-
1
-
-
0035060081
-
Mismatch repair in correction of replication errors and processing of DNA damage
-
Aquilina G, Bignami M. 2001. Mismatch repair in correction of replication errors and processing of DNA damage. J Cell Physiol. 187:145-154.
-
(2001)
J Cell Physiol
, vol.187
, pp. 145-154
-
-
Aquilina, G.1
Bignami, M.2
-
2
-
-
36949086354
-
Synthesis of penicillin: 6-aminopenicillanic acid in penicillin fermentations
-
Batchelor FR, Doyle FP, Nayler JHC, Rolinson GN. 1959. Synthesis of penicillin: 6-aminopenicillanic acid in penicillin fermentations. Nature 183: 257-258.
-
(1959)
Nature
, vol.183
, pp. 257-258
-
-
Batchelor, F.R.1
Doyle, F.P.2
Jhc, N.3
Rolinson, G.N.4
-
3
-
-
0030462462
-
Transcription-induced mutations: Increase in C to T mutations in the nontranscribed strand during transcription in Escherichia coli
-
Beletskii A, Bhagwat AS. 1996. Transcription-induced mutations: increase in C to T mutations in the nontranscribed strand during transcription in Escherichia coli. Proc Natl Acad Sci USA. 93:13919-13924.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 13919-13924
-
-
Beletskii, A.1
Bhagwat, A.S.2
-
4
-
-
0026631005
-
The influence of nearest neightbors on the rate and pattern of spontaneous point mutations
-
Blake RD, Hess ST, Nicholson-Tuell J. 1992. The influence of nearest neightbors on the rate and pattern of spontaneous point mutations. J Mol Evol. 34:189-200.
-
(1992)
J Mol Evol
, vol.34
, pp. 189-200
-
-
Blake, R.D.1
Hess, S.T.2
Nicholson-Tuell, J.3
-
5
-
-
69549116107
-
BreakDancer: An algorithm for high-resolution mapping of genomic structural variation
-
Chen K, et al. 2009. BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nat Methods. 6:677-681.
-
(2009)
Nat Methods
, vol.6
, pp. 677-681
-
-
Chen, K.1
-
6
-
-
0029050624
-
Molecular mechanisms of defense by rhizobacteria against root disease
-
Cook RJ, et al. 1995. Molecular mechanisms of defense by rhizobacteria against root disease. Proc Natl Acad Sci USA. 92:4197-4201.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, pp. 4197-4201
-
-
Cook, R.J.1
-
7
-
-
0021923023
-
Siderophore activity of pyoverdin for Pseudomonas aeruginosa
-
Cox CD, Adams P. 1985. Siderophore activity of pyoverdin for Pseudomonas aeruginosa. Infect Immun. 48:130-138.
-
(1985)
Infect Immun
, vol.48
, pp. 130-138
-
-
Cox, C.D.1
Adams, P.2
-
8
-
-
77956193448
-
Progressive Mauve: Multiple genome alignment with gene gain, loss, and rearrangement
-
Darling AE, Mau B, Perna NT. 2010. progressiveMauve: multiple genome alignment with gene gain, loss, and rearrangement. PLoS One 5: e11147.
-
(2010)
PLoS One
, vol.5
, pp. e11147
-
-
Darling, A.E.1
Mau, B.2
Perna, N.T.3
-
9
-
-
0029065571
-
Association of increased spontaneous mutation rates with high levels of transcription in yeast
-
Datta A, Jinks-Robertson S. 1995. Association of increased spontaneous mutation rates with high levels of transcription in yeast. Science 268: 1616-1619.
-
(1995)
Science
, vol.268
, pp. 1616-1619
-
-
Datta, A.1
Jinks-Robertson, S.2
-
10
-
-
0025482241
-
The wavelet transform, time-frequency localization and signal analysis
-
Daubechies I. 1990. The wavelet transform, time-frequency localization and signal analysis. IEEE Trans Inf Theory. 36:961-1005.
-
(1990)
IEEE Trans Inf Theory
, vol.36
, pp. 961-1005
-
-
Daubechies, I.1
-
11
-
-
70349507538
-
A genome-wide view of Caenorhabditis elegans base-substitution mutation processes
-
Denver D, et al. 2009. A genome-wide view of Caenorhabditis elegans base-substitution mutation processes. Proc Natl Acad Sci USA. 106: 16310-16314.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 16310-16314
-
-
Denver, D.1
-
12
-
-
34547740652
-
Too many mutants with multiple mutations
-
Drake JW. 2007. Too many mutants with multiple mutations. Crit Rev Biochem Mol Biol. 42:247-258.
-
(2007)
Crit Rev Biochem Mol Biol
, vol.42
, pp. 247-258
-
-
Drake, J.W.1
-
13
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32:1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
14
-
-
43049165590
-
In situ bioremediation of monoaromatic pollutants in groundwater: A review
-
Farhadian M, Vachelard C, Duchez D, Larroche C. 2008. In situ bioremediation of monoaromatic pollutants in groundwater: a review. Bioresour Technol. 99:5296-5308.
-
(2008)
Bioresour Technol
, vol.99
, pp. 5296-5308
-
-
Farhadian, M.1
Vachelard, C.2
Duchez, D.3
Larroche, C.4
-
15
-
-
84883214477
-
On the mutation topology of the bacterial genome
-
Foster PL, Hanson AJ, Lee H, Popodi EM, Tang H. 2013. On the mutation topology of the bacterial genome. G3 3:399-407.
-
(2013)
G3
, vol.3
, pp. 399-407
-
-
Foster, P.L.1
Hanson, A.J.2
Lee, H.3
Popodi, E.M.4
Tang, H.5
-
16
-
-
84876566990
-
DoriC 5.0: An updated database of oriC regions in both bacterial and archael genomes
-
Gao F, Luo H, Zhang CT. 2013. DoriC 5.0: an updated database of oriC regions in both bacterial and archael genomes. Nucleic Acids Res. 41: D90-D93.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D90-D93
-
-
Gao, F.1
Luo, H.2
Zhang, C.T.3
-
17
-
-
66349117823
-
Fluctuation AnaLysis CalculatOR (FALCOR): A web tool for the determination of mutation rate using Luria-Delbruck fluctuation analysis
-
Hall BM, Ma C, Liang P, Singh KK. 2009. Fluctuation AnaLysis CalculatOR (FALCOR): a web tool for the determination of mutation rate using Luria-Delbruck fluctuation analysis. Bioinformatics 25:1564-1565.
-
(2009)
Bioinformatics
, vol.25
, pp. 1564-1565
-
-
Hall, B.M.1
Ma, C.2
Liang, P.3
Singh, K.K.4
-
18
-
-
77951697965
-
Spontaneous mutation accumulation studies in evolutionary genetics
-
Halligan DL, Keightley PD. 2009. Spontaneous mutation accumulation studies in evolutionary genetics. Annu Rev Ecol Evol Syst. 40: 151-172.
-
(2009)
Annu Rev Ecol Evol Syst
, vol.40
, pp. 151-172
-
-
Halligan, D.L.1
Keightley, P.D.2
-
19
-
-
0028294455
-
Wide variation in neighbor-dependent substitution rates
-
Hess ST, Blake JD, Blake RD. 1994. Wide variation in neighbor-dependent substitution rates. J Mol Evol. 236:1022-1033.
-
(1994)
J Mol Evol
, vol.236
, pp. 1022-1033
-
-
Hess, S.T.1
Blake, J.D.2
Blake, R.D.3
-
20
-
-
0035850251
-
Molecular mechanisms of DNA mismatch repair
-
Hsieh P. 2001. Molecular mechanisms of DNA mismatch repair. Mutat Res. 486:71-87.
-
(2001)
Mutat Res
, vol.486
, pp. 71-87
-
-
Hsieh, P.1
-
21
-
-
0348029897
-
Enzymatic hydrolysis of the side chain of penicillins
-
Huang HT, English AR, Seto TA, Shull GM, Sobin BA. 1960. Enzymatic hydrolysis of the side chain of penicillins. J Am Chem Soc. 82: 3790-3791.
-
(1960)
J Am Chem Soc
, vol.82
, pp. 3790-3791
-
-
Huang, H.T.1
English, A.R.2
Seto, T.A.3
Shull, G.M.4
Sobin, B.A.5
-
22
-
-
84901295203
-
Estimation of the spontaneous mutation rate per nucleotide site in a Drosophila melanogaster full-sib family
-
Keightley PD, Ness RW, Halligan DL, Haddrill PR. 2014. Estimation of the spontaneous mutation rate per nucleotide site in a Drosophila melanogaster full-sib family. Genetics 196:313-320.
-
(2014)
Genetics
, vol.196
, pp. 313-320
-
-
Keightley, P.D.1
Ness, R.W.2
Halligan, D.L.3
Haddrill, P.R.4
-
23
-
-
0029931416
-
Estimate of the genomic mutation rate deleterious to overall fitness in E. Coli
-
Kibota T, Lynch M. 1996. Estimate of the genomic mutation rate deleterious to overall fitness in E. coli. Nature 381:694-696.
-
(1996)
Nature
, vol.381
, pp. 694-696
-
-
Kibota, T.1
Lynch, M.2
-
24
-
-
77949532860
-
Proteomic detection of non-annotated protein-coding genes in Pseudomonas fluorescens Pf0-1
-
KimW, et al. 2009. Proteomic detection of non-annotated protein-coding genes in Pseudomonas fluorescens Pf0-1. PLoS One 4:e8455.
-
(2009)
PLoS One
, vol.4
, pp. e8455
-
-
Kim, W.1
-
26
-
-
80052919408
-
Mutation rates across budding yeast chromosome VI are correlated with replication timing
-
Lang GI, Murray AW. 2011. Mutation rates across budding yeast chromosome VI are correlated with replication timing. Genome Biol Evol. 3: 799-811.
-
(2011)
Genome Biol Evol
, vol.3
, pp. 799-811
-
-
Lang, G.I.1
Murray, A.W.2
-
27
-
-
84896523433
-
Mutation rate, spectra, and genome-wide distribution of spontaneous mutations in mismatch repair deficient yeast
-
Lang GI, Parsons L, Gammie AE. 2013. Mutation rate, spectra, and genome-wide distribution of spontaneous mutations in mismatch repair deficient yeast. G3 3:1453-1465.
-
(2013)
G3
, vol.3
, pp. 1453-1465
-
-
Lang, G.I.1
Parsons, L.2
Gammie, A.E.3
-
28
-
-
84867339877
-
Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing
-
Lee H, Popodi EM, Tang H, Foster PL. 2012. Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing. Proc Natl Acad Sci USA. 109: E2774-E2783.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. E2774-E2783
-
-
Lee, H.1
Popodi, E.M.2
Tang, H.3
Foster, P.L.4
-
29
-
-
77949587649
-
Fast and accurate long-read alignmentwith Burrows-Wheeler transform
-
Li H, Durbin R. 2010. Fast and accurate long-read alignmentwith Burrows-Wheeler transform. Bioinformatics 26:589-595.
-
(2010)
Bioinformatics
, vol.26
, pp. 589-595
-
-
Li, H.1
Durbin, R.2
-
30
-
-
68549104404
-
The sequence alignment/map (SAM) format and SAMtools
-
Li H, et al. 2009. The sequence alignment/map (SAM) format and SAMtools. Bioinformatics 25:2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
31
-
-
0023988871
-
Repair of single base-pair transversion mismatches of Escherichia coli in vitro: Correction of certain A/G mismatches is independent of dam methylation and host mutHLS gene functions
-
Liu AL, Chang DY. 1988. Repair of single base-pair transversion mismatches of Escherichia coli in vitro: correction of certain A/G mismatches is independent of dam methylation and host mutHLS gene functions. Genetics 118:593-600.
-
(1988)
Genetics
, vol.118
, pp. 593-600
-
-
Liu, A.L.1
Chang, D.Y.2
-
32
-
-
0000911208
-
Role of fluorescent siderophore production in biological control of Pythium ultimum by a Pseudomonas fluorescens strain
-
Loper JE. 1988. Role of fluorescent siderophore production in biological control of Pythium ultimum by a Pseudomonas fluorescens strain. Phytopathology 78:166-172.
-
(1988)
Phytopathology
, vol.78
, pp. 166-172
-
-
Loper, J.E.1
-
33
-
-
84864591224
-
Comparative genomics of plant-associated Pseudomonas spp.: Insights into diversity and inheritance of traits involved in multitrophic interactions
-
Loper JE, et al. 2012. Comparative genomics of plant-associated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions. PLoS Genet. 8:e1002784.
-
(2012)
PLoS Genet
, vol.8
, pp. e1002784
-
-
Loper, J.E.1
-
35
-
-
84942887758
-
SOAPdenovo2: An empirically improved memory-efficient short-read de novo assembler
-
Luo R, et al. 2012. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. GigaScience 1:18.
-
(2012)
GigaScience
, vol.1
, pp. 18
-
-
Luo, R.1
-
36
-
-
77955090647
-
Evolution of the mutation rate
-
Lynch M. 2010a. Evolution of the mutation rate. Tr Genet. 26: 345-352.
-
(2010)
Tr Genet
, vol.26
, pp. 345-352
-
-
Lynch, M.1
-
37
-
-
75749103383
-
Rate, molecular spectrum, and consequences of human mutation
-
Lynch M. 2010b. Rate, molecular spectrum, and consequences of human mutation. Proc Natl Acad Sci USA. 107:961-968.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 961-968
-
-
Lynch, M.1
-
38
-
-
48249133274
-
A genome-wide view of the spectrum of spontaneous mutations in yeast
-
Lynch M, et al. 2008. A genome-wide view of the spectrum of spontaneous mutations in yeast. Proc Natl Acad Sci USA. 105: 9272-9277.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 9272-9277
-
-
Lynch, M.1
-
39
-
-
0023886868
-
Calculating confidence intervals for relative risks (odds ratios) and standardised ratios and rates
-
Morris JA, Gardner MJ. 1988. Calculating confidence intervals for relative risks (odds ratios) and standardised ratios and rates. Br Med J (Clin Res Ed). 296:1313-1316.
-
(1988)
Br Med J (Clin Res Ed)
, vol.296
, pp. 1313-1316
-
-
Morris, J.A.1
Gardner, M.J.2
-
40
-
-
0037403391
-
The role of context-dependent mutations in generating compositional and codon usage bias in grass chloroplast DNA
-
Morton BR. 2003. The role of context-dependent mutations in generating compositional and codon usage bias in grass chloroplast DNA. J Mol Evol. 56:616-629.
-
(2003)
J Mol Evol
, vol.56
, pp. 616-629
-
-
Morton, B.R.1
-
41
-
-
78651159254
-
The genetic structure of natural populations of Drosophila melanogaster. I. Spontaneous mutation rate of polygenes controlling viability
-
Mukai T. 1964. The genetic structure of natural populations of Drosophila melanogaster. I. Spontaneous mutation rate of polygenes controlling viability. Genetics 50:1-19.
-
(1964)
Genetics
, vol.50
, pp. 1-19
-
-
Mukai, T.1
-
42
-
-
84870709677
-
Estimate of the spontaneous mutation rate in Chlamydomonas reinhardtii
-
Ness RW, Morgan AD, Colegrave N, Keightley PD. 2012. Estimate of the spontaneous mutation rate in Chlamydomonas reinhardtii. Genetics 192:1447-1454.
-
(2012)
Genetics
, vol.192
, pp. 1447-1454
-
-
Ness, R.W.1
Morgan, A.D.2
Colegrave, N.3
Keightley, P.D.4
-
43
-
-
0034685940
-
High frequency of hypermutable Pseudomonas aeruginosa in cystic fibrosis lung infection
-
Oliver A, Canton R, Campo P, Baquero F, Blazquez J. 2000. High frequency of hypermutable Pseudomonas aeruginosa in cystic fibrosis lung infection. Science 288:1251-1253.
-
(2000)
Science
, vol.288
, pp. 1251-1253
-
-
Oliver, A.1
Canton, R.2
Campo, P.3
Baquero, F.4
Blazquez, J.5
-
44
-
-
74849090833
-
The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana
-
Ossowski S, et al. 2010. The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana. Science 327:92-94.
-
(2010)
Science
, vol.327
, pp. 92-94
-
-
Ossowski, S.1
-
45
-
-
0020674698
-
Base-stacking and base-pairing contributions to helix stability: Thermodynamics of double-helix formation with CCGG, CCGGp, CCGGAp, ACCGGp, CCGGUp and ACCGUp
-
Petersheim M, Turner DH. 1983. Base-stacking and base-pairing contributions to helix stability: thermodynamics of double-helix formation with CCGG, CCGGp, CCGGAp, ACCGGp, CCGGUp and ACCGUp. Biochemistry 22:256-263.
-
(1983)
Biochemistry
, vol.22
, pp. 256-263
-
-
Petersheim, M.1
Turner, D.H.2
-
46
-
-
84863304598
-
-
Vienna (Austria): R Foundation for Statistical Computing
-
R Development Core Team. 2014. R: a language and environment for statistical computing. Vienna (Austria): R Foundation for Statistical Computing.
-
(2014)
R: A Language and Environment for Statistical Computing
-
-
-
47
-
-
0024966756
-
Chromosomal location and evolutionary rate variation in enterobacterial genes
-
Sharp PM, Shields DC, Wolfe KH, Li WH. 1989. Chromosomal location and evolutionary rate variation in enterobacterial genes. Science 246: 808-810.
-
(1989)
Science
, vol.246
, pp. 808-810
-
-
Sharp, P.M.1
Shields, D.C.2
Wolfe, K.H.3
Li, W.H.4
-
48
-
-
0032918081
-
Biodegradation of benzene, toluene, ethylbenzene, and o-xylene by a coculture of Pseudomonas putida and Pseudomonas fluorescens immobilized in a fibrous-bed bioreactor
-
Shim H, Yang ST. 1999. Biodegradation of benzene, toluene, ethylbenzene, and o-xylene by a coculture of Pseudomonas putida and Pseudomonas fluorescens immobilized in a fibrous-bed bioreactor. J Biotechnol. 67:99-112.
-
(1999)
J Biotechnol
, vol.67
, pp. 99-112
-
-
Shim, H.1
Yang, S.T.2
-
49
-
-
67649653746
-
Genomicandgeneticanalysesofdiversityandplantinteractions of Pseudomonas fluorescens
-
Silby MW, et al.2009.Genomicandgeneticanalysesofdiversityandplantinteractions of Pseudomonas fluorescens. Genome Biol. 10:R51.
-
(2009)
Genome Biol
, vol.10
, pp. R51
-
-
Silby, M.W.1
-
50
-
-
84868599895
-
Drift-barrier hypothesis and mutation rate evolution
-
Sung W, Ackerman MS, Miller SF, Doak TG, Lynch M. 2012. Drift-barrier hypothesis and mutation rate evolution. Proc Natl Acad Sci USA. 109: 18488-18492.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 18488-18492
-
-
Sung, W.1
Ackerman, M.S.2
Miller, S.F.3
Doak, T.G.4
Lynch, M.5
-
51
-
-
84868579284
-
Extraordinary genome stability in the ciliate Paramecium tetraurelia
-
Sung W, Tucker AE, et al. 2012. Extraordinary genome stability in the ciliate Paramecium tetraurelia. Proc Natl Acad Sci USA. 109: 19339-19344.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 19339-19344
-
-
Sung, W.1
Tucker, A.E.2
-
52
-
-
79957613599
-
MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura K, et al. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 28:2731-2739.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
-
53
-
-
23144467676
-
BASys: A web server for automated bacterial genome annotation
-
VanDomselaar GH, et al. 2005. BASys: a web server for automated bacterial genome annotation. Nucleic Acids Res. 33: W455-W459.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W455-W459
-
-
Vandomselaar, G.H.1
-
54
-
-
32644434270
-
Base-stacking and base-pairing contributions into thermal stability of the DNA double helix
-
Yakovchuk P, Protozanova E, Frank-Kamenetskii MD. 2006. Base-stacking and base-pairing contributions into thermal stability of the DNA double helix. Nucleic Acids Res. 34:564-574.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 564-574
-
-
Yakovchuk, P.1
Protozanova, E.2
Frank-Kamenetskii, M.D.3
-
55
-
-
70350694443
-
Pindel: A pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads
-
Ye K, Schulz MH, Long Q, Apweiler R, Ning Z. 2009. Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads. Bioinformatics 25:2865-2871.
-
(2009)
Bioinformatics
, vol.25
, pp. 2865-2871
-
-
Ye, K.1
Schulz, M.H.2
Long, Q.3
Apweiler, R.4
Ning, Z.5
-
56
-
-
46049108350
-
BatchPrimer3: A high throughput web application for PCR and sequencing primer design
-
You FM, et al. 2008. BatchPrimer3: a high throughput web application for PCR and sequencing primer design. BMC Bioinformatics 9:253.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 253
-
-
You, F.M.1
-
57
-
-
79959979274
-
PHAST: A fast phage search tool
-
Zhou Y, Liang Y, Lynch KH, Dennis JJ, Wishart DS. 2011. PHAST: a fast phage search tool. Nucleic Acids Res. 39:W347-W352.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W347-W352
-
-
Zhou, Y.1
Liang, Y.2
Lynch, K.H.3
Dennis, J.J.4
Wishart, D.S.5
|