transition metals. Genome Res 16: 841-854 (Pubitemid 43992908)
-
(2006)
Genome Research
, vol.16
, Issue.7
, pp. 841-854
-
-
Kaur, A.1
Pan, M.2
Meislin, M.3
Facciotti, M.T.4
El-Gewely, R.5
Baliga, N.S.6
-
38
-
-
77955140551
-
Coordination of frontline defense mechanisms under severe oxidative stress
-
Kaur A, Van PT, Busch CR, Robinson CK, Pan M, Pang WL, Reiss DJ, DiRuggiero J, Baliga NS (2010) Coordination of frontline defense mechanisms under severe oxidative stress. Mol Syst Biol 6: 393
-
(2010)
Mol Syst Biol
, vol.6
, pp. 393
-
-
Kaur, A.1
Van Pt Busch, C.R.2
Robinson, C.K.3
Pan, M.4
Pang, W.L.5
Reiss, D.J.6
Diruggiero, J.7
Baliga, N.S.8
-
39
-
-
33645532246
-
2+-dependent cell aggregation of halophilic archaeon, Halobacterium salinarum
-
DOI 10.1263/jbb.100.681, PII S138917230670531X
-
Kawakami Y, Ito T, Kamekura M, Nakayama M (2005) Ca(2+)- dependent cell aggregation of halophilic archaeon, Halobacterium salinarum. J Biosci Bioeng 100: 681-684 (Pubitemid 44354360)
-
(2005)
Journal of Bioscience and Bioengineering
, vol.100
, Issue.6
, pp. 681-684
-
-
Kawakami, Y.1
Ito, T.2
Kamekura, M.3
Nakayama, M.4
-
41
-
-
67650815471
-
Prevalence of transcription promoters within archaeal operons and coding sequences
-
Koide T, Reiss DJ, Bare JC, Pang WL, Facciotti MT, Schmid AK, Pan M, Marzolf B, Van PT, Lo FY, Pratap A, Deutsch EW, Peterson A, Martin D, Baliga NS (2009) Prevalence of transcription promoters within archaeal operons and coding sequences. Mol Syst Biol 5: 285
-
(2009)
Mol Syst Biol
, vol.5
, pp. 285
-
-
Koide, T.1
Reiss, D.J.2
Bare, J.C.3
Pang, W.L.4
Facciotti, M.T.5
Schmid, A.K.6
Pan, M.7
Marzolf, B.8
Van Pt Lo, F.Y.9
Pratap, A.10
Deutsch, E.W.11
Peterson, A.12
Martin, D.13
Baliga, N.S.14
-
43
-
-
77958453611
-
Noncoding sequences near duplicated genes evolve rapidly
-
Kostka D, Hahn MW, Pollard KS (2010) Noncoding sequences near duplicated genes evolve rapidly. Genome Biol Evol 2: 518-533
-
(2010)
Genome Biol Evol
, vol.2
, pp. 518-533
-
-
Kostka, D.1
Hahn, M.W.2
Pollard, K.S.3
-
44
-
-
39749192558
-
Integration of horizontally transferred genes into regulatory interaction networks takes many million years
-
DOI 10.1093/molbev/msm283
-
Lercher MJ, Pal C (2008) Integration of horizontally transferred genes into regulatory interaction networks takes many million years. Mol Biol Evol 25: 559-567 (Pubitemid 351301911)
-
(2008)
Molecular Biology and Evolution
, vol.25
, Issue.3
, pp. 559-567
-
-
Lercher, M.J.1
Pal, C.2
-
45
-
-
79960004119
-
Interactive tree of life v2: Online annotation and display of phylogenetic trees made easy
-
Letunic I, Bork P (2011) Interactive tree of life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res 39: W475-W478
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Letunic, I.1
Bork, P.2
-
46
-
-
0031770060
-
Survival strategies for microorganisms in hypersaline environments and their relevance to life on early Mars
-
Litchfield CD (1998) Survival strategies for microorganisms in hypersaline environments and their relevance to life on early Mars. Meteorit Planet Sci 33: 813-819 (Pubitemid 28510447)
-
(1998)
Meteoritics and Planetary Science
, vol.33
, Issue.4
, pp. 813-819
-
-
Litchfield, C.D.1
-
47
-
-
0033525727
-
Combinatorial receptor codes for odors
-
Malnic B, Hirono J, Sato T, Buck LB (1999) Combinatorial receptor codes for odors. Cell 96: 713-723 (Pubitemid 29122813)
-
(1999)
Cell
, vol.96
, Issue.5
, pp. 713-723
-
-
Malnic, B.1
Hirono, J.2
Sato, T.3
Buck, L.B.4
-
48
-
-
37549061018
-
Archaeal transcription: Function of an alternative transcription factor B from Pyrococcus furiosus
-
Micorescu M, Grunberg S, Franke A, Cramer P, Thomm M, Bartlett M (2008) Archaeal transcription: function of an alternative transcription factor B from Pyrococcus furiosus. J Bacteriol 190: 157-167
-
(2008)
J Bacteriol
, vol.190
, pp. 157-167
-
-
Micorescu, M.1
Grunberg, S.2
Franke, A.3
Cramer, P.4
Thomm, M.5
Bartlett, M.6
-
49
-
-
77950359470
-
Lineage-specific transcription factors and the evolution of gene regulatory networks
-
Nowick K, Stubbs L (2010) Lineage-specific transcription factors and the evolution of gene regulatory networks. Brief Funct Genomics 9: 65-78
-
(2010)
Brief Funct Genomics
, vol.9
, pp. 65-78
-
-
Nowick, K.1
Stubbs, L.2
-
51
-
-
66949142420
-
The crenarchaeal DNA damage-inducible transcription factor B paralogue TFB3 is a general activator of transcription
-
Paytubi S, White MF (2009) The crenarchaeal DNA damage-inducible transcription factor B paralogue TFB3 is a general activator of transcription. Mol Microbiol 72: 1487-1499
-
(2009)
Mol Microbiol
, vol.72
, pp. 1487-1499
-
-
Paytubi, S.1
White, M.F.2
-
52
-
-
79251535005
-
The Lrp family of transcription regulators in archaea
-
Peeters E, Charlier D (2010) The Lrp family of transcription regulators in archaea. Archaea 2010: 750457
-
(2010)
Archaea
, vol.2010
, pp. 750457
-
-
Peeters, E.1
Charlier, D.2
-
53
-
-
79955678375
-
Increased survival during famine improves fitness of bacteria in a pulsed-resource environment
-
Pekkonen M, Korhonen J, Laakso JT (2011) Increased survival during famine improves fitness of bacteria in a pulsed-resource environment. Evol Ecol Res 13: 1-18
-
(2011)
Evol Ecol Res
, vol.13
, pp. 1-18
-
-
Pekkonen, M.1
Korhonen, J.2
Laakso, J.T.3
-
54
-
-
38849086840
-
Model-based deconvolution of genome-wide DNA binding
-
DOI 10.1093/bioinformatics/btm592
-
Reiss DJ, Facciotti MT, Baliga NS (2008) Model-based deconvolution of genome-wide DNA binding. Bioinformatics 24: 396-403 (Pubitemid 351189016)
-
(2008)
Bioinformatics
, vol.24
, Issue.3
, pp. 396-403
-
-
Reiss, D.J.1
Facciotti, M.T.2
Baliga, N.S.3
-
55
-
-
22144452520
-
The evolution of vertebrate Toll-like receptors
-
DOI 10.1073/pnas.0502272102
-
Roach JC, Glusman G, Rowen L, Kaur A, Purcell MK, Smith KD, Hood LE, Aderem A (2005) The evolution of vertebrate Toll-like receptors. Proc Natl Acad Sci USA 102: 9577-9582 (Pubitemid 40981723)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.27
, pp. 9577-9582
-
-
Roach, J.C.1
Glusman, G.2
Rowen, L.3
Kaur, A.4
Purcell, M.K.5
Smith, K.D.6
Hood, L.E.7
Aderem, A.8
-
56
-
-
0005828725
-
Introduction to saline environments
-
Vreeland RH, Hochstein LI (eds) Boca Raton, FL: CRC
-
Rodriguez-Valera F (1993) Introduction to saline environments. In The Biology of Halophilic Bacteria, Vreeland RH, Hochstein LI (eds), pp 1-23. Boca Raton, FL: CRC
-
(1993)
The Biology of Halophilic Bacteria
, pp. 1-23
-
-
Rodriguez-Valera, F.1
-
57
-
-
33747894577
-
TM4 microarray software suite
-
Saeed AI, Bhagabati NK, Braisted JC, LiangW, Sharov V, Howe EA, Li J, Thiagarajan M, White JA, Quackenbush J (2006) TM4 microarray software suite. Methods Enzymol 411: 134-193
-
(2006)
Methods Enzymol
, vol.411
, pp. 134-193
-
-
Saeed, A.I.1
Bhagabati, N.K.2
Braisted, J.C.3
Liangw Sharov, V.4
Howe, E.A.5
Li, J.6
Thiagarajan, M.7
White, J.A.8
Quackenbush, J.9
-
58
-
-
15944412560
-
Gene conversion and concerted evolution in bacterial genomes
-
DOI 10.1016/j.femsre.2004.10.004, Bacterial Genomics
-
Santoyo G, Romero D (2005) Gene conversion and concerted evolution in bacterial genomes. FEMS Microbiol Rev 29: 169-183 (Pubitemid 40432466)
-
(2005)
FEMS Microbiology Reviews
, vol.29
, Issue.2
, pp. 169-183
-
-
Santoyo, G.1
Romero, D.2
-
59
-
-
34948909792
-
The anatomy of microbial cell state transitions in response to oxygen
-
DOI 10.1101/gr.6728007
-
Schmid AK, Reiss DJ, Kaur A, Pan M, King N, Van PT, Hohmann L, Martin DB, Baliga NS (2007) The anatomy of microbial cell state transitions in response to oxygen. Genome Res 17: 1399-1413 (Pubitemid 47529424)
-
(2007)
Genome Research
, vol.17
, Issue.10
, pp. 1399-1413
-
-
Schmid, A.K.1
Reiss, D.J.2
Kaur, A.3
Pan, M.4
King, N.5
Van, P.T.6
Hohmann, L.7
Martin, D.B.8
Baliga, N.S.9
-
60
-
-
33646743767
-
The Gaggle: An open-source software system for integrating bioinformatics software and data sources
-
Shannon PT, Reiss DJ, Bonneau R, Baliga NS (2006) The Gaggle: an open-source software system for integrating bioinformatics software and data sources. BMC Bioinformatics 7: 176
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 176
-
-
Shannon, P.T.1
Reiss, D.J.2
Bonneau, R.3
Baliga, N.S.4
-
61
-
-
0037770273
-
Changes in growth parameters of Pseudomonas pseudoalcaligenes after ten months culturing at increasing temperature
-
DOI 10.1016/S0168-6496(03)00129-6
-
Shi B, Xia X (2003) Changes in growth parameters of Pseudomonas pseudoalcaligenes after ten months culturing at increasing temperature. FEMS Microbiol Ecol 45: 127-134 (Pubitemid 36859782)
-
(2003)
FEMS Microbiology Ecology
, vol.45
, Issue.2
, pp. 127-134
-
-
Shi, B.1
Xia, X.2
-
62
-
-
0034893582
-
Rapid evolution of cis-regulatory sequences via local point mutations
-
Stone JR,Wray GA (2001) Rapid evolution of cis-regulatory sequences via local point mutations. Mol Biol Evol 18: 1764-1770 (Pubitemid 32776927)
-
(2001)
Molecular Biology and Evolution
, vol.18
, Issue.9
, pp. 1764-1770
-
-
Stone, J.R.1
Wray, G.A.2
-
63
-
-
2442537233
-
Gene regulatory network growth by duplication
-
DOI 10.1038/ng1340
-
Teichmann SA, Babu MM (2004) Gene regulatory network growth by duplication. Nat Genet 36: 492-496 (Pubitemid 38620034)
-
(2004)
Nature Genetics
, vol.36
, Issue.5
, pp. 492-496
-
-
Teichmann, S.A.1
Babu, M.M.2
-
64
-
-
33747881750
-
The general transcription machinery and general cofactors
-
Thomas MC, Chiang CM (2006) The general transcription machinery and general cofactors. Crit Rev Biochem Mol Biol 41: 105-178
-
(2006)
Crit Rev Biochem Mol Biol
, vol.41
, pp. 105-178
-
-
Thomas, M.C.1
Chiang, C.M.2
-
65
-
-
0032880054
-
Expression and heat-responsive regulation of a TFIIB homologue from the archaeon Haloferax volcanii
-
DOI 10.1046/j.1365-2958.1999.01551.x
-
Thompson DK, Palmer JR, Daniels CJ (1999) Expression and heatresponsive regulation of a TFIIB homologue from the archaeon Haloferax volcanii. Mol Microbiol 33: 1081-1092 (Pubitemid 29425259)
-
(1999)
Molecular Microbiology
, vol.33
, Issue.5
, pp. 1081-1092
-
-
Thompson, D.K.1
Palmer, J.R.2
Daniels, C.J.3
-
66
-
-
34547591343
-
Primer3Plus, an enhanced web interface to Primer3
-
Untergasser A, Nijveen H, Rao X, Bisseling T, Geurts R, Leunissen JA (2007) Primer3Plus, an enhanced web interface to Primer3. Nucleic Acids Res 35: W71-W74
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Untergasser, A.1
Nijveen, H.2
Rao, X.3
Bisseling, T.4
Geurts, R.5
Leunissen, J.A.6
-
67
-
-
33947380915
-
Adaptations to energy stress dictate the ecology and evolution of the Archaea
-
DOI 10.1038/nrmicro1619, PII NRMICRO1619
-
Valentine DL (2007) Adaptations to energy stress dictate the ecology and evolution of the Archaea. Nat Rev Microbiol 5: 316-323 (Pubitemid 46443608)
-
(2007)
Nature Reviews Microbiology
, vol.5
, Issue.4
, pp. 316-323
-
-
Valentine, D.L.1
-
68
-
-
0028163119
-
Long-term experimental evolution in Escherichia coli. II.Changes in life-history traits during adaptation to a seasonal environment
-
DOI 10.1086/285685
-
Vasi F, Travisano M, Lenski RE (1994) Long-term experimental evolution in Escherichia-coli. 2. Changes in life-history traits during adaptation to a seasonal environment. Am Nat 144: 432-456 (Pubitemid 2139148)
-
(1994)
American Naturalist
, vol.144
, Issue.3
, pp. 432-456
-
-
Vasi, F.1
Travisano, M.2
Lenski, R.E.3
|