-
1
-
-
84857551173
-
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity
-
Andersen, E. C., J. P. Gerke, J. A. Shapiro, J. R. Crissman, R. Ghosh et al., 2012 Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nat. Genet. 44: 285-290.
-
(2012)
Nat. Genet.
, vol.44
, pp. 285-290
-
-
Andersen, E.C.1
Gerke, J.P.2
Shapiro, J.A.3
Crissman, J.R.4
Ghosh, R.5
-
2
-
-
38849194141
-
Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome
-
Andolfatto, P., 2007 Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome. Genome Res. 17: 1755-1762.
-
(2007)
Genome Res.
, vol.17
, pp. 1755-1762
-
-
Andolfatto, P.1
-
3
-
-
79551599525
-
Mugsy: Fast multiple alignment of closely related whole genomes
-
Angiuoli, S. V., and S. L. Salzberg, 2011 Mugsy: fast multiple alignment of closely related whole genomes. Bioinformatics 27: 334-342.
-
(2011)
Bioinformatics
, vol.27
, pp. 334-342
-
-
Angiuoli, S.V.1
Salzberg, S.L.2
-
4
-
-
61849109937
-
Detecting heterozygosity in shotgun genome assemblies: Lessons from obligately outcrossing nematodes
-
Barrière, A., S.-P. Yang, E. Pekarek, C. G. Thomas, E. S. Haag et al., 2009 Detecting heterozygosity in shotgun genome assemblies: lessons from obligately outcrossing nematodes. Genome Res. 19: 470-480.
-
(2009)
Genome Res.
, vol.19
, pp. 470-480
-
-
Barrière, A.1
Yang, S.-P.2
Pekarek, E.3
Thomas, C.G.4
Haag, E.S.5
-
5
-
-
0032566768
-
Why sex and recombination?
-
Barton, N. H., and B. Charlesworth, 1998 Why sex and recombination? Science 281: 1986-1990.
-
(1998)
Science
, vol.281
, pp. 1986-1990
-
-
Barton, N.H.1
Charlesworth, B.2
-
6
-
-
0026529344
-
Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster
-
Begun, D. J., and C. F. Aquadro, 1992 Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster. Nature 356: 519-520.
-
(1992)
Nature
, vol.356
, pp. 519-520
-
-
Begun, D.J.1
Aquadro, C.F.2
-
7
-
-
35948940895
-
Population genomics: Whole-genome analysis of polymorphism and divergence in Drosophila simulans
-
Begun, D. J., A. K. Holloway, K. Stevens, L. W. Hillier, Y.-P. Poh et al., 2007 Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biol. 5: 2534-2559.
-
(2007)
PLoS Biol.
, vol.5
, pp. 2534-2559
-
-
Begun, D.J.1
Holloway, A.K.2
Stevens, K.3
Hillier, L.W.4
Poh, Y.-P.5
-
8
-
-
79951530130
-
Scaffolding pre-assembled contigs using sspace
-
Boetzer, M., C. V. Henkel, H. J. Jansen, D. Butler, and W. Pirovano, 2011 Scaffolding pre-assembled contigs using sspace. Bioinformatics 27: 578-579.
-
(2011)
Bioinformatics
, vol.27
, pp. 578-579
-
-
Boetzer, M.1
Henkel, C.V.2
Jansen, H.J.3
Butler, D.4
Pirovano, W.5
-
9
-
-
0029036829
-
The hitchhiking effect on the site frequency spectrum of DNA polymorphisms
-
Braverman, J. M., R. R. Hudson, N. L. Kaplan, C. H. Langley, and W. Stephan, 1995 The hitchhiking effect on the site frequency spectrum of DNA polymorphisms. Genetics 140: 783-796.
-
(1995)
Genetics
, vol.140
, pp. 783-796
-
-
Braverman, J.M.1
Hudson, R.R.2
Kaplan, N.L.3
Langley, C.H.4
Stephan, W.5
-
10
-
-
84872569594
-
System-wide rewiring underlies behavioral differences in predatory and bacterial-feeding nematodes
-
Bumbarger, D. J., M. Riebesell, C. Rödelsperger, and R. J. Sommer, 2013 System-wide rewiring underlies behavioral differences in predatory and bacterial-feeding nematodes. Cell 152: 109-119.
-
(2013)
Cell
, vol.152
, pp. 109-119
-
-
Bumbarger, D.J.1
Riebesell, M.2
Rödelsperger, C.3
Sommer, R.J.4
-
11
-
-
80053384429
-
Whole-genome sequencing of multiple Arabidopsis thaliana populations
-
Cao, J., K. Schneeberger, S. Ossowski, T. Günther, S. Bender et al., 2011 Whole-genome sequencing of multiple Arabidopsis thaliana populations. Nat. Genet. 43: 956-963.
-
(2011)
Nat. Genet.
, vol.43
, pp. 956-963
-
-
Cao, J.1
Schneeberger, K.2
Ossowski, S.3
Günther, T.4
Bender, S.5
-
12
-
-
44649110284
-
The McDonald-Kreitman test and slightly deleterious mutations
-
Charlesworth, J., and A. Eyre-Walker, 2008 The McDonald-Kreitman test and slightly deleterious mutations. Mol. Biol. Evol. 25: 1007-1015.
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 1007-1015
-
-
Charlesworth, J.1
Eyre-Walker, A.2
-
13
-
-
0027305597
-
The effect of deleterious mutations on neutral molecular variation
-
Charlesworth, B., M. T. Morgan, and D. Charlesworth, 1993 The effect of deleterious mutations on neutral molecular variation. Genetics 134: 1289-1303.
-
(1993)
Genetics
, vol.134
, pp. 1289-1303
-
-
Charlesworth, B.1
Morgan, M.T.2
Charlesworth, D.3
-
14
-
-
77955146078
-
Natural selection shapes nucleotide polymorphism across the genome of the nematode Caenorhabditis briggsae
-
Cutter, A. D., and J. Y. Choi, 2010 Natural selection shapes nucleotide polymorphism across the genome of the nematode Caenorhabditis briggsae. Genome Res. 20: 1103-1111.
-
(2010)
Genome Res.
, vol.20
, pp. 1103-1111
-
-
Cutter, A.D.1
Choi, J.Y.2
-
15
-
-
84875230189
-
Genomic signatures of selection at linked sites: Unifying the disparity among species
-
Cutter, A. D., and B. A. Payseur, 2013 Genomic signatures of selection at linked sites: unifying the disparity among species. Nat. Rev. Genet. 14: 262-274.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 262-274
-
-
Cutter, A.D.1
Payseur, B.A.2
-
16
-
-
33747825367
-
Patterns of nucleotide polymorphism distinguish temperate and tropical wild isolates of Caenorhabditis briggsae
-
Cutter, A. D., M.-A. Félix, A. Barrière, and D. Charlesworth, 2006 Patterns of nucleotide polymorphism distinguish temperate and tropical wild isolates of Caenorhabditis briggsae. Genetics 173: 2021-2031.
-
(2006)
Genetics
, vol.173
, pp. 2021-2031
-
-
Cutter, A.D.1
Félix, M.-A.2
Barrière, A.3
Charlesworth, D.4
-
17
-
-
80052730865
-
Reproductive mode evolution in nematodes: Insights from molecular phylogenies and recently discovered species
-
Denver, D. R., K. A. Clark, and M. J. Raboin, 2011 Reproductive mode evolution in nematodes: insights from molecular phylogenies and recently discovered species. Mol. Phylogenet. Evol. 61: 584-592.
-
(2011)
Mol. Phylogenet. Evol.
, vol.61
, pp. 584-592
-
-
Denver, D.R.1
Clark, K.A.2
Raboin, M.J.3
-
18
-
-
52949136971
-
The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism
-
Dieterich, C., S. W. Clifton, L. N. Schuster, A. Chinwalla, K. Delehaunty et al., 2008 The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism. Nat. Genet. 40: 1193-1198.
-
(2008)
Nat. Genet.
, vol.40
, pp. 1193-1198
-
-
Dieterich, C.1
Clifton, S.W.2
Schuster, L.N.3
Chinwalla, A.4
Delehaunty, K.5
-
19
-
-
65249150257
-
Recent speciation associated with the evolution of selfing in Capsella
-
Foxe, J. P., T. Slotte, E. A. Stahl, B. Neuffer, H. Hurka et al., 2009 Recent speciation associated with the evolution of selfing in Capsella. Proc. Natl. Acad. Sci. USA 106: 5241-5245.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 5241-5245
-
-
Foxe, J.P.1
Slotte, T.2
Stahl, E.A.3
Neuffer, B.4
Hurka, H.5
-
21
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
Gnerre, S., I. Maccallum, D. Przybylski, F. J. Ribeiro, J. N. Burton et al., 2011 High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc. Natl. Acad. Sci. USA 108: 1513-1518.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 1513-1518
-
-
Gnerre, S.1
McCallum, I.2
Przybylski, D.3
Ribeiro, F.J.4
Burton, J.N.5
-
22
-
-
61449124151
-
FrameDP: Sensitive peptide detection on noisy matured sequences
-
Gouzy, J., S. Carrere, and T. Schiex, 2009 FrameDP: sensitive peptide detection on noisy matured sequences. Bioinformatics 25: 670-671.
-
(2009)
Bioinformatics
, vol.25
, pp. 670-671
-
-
Gouzy, J.1
Carrere, S.2
Schiex, T.3
-
23
-
-
59949088494
-
Whole population, genome-wide mapping of hidden relatedness
-
Gusev, A., J. K. Lowe, M. Stoffel, M. J. Daly, D. Altshuler et al., 2009 Whole population, genome-wide mapping of hidden relatedness. Genome Res. 19: 318-326.
-
(2009)
Genome Res.
, vol.19
, pp. 318-326
-
-
Gusev, A.1
Lowe, J.K.2
Stoffel, M.3
Daly, M.J.4
Altshuler, D.5
-
24
-
-
0013979181
-
The effect of linkage on limits to artificial selection
-
Hill, W. G., and A. Robertson, 1966 The effect of linkage on limits to artificial selection. Genet. Res. 8: 269-294.
-
(1966)
Genet. Res.
, vol.8
, pp. 269-294
-
-
Hill, W.G.1
Robertson, A.2
-
25
-
-
0028846610
-
Deleterious background selection with recombination
-
Hudson, R. R., and N. L. Kaplan, 1995 Deleterious background selection with recombination. Genetics 141: 1605-1617.
-
(1995)
Genetics
, vol.141
, pp. 1605-1617
-
-
Hudson, R.R.1
Kaplan, N.L.2
-
26
-
-
30744470609
-
Application of phylogenetic networks in evolutionary studies
-
Huson, D. H., and D. Bryant, 2006 Application of phylogenetic networks in evolutionary studies. Mol. Biol. Evol. 23: 254-267.
-
(2006)
Mol. Biol. Evol.
, vol.23
, pp. 254-267
-
-
Huson, D.H.1
Bryant, D.2
-
27
-
-
84861760099
-
Description of three Pristionchus species (nematoda: Diplogastridae) from Japan that form a cryptic species complex with the model organism P. pacificus
-
Kanzaki, N., E. J. Ragsdale, M. Herrmann, W. E. Mayer, and R. J. Sommer, 2012 Description of three Pristionchus species (nematoda: Diplogastridae) from Japan that form a cryptic species complex with the model organism P. pacificus. Zoolog. Sci. 29: 403-417.
-
(2012)
Zoolog. Sci.
, vol.29
, pp. 403-417
-
-
Kanzaki, N.1
Ragsdale, E.J.2
Herrmann, M.3
Mayer, W.E.4
Sommer, R.J.5
-
28
-
-
9944247694
-
Conceptual issues in local adaptation
-
Kawecki, T. J., and D. Ebert, 2004 Conceptual issues in local adaptation. Ecol. Lett. 7: 1225-1241.
-
(2004)
Ecol. Lett.
, vol.7
, pp. 1225-1241
-
-
Kawecki, T.J.1
Ebert, D.2
-
29
-
-
37249042614
-
Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies
-
Keightley, P. D., and A. Eyre-Walker, 2007 Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies. Genetics 177: 2251-2261.
-
(2007)
Genetics
, vol.177
, pp. 2251-2261
-
-
Keightley, P.D.1
Eyre-Walker, A.2
-
30
-
-
78649358717
-
Quake: Qualityaware detection and correction of sequencing errors
-
Kelley, D. R., M. C. Schatz, and S. L. Salzberg, 2010 Quake: qualityaware detection and correction of sequencing errors. Genome Biol. 11: R116.
-
(2010)
Genome Biol.
, vol.11
-
-
Kelley, D.R.1
Schatz, M.C.2
Salzberg, S.L.3
-
31
-
-
0036226603
-
Blat-the blast-like alignment tool
-
Kent, W. J., 2002 Blat-the blast-like alignment tool. Genome Res. 12: 656-664.
-
(2002)
Genome Res.
, vol.12
, pp. 656-664
-
-
Kent, W.J.1
-
32
-
-
84876786276
-
Cryptic variation in vulva development by cis-regulatory evolution of a hairy-binding site
-
Kienle, S., and R. J. Sommer, 2013 Cryptic variation in vulva development by cis-regulatory evolution of a hairy-binding site. Nat. Commun. 4: 1714.
-
(2013)
Nat. Commun.
, vol.4
, pp. 1714
-
-
Kienle, S.1
Sommer, R.J.2
-
33
-
-
34548016343
-
Recombination and linkage disequilibrium in Arabidopsis thaliana
-
Kim, S., V. Plagnol, T. T. Hu, C. Toomajian, R. M. Clark et al., 2007 Recombination and linkage disequilibrium in Arabidopsis thaliana. Nat. Genet. 39: 1151-1155.
-
(2007)
Nat. Genet.
, vol.39
, pp. 1151-1155
-
-
Kim, S.1
Plagnol, V.2
Hu, T.T.3
Toomajian, C.4
Clark, R.M.5
-
34
-
-
0015862142
-
The age of a neutral mutant persisting in a finite population
-
Kimura, M., and T. Ohta, 1973 The age of a neutral mutant persisting in a finite population. Genetics 75: 199-212.
-
(1973)
Genetics
, vol.75
, pp. 199-212
-
-
Kimura, M.1
Ohta, T.2
-
35
-
-
2942544417
-
Gene finding in novel genomes
-
Korf, I., 2004 Gene finding in novel genomes. BMC Bioinformatics 5: 59.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 59
-
-
Korf, I.1
-
36
-
-
77951939888
-
Microindel detection in short-read sequence data
-
Krawitz, P., C. Rödelsperger, M. Jger, L. Jostins, S. Bauer et al., 2010 Microindel detection in short-read sequence data. Bioinformatics 26: 722-729.
-
(2010)
Bioinformatics
, vol.26
, pp. 722-729
-
-
Krawitz, P.1
Rödelsperger, C.2
Jger, M.3
Jostins, L.4
Bauer, S.5
-
37
-
-
0038043324
-
Limited microsynteny between the genomes of Pristionchus pacificus and Caenorhabditis elegans
-
Lee, K.-Z., A. Eizinger, R. Nandakumar, S. C. Schuster, and R. J. Sommer, 2003 Limited microsynteny between the genomes of Pristionchus pacificus and Caenorhabditis elegans. Nucleic Acids Res. 31: 2553-2560.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 2553-2560
-
-
Lee, K.-Z.1
Eizinger, A.2
Nandakumar, R.3
Schuster, S.C.4
Sommer, R.J.5
-
38
-
-
67649884743
-
Fast and accurate short read alignment with burrows-wheeler transform
-
Li, H., and R. Durbin, 2009 Fast and accurate short read alignment with burrows-wheeler transform. Bioinformatics 25: 1754-1760.
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
39
-
-
68549104404
-
The sequence alignment/map format and samtools
-
Li, H., B. Handsaker, A. Wysoker, T. Fennell, J. Ruan et al., 2009 The sequence alignment/map format and samtools. Bioinformatics 25: 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
-
40
-
-
75149155568
-
The sequence and de novo assembly of the giant panda genome
-
Li, R., W. Fan, G. Tian, H. Zhu, L. He et al., 2010a The sequence and de novo assembly of the giant panda genome. Nature 463: 311-317.
-
(2010)
Nature
, vol.463
, pp. 311-317
-
-
Li, R.1
Fan, W.2
Tian, G.3
Zhu, H.4
He, L.5
-
41
-
-
75649124547
-
De novo assembly of human genomes with massively parallel short read sequencing
-
Li, R., H. Zhu, J. Ruan, W. Qian, X. Fang et al., 2010b De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20: 265-272.
-
(2010)
Genome Res.
, vol.20
, pp. 265-272
-
-
Li, R.1
Zhu, H.2
Ruan, J.3
Qian, W.4
Fang, X.5
-
42
-
-
79956307251
-
Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads
-
Lunter, G., and M. Goodson, 2011 Stampy: a statistical algorithm for sensitive and fast mapping of Illumina sequence reads. Genome Res. 21: 936-939.
-
(2011)
Genome Res.
, vol.21
, pp. 936-939
-
-
Lunter, G.1
Goodson, M.2
-
43
-
-
37249036929
-
Genomewide spatial correspondence between nonsynonymous divergence and neutral polymorphism reveals extensive adaptation in Drosophila
-
Macpherson, J. M., G. Sella, J. C. Davis, and D. A. Petrov, 2007 Genomewide spatial correspondence between nonsynonymous divergence and neutral polymorphism reveals extensive adaptation in Drosophila. Genetics 177: 2083-2099.
-
(2007)
Genetics
, vol.177
, pp. 2083-2099
-
-
McPherson, J.M.1
Sella, G.2
Davis, J.C.3
Petrov, D.A.4
-
44
-
-
78651268231
-
Horizontal gene transfer of microbial cellulases into nematode genomes is associated with functional assimilation and gene turnover
-
Mayer, W. E., L. N. Schuster, G. Bartelmes, C. Dieterich, and R. J. Sommer, 2011 Horizontal gene transfer of microbial cellulases into nematode genomes is associated with functional assimilation and gene turnover. BMC Evol. Biol. 11: 13.
-
(2011)
BMC Evol. Biol.
, vol.11
, pp. 13
-
-
Mayer, W.E.1
Schuster, L.N.2
Bartelmes, G.3
Dieterich, C.4
Sommer, R.J.5
-
45
-
-
0016220238
-
The hitch-hiking effect of a favourable gene
-
Maynard Smith, J., and J. Haigh, 1974 The hitch-hiking effect of a favourable gene. Genet. Res. 23: 23-35.
-
(1974)
Genet. Res.
, vol.23
, pp. 23-35
-
-
Maynard Smith, J.1
Haigh, J.2
-
46
-
-
0026428610
-
Adaptive protein evolution at the Adh locus in Drosophila
-
McDonald, J. H., and M. Kreitman, 1991 Adaptive protein evolution at the Adh locus in Drosophila. Nature 351: 652-654.
-
(1991)
Nature
, vol.351
, pp. 652-654
-
-
McDonald, J.H.1
Kreitman, M.2
-
48
-
-
84883192705
-
Tandem-repeat patterns and mutation rates in microsatellites of the nematode model organism Pristionchus pacificus
-
Molnar, R. I., H. Witte, I. Dinkelacker, L. Villate, and R. J. Sommer, 2012 Tandem-repeat patterns and mutation rates in microsatellites of the nematode model organism Pristionchus pacificus. G3 2: 1027-1034.
-
(2012)
G3
, vol.2
, pp. 1027-1034
-
-
Molnar, R.I.1
Witte, H.2
Dinkelacker, I.3
Villate, L.4
Sommer, R.J.5
-
49
-
-
84855438947
-
Multi locus analysis of Pristionchus pacificus on La Réunion island reveals an evolutionary history shaped by multiple introductions, constrained dispersal events and rare out-crossing
-
Morgan, K., A. McGaughran, L. Villate, M. Herrmann, H. Witte et al., 2012 Multi locus analysis of Pristionchus pacificus on La Réunion island reveals an evolutionary history shaped by multiple introductions, constrained dispersal events and rare out-crossing. Mol. Ecol. 21: 250-266.
-
(2012)
Mol. Ecol.
, vol.21
, pp. 250-266
-
-
Morgan, K.1
McGaughran, A.2
Villate, L.3
Herrmann, M.4
Witte, H.5
-
50
-
-
84891780901
-
Why time matters: Codon evolution and the temporal dynamics of dN/dS
-
Mugal, C. F., J. B. W. Wolf, and I. Kaj, 2014 Why time matters: codon evolution and the temporal dynamics of dN/dS. Mol. Biol. Evol. 31: 212-231.
-
(2014)
Mol. Biol. Evol.
, vol.31
, pp. 212-231
-
-
Mugal, C.F.1
Wolf, J.B.W.2
Kaj, I.3
-
52
-
-
84884652658
-
Genetic draft, selective interference, and population genetics of rapid adaptation
-
Neher, R. A., 2013 Genetic draft, selective interference, and population genetics of rapid adaptation. Annu. Rev. Ecol. Evol. Syst. 44: 195-215.
-
(2013)
Annu. Rev. Ecol. Evol. Syst.
, vol.44
, pp. 195-215
-
-
Neher, R.A.1
-
54
-
-
80051478113
-
Genetic draft and quasineutrality in large facultatively sexual populations
-
Neher, R. A., and B. I. Shraiman, 2011 Genetic draft and quasineutrality in large facultatively sexual populations. Genetics 188: 975-996.
-
(2011)
Genetics
, vol.188
, pp. 975-996
-
-
Neher, R.A.1
Shraiman, B.I.2
-
55
-
-
84884612597
-
Coalescence and genetic diversity in sexual populations under selection
-
Neher, R. A., T. A. Kessinger, and B. I. Shraiman, 2013 Coalescence and genetic diversity in sexual populations under selection. Proc. Natl. Acad. Sci. USA 110: 15836-15841.
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 15836-15841
-
-
Neher, R.A.1
Kessinger, T.A.2
Shraiman, B.I.3
-
57
-
-
22744434580
-
The pattern of polymorphism in Arabidopsis thaliana
-
Nordborg, M., T. T. Hu, Y. Ishino, J. Jhaveri, C. Toomajian et al., 2005 The pattern of polymorphism in Arabidopsis thaliana. PLoS Biol. 3: e196.
-
(2005)
PLoS Biol.
, vol.3
-
-
Nordborg, M.1
Hu, T.T.2
Ishino, Y.3
Jhaveri, J.4
Toomajian, C.5
-
59
-
-
33746265276
-
One perfect worm
-
Phillips, P. C., 2006 One perfect worm. Trends Genet. 22: 405-407.
-
(2006)
Trends Genet.
, vol.22
, pp. 405-407
-
-
Phillips, P.C.1
-
60
-
-
67649327176
-
Fasttree: Computing large minimum evolution trees with profiles instead of a distance matrix
-
Price, M. N., P. S. Dehal, and A. P. Arkin, 2009 Fasttree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol. Biol. Evol. 26: 1641-1650.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 1641-1650
-
-
Price, M.N.1
Dehal, P.S.2
Arkin, A.P.3
-
61
-
-
0034117082
-
A fast algorithm for joint reconstruction of ancestral amino acid sequences
-
Pupko, T., I. Pe, R. Shamir, and D. Graur, 2000 A fast algorithm for joint reconstruction of ancestral amino acid sequences. Mol. Biol. Evol. 17: 890-896.
-
(2000)
Mol. Biol. Evol.
, vol.17
, pp. 890-896
-
-
Pupko, T.1
Pe, I.2
Shamir, R.3
Graur, D.4
-
62
-
-
84863826292
-
The importance of being regular: Caenorhabditis elegans and Pristionchus pacificus defecation mutants are hypersusceptible to bacterial pathogens
-
Rae, R., H. Witte, C. Rödelsperger, and R. J. Sommer, 2012 The importance of being regular: Caenorhabditis elegans and Pristionchus pacificus defecation mutants are hypersusceptible to bacterial pathogens. Int. J. Parasitol. 42: 747-753.
-
(2012)
Int. J. Parasitol.
, vol.42
, pp. 747-753
-
-
Rae, R.1
Witte, H.2
Rödelsperger, C.3
Sommer, R.J.4
-
63
-
-
33644630612
-
Comparisons of dN/dS are time dependent for closely related bacterial genomes
-
Rocha, E. P., J. M. Smith, L. D. Hurst, M. T. Holden, J. E. Cooper et al., 2006 Comparisons of dN/dS are time dependent for closely related bacterial genomes. J. Theor. Biol. 239: 226-235.
-
(2006)
J. Theor. Biol.
, vol.239
, pp. 226-235
-
-
Rocha, E.P.1
Smith, J.M.2
Hurst, L.D.3
Holden, M.T.4
Cooper, J.E.5
-
64
-
-
61849143272
-
Recombinational landscape and population genomics of Caenorhabditis elegans
-
Rockman, M. V., and L. Kruglyak, 2009 Recombinational landscape and population genomics of Caenorhabditis elegans. PLoS Genet. 5: e1000419.
-
(2009)
PLoS Genet.
, vol.5
-
-
Rockman, M.V.1
Kruglyak, L.2
-
65
-
-
77749246134
-
Cyntenator: Progressive gene order alignment of 17 vertebrate genomes
-
Rödelsperger, C., and C. Dieterich, 2010 Cyntenator: progressive gene order alignment of 17 vertebrate genomes. PLoS ONE 5: e8861.
-
(2010)
PLoS ONE
, vol.5
-
-
Rödelsperger, C.1
Dieterich, C.2
-
66
-
-
46449135597
-
A coalescent process with simultaneous multiple mergers for approximating the gene genealogies of many marine organisms
-
Sargsyan, O., and J. Wakeley, 2008 A coalescent process with simultaneous multiple mergers for approximating the gene genealogies of many marine organisms. Theor. Popul. Biol. 74: 104-114.
-
(2008)
Theor. Popul. Biol.
, vol.74
, pp. 104-114
-
-
Sargsyan, O.1
Wakeley, J.2
-
67
-
-
77749292827
-
Gene genealogies strongly distorted by weakly interfering mutations in constant environments
-
Seger, J., W. Smith, J. Perry, J. Hunn, Z. Kaliszewska et al., 2010 Gene genealogies strongly distorted by weakly interfering mutations in constant environments. Genetics 184: 529.
-
(2010)
Genetics
, vol.184
, pp. 529
-
-
Seger, J.1
Smith, W.2
Perry, J.3
Hunn, J.4
Kaliszewska, Z.5
-
68
-
-
67651050074
-
Pervasive natural selection in the Drosophila genome?
-
Sella, G., D. A. Petrov, M. Przeworski, and P. Andolfatto, 2009 Pervasive natural selection in the Drosophila genome? PLoS Genet. 5: e1000495.
-
(2009)
PLoS Genet.
, vol.5
-
-
Sella, G.1
Petrov, D.A.2
Przeworski, M.3
Andolfatto, P.4
-
69
-
-
84862303959
-
Divergent gene expression in the conserved dauer stage of the nematodes Pristionchus pacificus and Caenorhabditis elegans
-
Sinha, A., R. J. Sommer, and C. Dieterich, 2012 Divergent gene expression in the conserved dauer stage of the nematodes Pristionchus pacificus and Caenorhabditis elegans. BMC Genomics 13: 254.
-
(2012)
BMC Genomics
, vol.13
, pp. 254
-
-
Sinha, A.1
Sommer, R.J.2
Dieterich, C.3
-
70
-
-
0036743434
-
A bacterial artificial chromosome-based genetic linkage map of the nematode Pristionchus pacificus
-
Srinivasan, J., W. Sinz, C. Lanz, A. Brand, R. Nandakumar et al., 2002 A bacterial artificial chromosome-based genetic linkage map of the nematode Pristionchus pacificus. Genetics 162: 129-134.
-
(2002)
Genetics
, vol.162
, pp. 129-134
-
-
Srinivasan, J.1
Sinz, W.2
Lanz, C.3
Brand, A.4
Nandakumar, R.5
-
71
-
-
0042831231
-
An integrated physical and genetic map of the nematode Pristionchus pacificus
-
Srinivasan, J., W. Sinz, T. Jesse, L. Wiggers-Perebolte, K. Jansen et al., 2003 An integrated physical and genetic map of the nematode Pristionchus pacificus. Mol. Genet. Genomics 269: 715-722.
-
(2003)
Mol. Genet. Genomics
, vol.269
, pp. 715-722
-
-
Srinivasan, J.1
Sinz, W.2
Jesse, T.3
Wiggers-Perebolte, L.4
Jansen, K.5
-
72
-
-
77952123055
-
Transcript assembly and quantification by RNA-seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell, C., B. A. Williams, G. Pertea, A. Mortazavi, G. Kwan et al., 2010 Transcript assembly and quantification by RNA-seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat. Biotechnol. 28: 511-515.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
-
73
-
-
65649112683
-
-
Roberts & Co. Greenwood Village, Colorado, USA
-
Wakeley, J., 2008 Coalescent Theory. Roberts & Co. Greenwood Village, Colorado, USA.
-
(2008)
Coalescent Theory
-
-
Wakeley, J.1
-
74
-
-
84857406186
-
The structure of genealogies in the presence of purifying selection: A fitness-class coalescent
-
Walczak, A. M., L. E. Nicolaisen, J. B. Plotkin, and M. M. Desai, 2012 The structure of genealogies in the presence of purifying selection: a fitness-class coalescent. Genetics 190: 753-779.
-
(2012)
Genetics
, vol.190
, pp. 753-779
-
-
Walczak, A.M.1
Nicolaisen, L.E.2
Plotkin, J.B.3
Desai, M.M.4
-
75
-
-
84901371009
-
Opposing forces of A/T-biased mutations and G/C-biased gene conversions shape the genome of the nematode Pristionchus pacificus
-
Weller, A. M., C. Rödelsperger, G. Eberhardt, R. I. Molnar, and R. J. Sommer, 2014 Opposing forces of A/T-biased mutations and G/C-biased gene conversions shape the genome of the nematode Pristionchus pacificus. Genetics 196: 1145-1152.
-
(2014)
Genetics
, vol.196
, pp. 1145-1152
-
-
Weller, A.M.1
Rödelsperger, C.2
Eberhardt, G.3
Molnar, R.I.4
Sommer, R.J.5
-
76
-
-
0036729901
-
Rates and patterns of molecular evolution in inbred and outbred Arabidopsis
-
Wright, S. I., B. Lauga, and D. Charlesworth, 2002 Rates and patterns of molecular evolution in inbred and outbred Arabidopsis. Mol. Biol. Evol. 19: 1407-1420.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1407-1420
-
-
Wright, S.I.1
Lauga, B.2
Charlesworth, D.3
-
77
-
-
64849083125
-
Cnv-seq, a new method to detect copy number variation using high-throughput sequencing
-
Xie, C., and M. T. Tammi, 2009 Cnv-seq, a new method to detect copy number variation using high-throughput sequencing. BMC Bioinformatics 10: 80.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 80
-
-
Xie, C.1
Tammi, M.T.2
|