-
1
-
-
0025878149
-
Amino acid substitution matrices from an information theoretic perspective
-
Altschul SF. Amino acid substitution matrices from an information theoretic perspective. J Mol Biol 219: 555-565, 1991.
-
(1991)
J Mol Biol
, vol.219
, pp. 555-565
-
-
Altschul, S.F.1
-
2
-
-
0031670734
-
Linkage map of Escherichia coli K-12, edition 10: The traditional map
-
Berlyn MKB. Linkage map of Escherichia coli K-12, edition 10: the traditional map. Microbiol Mol Biol Rev 62: 814-984, 1998.
-
(1998)
Microbiol Mol Biol Rev
, vol.62
, pp. 814-984
-
-
Berlyn, M.K.B.1
-
3
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner FR, Plunkett G III, Bloch CA, Perna NT, Burland V, Riley M, Collado-Vides J, Glasner JD, Rode CK, Mayhew G, Gregor J, Davis NW, Kirkpatrick HA, Goeden M, Rose D, Mau B, and Shao Y. The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1474, 1997.
-
(1997)
Science
, vol.277
, pp. 1453-1474
-
-
Blattner, F.R.1
Plunkett III, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
Collado-Vides, J.7
Glasner, J.D.8
Rode, C.K.9
Mayhew, G.10
Gregor, J.11
Davis, N.W.12
Kirkpatrick, H.A.13
Goeden, M.14
Rose, D.15
Mau, B.16
Shao, Y.17
-
4
-
-
0033603539
-
Phylogenetic classification and the universal tree
-
Doolittle WF. Phylogenetic classification and the universal tree. Science 284: 2124-2129, 1999.
-
(1999)
Science
, vol.284
, pp. 2124-2129
-
-
Doolittle, W.F.1
-
5
-
-
0000122573
-
Phylogeny inference package (Version 3.2)
-
Felsenstein J. Phylogeny inference package (Version 3.2). Cladistics 5: 164-166, 1989.
-
(1989)
Cladistics
, vol.5
, pp. 164-166
-
-
Felsenstein, J.1
-
6
-
-
0014211361
-
Construction of phylogenetic trees
-
Fitch WM and Margoliash E. Construction of phylogenetic trees. Science 155: 279-284, 1967.
-
(1967)
Science
, vol.155
, pp. 279-284
-
-
Fitch, W.M.1
Margoliash, E.2
-
7
-
-
0014800108
-
Distinguishing homologous from analogous proteins
-
Fitch WM. Distinguishing homologous from analogous proteins. Syst Zool 19: 99-113, 1970.
-
(1970)
Syst Zool
, vol.19
, pp. 99-113
-
-
Fitch, W.M.1
-
8
-
-
0034924493
-
SWISS-PROT: Connecting biological knowledge via a protein database
-
Gasteiger E, Jung E, and Bairoch A. SWISS-PROT: connecting biological knowledge via a protein database. Curr Issues Mol Biol 3: 47-55, 2001.
-
(2001)
Curr Issues Mol Biol
, vol.3
, pp. 47-55
-
-
Gasteiger, E.1
Jung, E.2
Bairoch, A.3
-
9
-
-
0034923923
-
Divergent evolution of enzymatic function: Mechanistically diverse superfamilies and functionally distinct suprafamilies
-
Gerlt JA and Babbitt PC. Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies. Annu Rev Biochem 70: 209-246, 2001.
-
(2001)
Annu Rev Biochem
, vol.70
, pp. 209-246
-
-
Gerlt, J.A.1
Babbitt, P.C.2
-
10
-
-
0034073452
-
Darwin v. 2.0: An interpreted computer language for the biosciences
-
Gonnet GH, Hallett MT, Korostensky C, and Bernardin L. Darwin v. 2.0: an interpreted computer language for the biosciences. Bioinformatics 16: 101-103, 2000.
-
(2000)
Bioinformatics
, vol.16
, pp. 101-103
-
-
Gonnet, G.H.1
Hallett, M.T.2
Korostensky, C.3
Bernardin, L.4
-
11
-
-
0039699818
-
SDR and MDR: Completed genome sequences show these protein families to be large, of old origin, and of complex nature
-
Jornvall H, Hoog JO, and Persson B. SDR and MDR: completed genome sequences show these protein families to be large, of old origin, and of complex nature. FEBS Lett 445: 261-264, 1999.
-
(1999)
FEBS Lett
, vol.445
, pp. 261-264
-
-
Jornvall, H.1
Hoog, J.O.2
Persson, B.3
-
12
-
-
0025972739
-
Pyruvate-formatelyase-deactivase and acetyl-Coa reductase activities of Escherichia coli reside on a polymeric protein particle encoded by adhE
-
Kessler D, Leibrecht I, and Knappe J. Pyruvate-formatelyase-deactivase and acetyl-CoA reductase activities of Escherichia coli reside on a polymeric protein particle encoded by adhE. FEBS Lett 281: 59-63, 1991.
-
(1991)
FEBS Lett
, vol.281
, pp. 59-63
-
-
Kessler, D.1
Leibrecht, I.2
Knappe, J.3
-
14
-
-
0002962275
-
Genetic inventory: Escherichia coli as a window on ancestral proteins
-
edited by Charlebois RL. Washington, DC: ASM
-
Labedan B and Riley M. Genetic inventory: Escherichia coli as a window on ancestral proteins. In: Organization of the Prokaryotic Genome, edited by Charlebois RL. Washington, DC: ASM, 1999, p. 311-329.
-
(1999)
Organization of the Prokaryotic Genome
, pp. 311-329
-
-
Labedan, B.1
Riley, M.2
-
15
-
-
0031943304
-
The Escherichia coli ATP-binding cassette (ABC) proteins
-
Linton KJ and Higgins CF. The Escherichia coli ATP-binding cassette (ABC) proteins. Mol Microbiol 28: 5-13, 1998.
-
(1998)
Mol Microbiol
, vol.28
, pp. 5-13
-
-
Linton, K.J.1
Higgins, C.F.2
-
16
-
-
0027050193
-
Structural homology between rbs repressor and ribose binding protein implies functional similarity
-
Mauzy CA and Hermodson MA. Structural homology between rbs repressor and ribose binding protein implies functional similarity. Protein Sci 1: 843-849, 1992.
-
(1992)
Protein Sci
, vol.1
, pp. 843-849
-
-
Mauzy, C.A.1
Hermodson, M.A.2
-
17
-
-
0034883978
-
Divergence of function in sequence-related groups of Escherichia coli proteins
-
Nahum LA and Riley M. Divergence of function in sequence-related groups of Escherichia coli proteins. Genome Res 11: 1375-1381, 2001.
-
(2001)
Genome Res
, vol.11
, pp. 1375-1381
-
-
Nahum, L.A.1
Riley, M.2
-
18
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
Needleman SB and Wunsch CD. A general method applicable to the search for similarities in the amino acid sequence of two proteins. J Mol Biol 48: 443-453, 1970.
-
(1970)
J Mol Biol
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
19
-
-
12944270421
-
Genome sequence of Halobacterium species NRC-1
-
Ng WV, Kennedy SP, Mahairas GG, Berquist B, Pan M, Shukla HD, Lasky SR, Baliga NS, Thorsson V, Sbrogna J, Swartzell S, Weir D, Hall J, Dahl TA, Welti R, Goo YA, Leithauser B, Keller K, Cruz R, Danson MJ, Hough DW, Maddocks DG, Jablonski PE, Krebs MP, Angevine CM, Dale H, Isenbarger TA, Peck RF, Pohlschroder M, Spudich JL, Jung KW, Alam M, Freitas T, Hou S, Daniels CJ, Dennis PP, Omer AD, Ebhardt H, Lowe TM, Liang P, Riley M, Hood L, and DasSarma S. Genome sequence of Halobacterium species NRC-1. Proc Natl Acad Sci USA 97: 12176-12181, 2000.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 12176-12181
-
-
Ng, W.V.1
Kennedy, S.P.2
Mahairas, G.G.3
Berquist, B.4
Pan, M.5
Shukla, H.D.6
Lasky, S.R.7
Baliga, N.S.8
Thorsson, V.9
Sbrogna, J.10
Swartzell, S.11
Weir, D.12
Hall, J.13
Dahl, T.A.14
Welti, R.15
Goo, Y.A.16
Leithauser, B.17
Keller, K.18
Cruz, R.19
Danson, M.J.20
Hough, D.W.21
Maddocks, D.G.22
Jablonski, P.E.23
Krebs, M.P.24
Angevine, C.M.25
Dale, H.26
Isenbarger, T.A.27
Peck, R.F.28
Pohlschroder, M.29
Spudich, J.L.30
Jung, K.W.31
Alam, M.32
Freitas, T.33
Hou, S.34
Daniels, C.J.35
Dennis, P.P.36
Omer, A.D.37
Ebhardt, H.38
Lowe, T.M.39
Liang, P.40
Riley, M.41
Hood, L.42
Dassarma, S.43
more..
-
20
-
-
0032478498
-
Microbial genome analyses: Global comparisons of transport capabilities based on phylogenies, bioenergetics and specificities
-
Paulsen IT, Sliwinski MK, and Saier MH Jr. Microbial genome analyses: global comparisons of transport capabilities based on phylogenies, bioenergetics and specificities. J Mol Biol 277: 573-592, 1998.
-
(1998)
J Mol Biol
, vol.277
, pp. 573-592
-
-
Paulsen, I.T.1
Sliwinski, M.K.2
Saier Jr., M.H.3
-
21
-
-
0029006770
-
Comparison of methods for searching protein sequence databases
-
Pearson WR. Comparison of methods for searching protein sequence databases. Protein Sci 4: 1145-1160, 1995.
-
(1995)
Protein Sci
, vol.4
, pp. 1145-1160
-
-
Pearson, W.R.1
-
22
-
-
0031584266
-
Protein evolution viewed through Escherichia coli protein sequences: Introducing the notion of a structural segment of homology, the module
-
Riley M and Labedan B. Protein evolution viewed through Escherichia coli protein sequences: introducing the notion of a structural segment of homology, the module. J Mol Biol 268: 857-868, 1997.
-
(1997)
J Mol Biol
, vol.268
, pp. 857-868
-
-
Riley, M.1
Labedan, B.2
-
23
-
-
0033758987
-
Interim report on genomics of Escherichia coli
-
Riley M and Serres MH. Interim report on genomics of Escherichia coli. Annu Rev Microbiol 54: 341-411, 2000.
-
(2000)
Annu Rev Microbiol
, vol.54
, pp. 341-411
-
-
Riley, M.1
Serres, M.H.2
-
24
-
-
0033971754
-
EcoGene: A genome sequence database for Escherichia coli K-12
-
Rudd KE. EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28: 60-64, 2000.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 60-64
-
-
Rudd, K.E.1
-
25
-
-
0345965597
-
A functional update of the E. coli K-12 genome
-
Serres MH, Gopal S, Nahum L, Liang P, Gaasterland T, and Riley M. A functional update of the E. coli K-12 genome. Genome Biol 2: 0035.1-0035.7. (http://genomebiology.com/2001/2/9/research/0035)
-
Genome Biol
, vol.2
, pp. 351-357
-
-
Serres, M.H.1
Gopal, S.2
Nahum, L.3
Liang, P.4
Gaasterland, T.5
Riley, M.6
-
26
-
-
0034612277
-
Operons in Escherichia coli: Genomic analyses and predictions
-
Salgado H, Moreno-Hagelsieb G, Smith TF, and Collado-Vides J. Operons in Escherichia coli: genomic analyses and predictions. Proc Natl Acad Sci USA 97: 6652-6657, 2000.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 6652-6657
-
-
Salgado, H.1
Moreno-Hagelsieb, G.2
Smith, T.F.3
Collado-Vides, J.4
-
27
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith TF and Waterman MS. Identification of common molecular subsequences. J Mol Biol 147: 195-197, 1981.
-
(1981)
J Mol Biol
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
28
-
-
0029046744
-
An assessment of amino acid exchange matrices in aligning protein sequences: The Twilight Zone revisited
-
Vogt G, Etzold T, and Argos P. An assessment of amino acid exchange matrices in aligning protein sequences: the Twilight Zone revisited. J Mol Biol 249: 816-831, 1995.
-
(1995)
J Mol Biol
, vol.249
, pp. 816-831
-
-
Vogt, G.1
Etzold, T.2
Argos, P.3
-
29
-
-
0035369115
-
Histidine kinases and response regulator proteins in two-component signaling systems
-
West AH and Stock AM. Histidine kinases and response regulator proteins in two-component signaling systems. Trends Biochem Sci 26: 369-76, 2001.
-
(2001)
Trends Biochem Sci
, vol.26
, pp. 369-376
-
-
West, A.H.1
Stock, A.M.2
-
30
-
-
0025300402
-
Towards a natural system of organisms: Proposal for the domains Archaea, Bacteria, and Eucarya
-
Woese CR, Kandler O, and Wheelis ML. Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 87: 4576-4579, 1990.
-
(1990)
Proc Natl Acad Sci USA
, vol.87
, pp. 4576-4579
-
-
Woese, C.R.1
Kandler, O.2
Wheelis, M.L.3
-
31
-
-
0014966626
-
Enzyme evolution: Generation of a bifunctional enzyme by fusion of adjacent genes
-
Yourno J, Kohno T, and Roth JR. Enzyme evolution: generation of a bifunctional enzyme by fusion of adjacent genes. Nature 228: 820-824, 1970.
-
(1970)
Nature
, vol.228
, pp. 820-824
-
-
Yourno, J.1
Kohno, T.2
Roth, J.R.3
|