-
1
-
-
0016355478
-
New look at statistical model identification tree
-
Akaike H (1974) New look at statistical model identification tree. IEEE T Automat Contr AC19:716-723
-
(1974)
IEEE T Automat Contr
, vol.AC19
, pp. 716-723
-
-
Akaike, H.1
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25:3389-3402
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
3
-
-
0038026101
-
Toward an understanding of cell growth and the cell division cycle of unicellular photoautotrophic cyanobacteria
-
Asato Y (2003) Toward an understanding of cell growth and the cell division cycle of unicellular photoautotrophic cyanobacteria. Cell Mol Life Sci 60:663-687
-
(2003)
Cell Mol Life Sci
, vol.60
, pp. 663-687
-
-
Asato, Y.1
-
5
-
-
1842531698
-
Evidence for multiple lateral transfers of the circadian clock cluster in filamentous heterocystic cyanobacteria Nostocaceae
-
Dvornyk V, Nevo E (2004) Evidence for multiple lateral transfers of the circadian clock cluster in filamentous heterocystic cyanobacteria Nostocaceae. J Mol Evol 58:341-347
-
(2004)
J Mol Evol
, vol.58
, pp. 341-347
-
-
Dvornyk, V.1
Nevo, E.2
-
6
-
-
0037133331
-
Long-term microclimatic stress causes rapid adaptive radiation of kaiABC clock gene family in a cyanobacterium, Nostoc linckia, from the "Evolution Canyons" I and II, Israel
-
Dvornyk V, Vinogradova ON, Nevo E (2002) Long-term microclimatic stress causes rapid adaptive radiation of kaiABC clock gene family in a cyanobacterium, Nostoc linckia, from the "Evolution Canyons" I and II, Israel. Proc Natl Acad Sci USA 99:2082-2087
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 2082-2087
-
-
Dvornyk, V.1
Vinogradova, O.N.2
Nevo, E.3
-
7
-
-
0344321891
-
Origin and evolution of circadian clock genes in prokaryotes
-
Dvornyk V, Vinogradova ON, Nevo E (2003) Origin and evolution of circadian clock genes in prokaryotes. Proc Natl Acad Sci USA 100:2495-2500
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 2495-2500
-
-
Dvornyk, V.1
Vinogradova, O.N.2
Nevo, E.3
-
8
-
-
3242785814
-
Structure and molecular phylogeny of sasA genes in cyanobacteria: Insights into evolution of the prokaryotic circadian system
-
Dvornyk V, Deng HW, Nevo E (2004) Structure and molecular phylogeny of sasA genes in cyanobacteria: Insights into evolution of the prokaryotic circadian system. Mol Biol Evol 21:1468-1476
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1468-1476
-
-
Dvornyk, V.1
Deng, H.W.2
Nevo, E.3
-
9
-
-
0032728408
-
Statistical methods for testing functional divergence after gene duplication
-
Gu X (1999) Statistical methods for testing functional divergence after gene duplication. Mol Biol Evol 16:1664-1674
-
(1999)
Mol Biol Evol
, vol.16
, pp. 1664-1674
-
-
Gu, X.1
-
10
-
-
0036205440
-
DIVERGE: Phylogeny-based analysis for functional-structural divergence of a protein family
-
Gu X, Vander Velden K (2002) DIVERGE: Phylogeny-based analysis for functional-structural divergence of a protein family. Bioinformatics 18:500-501
-
(2002)
Bioinformatics
, vol.18
, pp. 500-501
-
-
Gu, X.1
Vander Velden, K.2
-
11
-
-
0022376704
-
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
-
Hasegawa M, Kishino H, Yano T (1985) Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 22:160-174
-
(1985)
J Mol Evol
, vol.22
, pp. 160-174
-
-
Hasegawa, M.1
Kishino, H.2
Yano, T.3
-
12
-
-
0035152881
-
Diel expression of cell cycle-related genes in synchronized cultures of Prochlorococcus sp. strain PCC 9511
-
Holtzendorff J, Partensky F, Jacquet S, Bruyant F, Marie D, Garczarek L, Mary I, Vaulot D, Hess WR (2001) Diel expression of cell cycle-related genes in synchronized cultures of Prochlorococcus sp. strain PCC 9511. J Bacteriol 183:915-920
-
(2001)
J Bacteriol
, vol.183
, pp. 915-920
-
-
Holtzendorff, J.1
Partensky, F.2
Jacquet, S.3
Bruyant, F.4
Marie, D.5
Garczarek, L.6
Mary, I.7
Vaulot, D.8
Hess, W.R.9
-
13
-
-
0032483510
-
Expression of a gene cluster kaiABC as a circadian feedback process in cyanobacteria
-
Ishiura M, Kutsuna S, Aoki S, Iwasaki H, Andersson CR, Tanabe A, Golden SS, Johnson CH, Kondo T (1998) Expression of a gene cluster kaiABC as a circadian feedback process in cyanobacteria. Science 281:1519-1523
-
(1998)
Science
, vol.281
, pp. 1519-1523
-
-
Ishiura, M.1
Kutsuna, S.2
Aoki, S.3
Iwasaki, H.4
Andersson, C.R.5
Tanabe, A.6
Golden, S.S.7
Johnson, C.H.8
Kondo, T.9
-
14
-
-
0034646509
-
A kaiC-interacting sensory histidine kinase, SasA, necessary to sustain robust circadian oscillation in cyanobacteria
-
Iwasaki H, Williams SB, Kitayama Y, Ishiura M, Golden SS, Kondo T (2000) A kaiC-interacting sensory histidine kinase, SasA, necessary to sustain robust circadian oscillation in cyanobacteria. Cell 101:223-233
-
(2000)
Cell
, vol.101
, pp. 223-233
-
-
Iwasaki, H.1
Williams, S.B.2
Kitayama, Y.3
Ishiura, M.4
Golden, S.S.5
Kondo, T.6
-
15
-
-
0035143646
-
Cell cycle regulation by light in Prochlorococcus strains
-
Jacquet S, Partensky F, Marie D, Casotti R, Vaulot D (2001) Cell cycle regulation by light in Prochlorococcus strains. Appl Environ Microbiol 67:782-790
-
(2001)
Appl Environ Microbiol
, vol.67
, pp. 782-790
-
-
Jacquet, S.1
Partensky, F.2
Marie, D.3
Casotti, R.4
Vaulot, D.5
-
16
-
-
0025061094
-
Limitations of the evolutionary parsimony method of phylogenetic analysis
-
Jin L, Nei M (1990) Limitations of the evolutionary parsimony method of phylogenetic analysis. Mol Biol Evol 7:82-102
-
(1990)
Mol Biol Evol
, vol.7
, pp. 82-102
-
-
Jin, L.1
Nei, M.2
-
17
-
-
0032698089
-
Circadian programs in cyanobacteria: Adaptiveness and mechanism
-
Johnson CH, Golden SS (1999) Circadian programs in cyanobacteria: Adaptiveness and mechanism. Annu Rev Microbiol 53:389-409
-
(1999)
Annu Rev Microbiol
, vol.53
, pp. 389-409
-
-
Johnson, C.H.1
Golden, S.S.2
-
18
-
-
0035980822
-
Complete genomic sequence of the filamentous nitrogen-fixing cyanobacterium Anabaena sp. strain PCC 7120
-
Kaneko T, Nakamura Y, Wolk CP, Kuritz T, Sasamoto S, Watanabe A, Iriguchi M, Ishikawa A, Kawashima K, Kimura T, Kishida Y, Kohara M, Matsumoto M, Matsuno A, Muraki A, Nakazaki N, Shimpo S, Sugimoto M, Takazawa M, Yamada M, Yasuda M, Tabata S (2001) Complete genomic sequence of the filamentous nitrogen-fixing cyanobacterium Anabaena sp. strain PCC 7120. DNA Res 8:205-213
-
(2001)
DNA Res
, vol.8
, pp. 205-213
-
-
Kaneko, T.1
Nakamura, Y.2
Wolk, C.P.3
Kuritz, T.4
Sasamoto, S.5
Watanabe, A.6
Iriguchi, M.7
Ishikawa, A.8
Kawashima, K.9
Kimura, T.10
Kishida, Y.11
Kohara, M.12
Matsumoto, M.13
Matsuno, A.14
Muraki, A.15
Nakazaki, N.16
Shimpo, S.17
Sugimoto, M.18
Takazawa, M.19
Yamada, M.20
Yasuda, M.21
Tabata, S.22
more..
-
19
-
-
0037315039
-
ldpA encodes an iron-sulfur protein involved in light-dependent modulation of the circadian period in the cyanobacterium Synechococcus elongatus PCC 7942
-
Katayama M, Kondo T, Xiong J, Golden SS (2003) ldpA encodes an iron-sulfur protein involved in light-dependent modulation of the circadian period in the cyanobacterium Synechococcus elongatus PCC 7942. J Bacteriol 185:1415-1422
-
(2003)
J Bacteriol
, vol.185
, pp. 1415-1422
-
-
Katayama, M.1
Kondo, T.2
Xiong, J.3
Golden, S.S.4
-
20
-
-
0024307824
-
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
-
Kishino H, Hasegawa M (1989) Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J Mol Evol 29:170-179
-
(1989)
J Mol Evol
, vol.29
, pp. 170-179
-
-
Kishino, H.1
Hasegawa, M.2
-
21
-
-
0041817651
-
Using evolutionary rates to investigate protein functional divergence and conservation: A case study of the carbonic anhydrases
-
Knudsen B, Miyamoto MM, Laipis PJ, Silverman DN (2003) Using evolutionary rates to investigate protein functional divergence and conservation: A case study of the carbonic anhydrases. Genetics 164:1261-1269
-
(2003)
Genetics
, vol.164
, pp. 1261-1269
-
-
Knudsen, B.1
Miyamoto, M.M.2
Laipis, P.J.3
Silverman, D.N.4
-
22
-
-
0033967460
-
The circadian clock of cyanobacteria
-
Kondo T, Ishiura M (2000) The circadian clock of cyanobacteria. Bioessays 22:10-15
-
(2000)
Bioessays
, vol.22
, pp. 10-15
-
-
Kondo, T.1
Ishiura, M.2
-
23
-
-
0031459310
-
Prokaryotic genomes: The emerging paradigm of genome-based microbiology
-
Koonin EV, Galperin MY (1997) Prokaryotic genomes: The emerging paradigm of genome-based microbiology. Curr Opin Genet Dev 7:757-763
-
(1997)
Curr Opin Genet Dev
, vol.7
, pp. 757-763
-
-
Koonin, E.V.1
Galperin, M.Y.2
-
25
-
-
0031900732
-
A period-extender gene, pex, that extends the period of the circadian clock in the cyanobacterium Synechococcus sp. strain PCC 7942
-
Kutsuna S, Kondo T, Aoki S, Ishiura M (1998) A period-extender gene, pex, that extends the period of the circadian clock in the cyanobacterium Synechococcus sp. strain PCC 7942. J Bacteriol 180:2167-2174
-
(1998)
J Bacteriol
, vol.180
, pp. 2167-2174
-
-
Kutsuna, S.1
Kondo, T.2
Aoki, S.3
Ishiura, M.4
-
26
-
-
0020475449
-
A simple method for displaying the hydropathic character of a protein
-
Kyte J, Doolittle RF (1982) A simple method for displaying the hydropathic character of a protein. J Mol Biol 157:105-132
-
(1982)
J Mol Biol
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
27
-
-
0029901484
-
Analysis of the hydA locus of Escherichia coli: Two genes (hydN and hypF) involved in formate and hydrogen metabolism
-
Maier T, Binder U, Bock A (1996) Analysis of the hydA locus of Escherichia coli: two genes (hydN and hypF) involved in formate and hydrogen metabolism. Arch Microbiol 165:333-341
-
(1996)
Arch Microbiol
, vol.165
, pp. 333-341
-
-
Maier, T.1
Binder, U.2
Bock, A.3
-
28
-
-
12444292075
-
Complete genome structure of Gloeobacter violaceus PCC 7421, a cyanobacterium that lacks thylakoids
-
Nakamura Y, Kaneko T, Sato S, Mimuro M, Miyashita H, Tsuchiya T, Sasamoto S, Watanabe A, Kawashima K, Kishida Y, Kiyokawa C, Kohara M, Matsumoto M, Matsuno A, Nakazaki N, Shimpo S, Takeuchi C, Yamada M, Tabata S (2003) Complete genome structure of Gloeobacter violaceus PCC 7421, a cyanobacterium that lacks thylakoids. DNA Res 10:137-145
-
(2003)
DNA Res
, vol.10
, pp. 137-145
-
-
Nakamura, Y.1
Kaneko, T.2
Sato, S.3
Mimuro, M.4
Miyashita, H.5
Tsuchiya, T.6
Sasamoto, S.7
Watanabe, A.8
Kawashima, K.9
Kishida, Y.10
Kiyokawa, C.11
Kohara, M.12
Matsumoto, M.13
Matsuno, A.14
Nakazaki, N.15
Shimpo, S.16
Takeuchi, C.17
Yamada, M.18
Tabata, S.19
-
29
-
-
0022507362
-
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions
-
Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418-426
-
(1986)
Mol Biol Evol
, vol.3
, pp. 418-426
-
-
Nei, M.1
Gojobori, T.2
-
30
-
-
0031972161
-
Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene
-
Nielsen R, Yang Z (1998) Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics 148:929-936
-
(1998)
Genetics
, vol.148
, pp. 929-936
-
-
Nielsen, R.1
Yang, Z.2
-
31
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
Posada D, Crandall KA (1998) MODELTEST: Testing the model of DNA substitution. Bioinformatics 14:817-818
-
(1998)
Bioinformatics
, vol.14
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
32
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou N, Nei M (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
33
-
-
0034604449
-
CikA, a bacteriophytochrome that resets the cyanobacterial circadian clock
-
Schmitz O, Katayama M, Williams SB, Kondo T, Golden SS (2000) CikA, a bacteriophytochrome that resets the cyanobacterial circadian clock. Science 289:765-768
-
(2000)
Science
, vol.289
, pp. 765-768
-
-
Schmitz, O.1
Katayama, M.2
Williams, S.B.3
Kondo, T.4
Golden, S.S.5
-
34
-
-
0028363975
-
Azotobacter vinelandii ferredoxin I. Alteration of individual surface charges and the [4FE-4S]2+/+ cluster reduction potential
-
Shen B, Jollie DR, Stout CD, Diller TC, Armstrong FA, Gorst CM, La Mar GN, Stephens PJ, Burgess BK (1994) Azotobacter vinelandii ferredoxin I. Alteration of individual surface charges and the [4FE-4S]2+/+ cluster reduction potential. J Biol Chem 269:8564-8575
-
(1994)
J Biol Chem
, vol.269
, pp. 8564-8575
-
-
Shen, B.1
Jollie, D.R.2
Stout, C.D.3
Diller, T.C.4
Armstrong, F.A.5
Gorst, C.M.6
La Mar, G.N.7
Stephens, P.J.8
Burgess, B.K.9
-
35
-
-
0027968068
-
CLUSTAL W: Improving he sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving he sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
36
-
-
0029966080
-
A sigma factor that modifies the circadian expression of a subset of genes in cyanobacteria
-
Tsinoremas NF, Ishiura M, Kondo T, Tanaka K, Takahashi H, Johnson CH, Golden SS (1996) A sigma factor that modifies the circadian expression of a subset of genes in cyanobacteria. EMBO J 15:2488-2495
-
(1996)
EMBO J
, vol.15
, pp. 2488-2495
-
-
Tsinoremas, N.F.1
Ishiura, M.2
Kondo, T.3
Tanaka, K.4
Takahashi, H.5
Johnson, C.H.6
Golden, S.S.7
-
37
-
-
0001898435
-
Molecular systematics of oxygenic photosynthetic bacteria
-
Turner S (1997) Molecular systematics of oxygenic photosynthetic bacteria. PI Syst Evol (Suppl) 11:13-52
-
(1997)
PI Syst Evol (Suppl)
, vol.11
, pp. 13-52
-
-
Turner, S.1
-
38
-
-
0035031966
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
-
Whelan S, Goldman N (2001) A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 18:691-699
-
(2001)
Mol Biol Evol
, vol.18
, pp. 691-699
-
-
Whelan, S.1
Goldman, N.2
-
39
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z (1997) PAML: A program package for phylogenetic analysis by maximum likelihood. CABIOS 15:555-556
-
(1997)
CABIOS
, vol.15
, pp. 555-556
-
-
Yang, Z.1
-
40
-
-
0036270185
-
Codon-substitution models for detecting molecular adaptation at individual sites along specific lineages
-
Yang Z, Nielsen R (2002) Codon-substitution models for detecting molecular adaptation at individual sites along specific lineages. Mol Biol Evol 19:908-917
-
(2002)
Mol Biol Evol
, vol.19
, pp. 908-917
-
-
Yang, Z.1
Nielsen, R.2
-
41
-
-
0034097381
-
Codon-substitution models for heterogeneous selection pressure at amino acid sites
-
Yang Z, Nielsen R, Goldman N, Pedersen A-MK (2000) Codon-substitution models for heterogeneous selection pressure at amino acid sites. Genetics 155:431-449
-
(2000)
Genetics
, vol.155
, pp. 431-449
-
-
Yang, Z.1
Nielsen, R.2
Goldman, N.3
Pedersen, A.-M.K.4
|