-
1
-
-
0029653518
-
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
-
Fleischmann RD, Adams MD, White O, et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science. 1995;269:496-512.
-
(1995)
Science
, vol.269
, pp. 496-512
-
-
Fleischmann, R.D.1
Adams, M.D.2
White, O.3
-
2
-
-
0033616714
-
Horizontal gene transfer among genomes: the complexity hypothesis
-
Jain R, Rivera MC, Lake JA. Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci U S A. 1999;96:3801-3806.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 3801-3806
-
-
Jain, R.1
Rivera, M.C.2
Lake, J.A.3
-
3
-
-
34248396432
-
Global extent of horizontal gene transfer
-
Choi IG, Kim SH. Global extent of horizontal gene transfer. Proc Natl Acad Sci U S A. 2007;104:4489-4494.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 4489-4494
-
-
Choi, I.G.1
Kim, S.H.2
-
4
-
-
0030947344
-
Molecular evidence for an ancient duplication of the entire yeast genome
-
Wolfe KH, Shields DC. Molecular evidence for an ancient duplication of the entire yeast genome. Nature. 1997;387:708-713.
-
(1997)
Nature
, vol.387
, pp. 708-713
-
-
Wolfe, K.H.1
Shields, D.C.2
-
5
-
-
0034634395
-
The evolutionary fate and consequences of duplicate genes
-
Lynch M, Conery JS. The evolutionary fate and consequences of duplicate genes. Science. 2000;290:1151-1155.
-
(2000)
Science
, vol.290
, pp. 1151-1155
-
-
Lynch, M.1
Conery, J.S.2
-
6
-
-
36048950933
-
Gene family evolution across 12 Drosophila genomes
-
Hahn MW, Han MV, Han SG. Gene family evolution across 12 Drosophila genomes. PLoS Genet. 2007;3:e197.
-
(2007)
PLoS Genet
, vol.3
-
-
Hahn, M.W.1
Han, M.V.2
Han, S.G.3
-
7
-
-
0033603539
-
Phylogenetic classification and the universal tree
-
Doolittle WF. Phylogenetic classification and the universal tree. Science. 1999; 284:2124-2129.
-
(1999)
Science
, vol.284
, pp. 2124-2129
-
-
Doolittle, W.F.1
-
9
-
-
65549145465
-
The tree of life viewed through the contents of genomes
-
House CH. The tree of life viewed through the contents of genomes. Methods Mol Biol. 2009;532:141-161.
-
(2009)
Methods Mol Biol
, vol.532
, pp. 141-161
-
-
House, C.H.1
-
10
-
-
4544313053
-
The ring of life provides evidence for a genome fusion origin of eukaryotes
-
Rivera MC, Lake JA. The ring of life provides evidence for a genome fusion origin of eukaryotes. Nature. 2004;431:152-155.
-
(2004)
Nature
, vol.431
, pp. 152-155
-
-
Rivera, M.C.1
Lake, J.A.2
-
11
-
-
85172553248
-
-
2015. Available at: http://www.ncbi.nlm.nih.gov/genome/
-
(2015)
-
-
-
12
-
-
0038518196
-
Phylogenomics: intersection of evolution and genomics
-
Eisen JA, Fraser CM. Phylogenomics: intersection of evolution and genomics. Science. 2003;300:1706-1707.
-
(2003)
Science
, vol.300
, pp. 1706-1707
-
-
Eisen, J.A.1
Fraser, C.M.2
-
13
-
-
0032778047
-
The genomic tree as revealed from whole proteome comparisons
-
Tekaia F, Lazcano A, Dujon B. The genomic tree as revealed from whole proteome comparisons. Genome Res. 1999;9(6):550-557.
-
(1999)
Genome Res
, vol.9
, Issue.6
, pp. 550-557
-
-
Tekaia, F.1
Lazcano, A.2
Dujon, B.3
-
14
-
-
55449085523
-
Genome trees from conservation profiles
-
Tekaia F, Yeramian E. Genome trees from conservation profiles. PLoS Comput Biol. 2005;1(7):e75.
-
(2005)
PLoS Comput Biol
, vol.1
, Issue.7
-
-
Tekaia, F.1
Yeramian, E.2
-
15
-
-
0037270015
-
The evolutionary demography of duplicate genes
-
Lynch M, Conery JS. The evolutionary demography of duplicate genes. J Struct Funct Genomics. 2003;3:35-44.
-
(2003)
J Struct Funct Genomics
, vol.3
, pp. 35-44
-
-
Lynch, M.1
Conery, J.S.2
-
16
-
-
27644472372
-
Orthologs, paralogs, and evolutionary genomics
-
Koonin EV. Orthologs, paralogs, and evolutionary genomics. Annu Rev Genet. 2005;39:309-338.
-
(2005)
Annu Rev Genet
, vol.39
, pp. 309-338
-
-
Koonin, E.V.1
-
17
-
-
54849436208
-
The quest for orthologs: finding the corresponding gene across genomes
-
Kuzniar A, van Ham RC, Pongor S, Leunissen JA. The quest for orthologs: finding the corresponding gene across genomes. Trends Genet. 2008;24: 539-551.
-
(2008)
Trends Genet
, vol.24
, pp. 539-551
-
-
Kuzniar, A.1
van Ham, R.C.2
Pongor, S.3
Leunissen, J.A.4
-
18
-
-
70349515584
-
Eukaryote-to-eukaryote gene transfer events revealed by the genome sequence of the wine yeast Saccharomyces cerevisiae EC1118
-
Novo M, Bigey F, Beyne E, et al. Eukaryote-to-eukaryote gene transfer events revealed by the genome sequence of the wine yeast Saccharomyces cerevisiae EC1118. Proc Natl Acad Sci U S A. 2009;106:16333-16338.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 16333-16338
-
-
Novo, M.1
Bigey, F.2
Beyne, E.3
-
19
-
-
59149102602
-
Phylogenetic and functional assessment of orthologs inference projects and methods
-
Altenhoff AM, Dessimoz C. Phylogenetic and functional assessment of orthologs inference projects and methods. PLoS Comput Biol. 2009;5:e1000262.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Altenhoff, A.M.1
Dessimoz, C.2
-
20
-
-
77954198131
-
A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches
-
Kristensen DM, Kannan L, Coleman MK, et al. A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches. Bioinformatics. 2010;26:1481-1487.
-
(2010)
Bioinformatics
, vol.26
, pp. 1481-1487
-
-
Kristensen, D.M.1
Kannan, L.2
Coleman, M.K.3
-
21
-
-
0014800108
-
Distinguishing homologous from analogous proteins
-
Fitch WM. Distinguishing homologous from analogous proteins. Syst Zool. 1970;19:99-113.
-
(1970)
Syst Zool
, vol.19
, pp. 99-113
-
-
Fitch, W.M.1
-
22
-
-
0034178257
-
Homology a personal view on some of the problems
-
Fitch WM. Homology a personal view on some of the problems. Trends Genet. 2000;16:227-231.
-
(2000)
Trends Genet
, vol.16
, pp. 227-231
-
-
Fitch, W.M.1
-
23
-
-
0033278954
-
Pervasiveness of gene conservation and persistence of duplicates in cellular genomes
-
Tekaia F, Dujon B. Pervasiveness of gene conservation and persistence of duplicates in cellular genomes. J Mol Evol. 1999;49(5):591-600.
-
(1999)
J Mol Evol
, vol.49
, Issue.5
, pp. 591-600
-
-
Tekaia, F.1
Dujon, B.2
-
24
-
-
0036889686
-
Orthology, paralogy and proposed classification for paralog subtypes
-
Sonnhammer EL, Koonin EV. Orthology, paralogy and proposed classification for paralog subtypes. Trends Genet. 2002;18:619-620.
-
(2002)
Trends Genet
, vol.18
, pp. 619-620
-
-
Sonnhammer, E.L.1
Koonin, E.V.2
-
25
-
-
0034020782
-
Robustness-it's not where you think it is
-
Wolfe K. Robustness-it's not where you think it is. Nat Genet. 2000;25:3-4.
-
(2000)
Nat Genet
, vol.25
, pp. 3-4
-
-
Wolfe, K.1
-
27
-
-
4644225074
-
Comparative analysis of complete genomes reveals gene loss, acquisition and acceleration of evolutionary rates in Metazoa, suggests a prevalence of evolution via gene acquisition and indicates that the evolutionary rates in animals tend to be conserved
-
Babenko VN, Krylov DM. Comparative analysis of complete genomes reveals gene loss, acquisition and acceleration of evolutionary rates in Metazoa, suggests a prevalence of evolution via gene acquisition and indicates that the evolutionary rates in animals tend to be conserved. Nucleic Acids Res. 2004;32(17): 5029-5035.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.17
, pp. 5029-5035
-
-
Babenko, V.N.1
Krylov, D.M.2
-
28
-
-
84896722637
-
Global patterns of protein domain gain and loss in superkingdoms
-
Nasir A, Kim KM, Caetano-Anollés G. Global patterns of protein domain gain and loss in superkingdoms. PLoS Comput Biol. 2014;10(1):e1003452.
-
(2014)
PLoS Comput Biol
, vol.10
, Issue.1
-
-
Nasir, A.1
Kim, K.M.2
Caetano-Anollés, G.3
-
29
-
-
84855873427
-
The dynamics and evolutionary potential of domain loss and emergence
-
Moore AD, Bornberg-Bauer E. The dynamics and evolutionary potential of domain loss and emergence. Mol Biol Evol. 2012;29(2):787-796.
-
(2012)
Mol Biol Evol
, vol.29
, Issue.2
, pp. 787-796
-
-
Moore, A.D.1
Bornberg-Bauer, E.2
-
30
-
-
84929991097
-
A new method to scan genomes for introgression in a secondary contact model
-
Geneva AJ, Muirhead CA, Kingan SB, Garrigan D. A new method to scan genomes for introgression in a secondary contact model. PLoS One. 2015;10(4):e0118621.
-
(2015)
PLoS One
, vol.10
, Issue.4
-
-
Geneva, A.J.1
Muirhead, C.A.2
Kingan, S.B.3
Garrigan, D.4
-
31
-
-
34548420992
-
Reconstruction of the vertebrate ancestral genome reveals dynamic genome reorganization in early vertebrates
-
Nakatani Y, Takeda H, Kohara Y, Morishita S. Reconstruction of the vertebrate ancestral genome reveals dynamic genome reorganization in early vertebrates. Genome Res. 2007;17:1254-1265.
-
(2007)
Genome Res
, vol.17
, pp. 1254-1265
-
-
Nakatani, Y.1
Takeda, H.2
Kohara, Y.3
Morishita, S.4
-
32
-
-
84874509525
-
The impact of gene duplication, insertion, deletion, lateral gene transfer and sequencing error on orthology inference: a simulation study
-
Dalquen DA, Altenhoff AM, Gonnet GH, Dessimoz C. The impact of gene duplication, insertion, deletion, lateral gene transfer and sequencing error on orthology inference: a simulation study. PLoS One. 2013;8(2):e56925. doi: 10.1371/journal.pone.0056925.
-
(2013)
PLoS One
, vol.8
, Issue.2
-
-
Dalquen, D.A.1
Altenhoff, A.M.2
Gonnet, G.H.3
Dessimoz, C.4
-
33
-
-
0034141421
-
Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima
-
Worning P, Jensen LJ, Nelson KE, Brunak S, Ussery DW. Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima. Nucleic Acids Res. 2000;28:706-709.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 706-709
-
-
Worning, P.1
Jensen, L.J.2
Nelson, K.E.3
Brunak, S.4
Ussery, D.W.5
-
34
-
-
48249151749
-
Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution
-
Dagan T, Artzy-Randrup Y, Martin W. Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution. Proc Natl Acad Sci U S A. 2008;105:10039-10044.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 10039-10044
-
-
Dagan, T.1
Artzy-Randrup, Y.2
Martin, W.3
-
35
-
-
84857788331
-
Horizontal gene transfer in fungi
-
Fitzpatrick DA. Horizontal gene transfer in fungi. FEMS Microbiol Lett. 2012; 329(1):1-8.
-
(2012)
FEMS Microbiol Lett
, vol.329
, Issue.1
, pp. 1-8
-
-
Fitzpatrick, D.A.1
-
36
-
-
84930632893
-
Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes
-
Crisp A, Boschetti C, Perry M, Tunnacliffe A, Micklem G. Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes. Genome Biol. 2015;16:50.
-
(2015)
Genome Biol
, vol.16
, pp. 50
-
-
Crisp, A.1
Boschetti, C.2
Perry, M.3
Tunnacliffe, A.4
Micklem, G.5
-
37
-
-
79952523291
-
Amplification of a Zygosaccharomyces bailii DNA segment in wine yeast genomes by extrachromosomal circular DNA formation
-
Galeote V, Bigey F, Beyne E, et al. Amplification of a Zygosaccharomyces bailii DNA segment in wine yeast genomes by extrachromosomal circular DNA formation. PLoS One. 2011;6(3):e17872.
-
(2011)
PLoS One
, vol.6
, Issue.3
-
-
Galeote, V.1
Bigey, F.2
Beyne, E.3
-
38
-
-
84920364219
-
Interspecific introgressive origin of genomic diversity in the house mouse
-
Liu KJ, Steinberg E, Yozzo A, Song Y, Kohn MH, Nakhleh L. Interspecific introgressive origin of genomic diversity in the house mouse. Proc Natl Acad Sci U S A. 2015;112(1):196-201.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, Issue.1
, pp. 196-201
-
-
Liu, K.J.1
Steinberg, E.2
Yozzo, A.3
Song, Y.4
Kohn, M.H.5
Nakhleh, L.6
-
40
-
-
84870200615
-
Evolutionary implications of horizontal gene transfer
-
Syvanen M. Evolutionary implications of horizontal gene transfer. Annu Rev Genet. 2012;46:341-358.
-
(2012)
Annu Rev Genet
, vol.46
, pp. 341-358
-
-
Syvanen, M.1
-
41
-
-
84860138819
-
Evolution of protein domain architectures
-
Forslund K, Sonnhammer EL. Evolution of protein domain architectures. Methods Mol Biol. 2012;856:187-216.
-
(2012)
Methods Mol Biol
, vol.856
, pp. 187-216
-
-
Forslund, K.1
Sonnhammer, E.L.2
-
42
-
-
33646268799
-
Domain deletions and substitutions in the modular protein evolution
-
Weiner J III, Beaussart F, Bornberg-Bauer E. Domain deletions and substitutions in the modular protein evolution. FEBS. 2006;273:2037-2047.
-
(2006)
FEBS
, vol.273
, pp. 2037-2047
-
-
Weiner, J.1
Beaussart, F.2
Bornberg-Bauer, E.3
-
44
-
-
67650497792
-
Nature of the protein universe
-
Levitt M. Nature of the protein universe. PNAS. 2009;106(27):11079-11084.
-
(2009)
PNAS
, vol.106
, Issue.27
, pp. 11079-11084
-
-
Levitt, M.1
-
45
-
-
44949207428
-
Sequence similarity network reveals common ancestry of multidomain proteins
-
Song N, Joseph JM, Davis GB, Durand D. Sequence similarity network reveals common ancestry of multidomain proteins. PLoS Comput Biol. 2008;4:e1000063.
-
(2008)
PLoS Comput Biol
, vol.4
-
-
Song, N.1
Joseph, J.M.2
Davis, G.B.3
Durand, D.4
-
46
-
-
77951557120
-
Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution
-
Omelchenko MV, Galperin MY, Wolf YI, Koonin EV. Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution. Biol Direct. 2010;5:31.
-
(2010)
Biol Direct
, vol.5
, pp. 31
-
-
Omelchenko, M.V.1
Galperin, M.Y.2
Wolf, Y.I.3
Koonin, E.V.4
-
47
-
-
78650509490
-
Novel genes exhibit distinct patterns of function acquisition and network integration
-
Capra JA, Pollard KS, Singh M. Novel genes exhibit distinct patterns of function acquisition and network integration. Genome Biol. 2010;11:R127.
-
(2010)
Genome Biol
, vol.11
, pp. R127
-
-
Capra, J.A.1
Pollard, K.S.2
Singh, M.3
-
48
-
-
0242354129
-
The origin of new genes: glimpses from the young and old
-
Long M, Betran E, Thornton K, Wang W. The origin of new genes: glimpses from the young and old. Nat Rev Genet. 2003;4:865-875.
-
(2003)
Nat Rev Genet
, vol.4
, pp. 865-875
-
-
Long, M.1
Betran, E.2
Thornton, K.3
Wang, W.4
-
50
-
-
80052848466
-
Computational methods for Gene Orthology inference
-
Kristensen DM, Wolf YI, Mushegian AR, Koonin EV. Computational methods for Gene Orthology inference. Brief Bioinform. 2011;12(5):379-391.
-
(2011)
Brief Bioinform
, vol.12
, Issue.5
, pp. 379-391
-
-
Kristensen, D.M.1
Wolf, Y.I.2
Mushegian, A.R.3
Koonin, E.V.4
-
51
-
-
33745022802
-
Benchmarking ortholog identification methods using functional genomics data
-
Hulsen T, Huynen MA, de Vlieg J, Groenen PM. Benchmarking ortholog identification methods using functional genomics data. Genome Biol. 2006;7:R31.
-
(2006)
Genome Biol
, vol.7
, pp. R31
-
-
Hulsen, T.1
Huynen, M.A.2
de Vlieg, J.3
Groenen, P.M.4
-
52
-
-
37849023306
-
Assessing performance of orthology detection strategies applied to eukaryotic genomes
-
Chen F, Mackey AJ, Vermunt JK, Roos DS. Assessing performance of orthology detection strategies applied to eukaryotic genomes. PLoS One. 2007;2:e383.
-
(2007)
PLoS One
, vol.2
-
-
Chen, F.1
Mackey, A.J.2
Vermunt, J.K.3
Roos, D.S.4
-
53
-
-
80052823795
-
Orthology prediction methods: a quality assessment using curated protein families
-
Trachana K, Larsson TA, Powell S, et al. Orthology prediction methods: a quality assessment using curated protein families. Bioessays. 2011;33(10):769-780.
-
(2011)
Bioessays
, vol.33
, Issue.10
, pp. 769-780
-
-
Trachana, K.1
Larsson, T.A.2
Powell, S.3
-
54
-
-
0030660581
-
A genomic perspective on protein families
-
Tatusov RL, Koonin EV, Lipman DJ. A genomic perspective on protein families. Science. 1997;278:631-637.
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.V.2
Lipman, D.J.3
-
55
-
-
0035861990
-
Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
-
Remm M, Storm CE, Sonnhammer EL. Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J Mol Biol. 2001;314:1041-1052.
-
(2001)
J Mol Biol
, vol.314
, pp. 1041-1052
-
-
Remm, M.1
Storm, C.E.2
Sonnhammer, E.L.3
-
56
-
-
0141519279
-
OrthoMCL: identification of ortholog groups for eukaryotic genomes
-
Li L, Stoeckert CJ Jr, Roos DS. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 2003;13:2178-2189.
-
(2003)
Genome Res
, vol.13
, pp. 2178-2189
-
-
Li, L.1
Stoeckert, C.J.2
Roos, D.S.3
-
57
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
Enright AJ, Van Dongen S, Ouzounis CA. An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res. 2002;30:1575-1584.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 1575-1584
-
-
Enright, A.J.1
Van Dongen, S.2
Ouzounis, C.A.3
-
58
-
-
38549177928
-
eggNOG: automated construction and annotation of orthologous groups of genes
-
Jensen LJ, Julien P, Kuhn M, et al. eggNOG: automated construction and annotation of orthologous groups of genes. Nucleic Acids Res. 2008;36(Database issue):D250-D254.
-
(2008)
Nucleic Acids Res
, vol.36
, Issue.DATABASE ISSUE
, pp. D250-D254
-
-
Jensen, L.J.1
Julien, P.2
Kuhn, M.3
-
59
-
-
51749121268
-
OrthoFocus: program for identification of orthologs in multiple genomes in family-focused studies
-
Ivliev AE, Sergeeva MG. OrthoFocus: program for identification of orthologs in multiple genomes in family-focused studies. J Bioinform Comput Biol. 2008;6: 811-824.
-
(2008)
J Bioinform Comput Biol
, vol.6
, pp. 811-824
-
-
Ivliev, A.E.1
Sergeeva, M.G.2
-
61
-
-
84155195008
-
SuperPartitions: detection and classification of orthologs
-
Tekaia F, Yeramian E. SuperPartitions: detection and classification of orthologs. Gene. 2012;492(1):199-211.
-
(2012)
Gene
, vol.492
, Issue.1
, pp. 199-211
-
-
Tekaia, F.1
Yeramian, E.2
-
62
-
-
84938582898
-
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
-
Emms DM, Kelly S. OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy. Genome Biol. 2015;16:157.
-
(2015)
Genome Biol
, vol.16
, pp. 157
-
-
Emms, D.M.1
Kelly, S.2
-
63
-
-
33747817416
-
Roundup: a multi-genome repository of orthologs and evolutionary distances
-
Deluca TF, Wu IH, Pu J, et al. Roundup: a multi-genome repository of orthologs and evolutionary distances. Bioinformatics. 2006;22:2044-2046.
-
(2006)
Bioinformatics
, vol.22
, pp. 2044-2046
-
-
Deluca, T.F.1
Wu, I.H.2
Pu, J.3
-
64
-
-
36549049268
-
Ortholog detection using the reciprocal smallest distance algorithm
-
Wall DP, Deluca T. Ortholog detection using the reciprocal smallest distance algorithm. Methods Mol Biol. 2007;396:95-110.
-
(2007)
Methods Mol Biol
, vol.396
, pp. 95-110
-
-
Wall, D.P.1
Deluca, T.2
-
66
-
-
55249117540
-
An approach of orthology detection from homologous sequences under minimum evolution
-
Kim KM, Sung S, Caetano-Anollés G, Han JY, Kim H. An approach of orthology detection from homologous sequences under minimum evolution. Nucleic Acids Res. 2008;36:e110.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Kim, K.M.1
Sung, S.2
Caetano-Anollés, G.3
Han, J.Y.4
Kim, H.5
-
67
-
-
76749129703
-
MSOAR 2.0: Incorporating tandem duplications into ortholog assignment based on genome rearrangement
-
Shi G, Zhang L, Jiang T. MSOAR 2.0: Incorporating tandem duplications into ortholog assignment based on genome rearrangement. BMC Bioinformatics. 2010; 11:10.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 10
-
-
Shi, G.1
Zhang, L.2
Jiang, T.3
-
68
-
-
79954579960
-
Evaluating ortholog prediction algorithms in a yeast model clade
-
Salichos L, Rokas A. Evaluating ortholog prediction algorithms in a yeast model clade. PLoS One. 2011;6(4):e18755.
-
(2011)
PLoS One
, vol.6
, Issue.4
-
-
Salichos, L.1
Rokas, A.2
-
69
-
-
0036173130
-
Automated ortholog inference from phylogenetic trees and calculation of orthology reliability
-
Storm CE, Sonnhammer EL. Automated ortholog inference from phylogenetic trees and calculation of orthology reliability. Bioinformatics. 2002;18:92-99.
-
(2002)
Bioinformatics
, vol.18
, pp. 92-99
-
-
Storm, C.E.1
Sonnhammer, E.L.2
-
70
-
-
0013017592
-
RIO: analyzing proteomes by automated phylogenomics using resampled inference of orthologs
-
Zmasek CM, Eddy SR. RIO: analyzing proteomes by automated phylogenomics using resampled inference of orthologs. BMC Bioinformatics. 2004;3:14.
-
(2004)
BMC Bioinformatics
, vol.3
, pp. 14
-
-
Zmasek, C.M.1
Eddy, S.R.2
-
71
-
-
33746582319
-
A phylogenomic gene cluster resource: the Phylogenetically Inferred Groups (PhIGs) database
-
Dehal PS, Boore JL. A phylogenomic gene cluster resource: the Phylogenetically Inferred Groups (PhIGs) database. BMC Bioinformatics. 2006;7:201.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 201
-
-
Dehal, P.S.1
Boore, J.L.2
-
72
-
-
33749342164
-
Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and human
-
Goodstadt L, Ponting CP. Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and human. PLoS Comput Biol. 2006;2:e133.
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Goodstadt, L.1
Ponting, C.P.2
-
73
-
-
33644876458
-
TreeFam: a curated database of phylogenetic trees of animal gene families
-
Li H, Coghlan A, Ruan J, et al. TreeFam: a curated database of phylogenetic trees of animal gene families. Nucleic Acids Res. 2006;34(Database issue):D572-D580.
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.DATABASE ISSUE
, pp. D572-D580
-
-
Li, H.1
Coghlan, A.2
Ruan, J.3
-
75
-
-
59949096873
-
EnsemblCompara GeneTrees: complete, duplication-aware phylogenetic trees in vertebrates
-
Vilella AJ, Severin J, Ureta-Vidal A, Heng L, Durbin R, Birney E. EnsemblCompara GeneTrees: complete, duplication-aware phylogenetic trees in vertebrates. Genome Res. 2009;19:327-335.
-
(2009)
Genome Res
, vol.19
, pp. 327-335
-
-
Vilella, A.J.1
Severin, J.2
Ureta-Vidal, A.3
Heng, L.4
Durbin, R.5
Birney, E.6
-
76
-
-
34547844121
-
Automatic genome-wide reconstruction of phylogenetic gene trees
-
Wapinski I, Pfeffer A, Friedman N, Regev A. Automatic genome-wide reconstruction of phylogenetic gene trees. Bioinformatics. 2007;23:i549-i558.
-
(2007)
Bioinformatics
, vol.23
, pp. i549-i558
-
-
Wapinski, I.1
Pfeffer, A.2
Friedman, N.3
Regev, A.4
-
77
-
-
67849116905
-
PHOG: phylofacts orthology group prediction web server
-
Datta RS, Meacham C, Samad B, et al. PHOG: phylofacts orthology group prediction web server. Nucleic Acids Res. 2009;37(Web Server issue):W84-W89.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.WEB SERVER ISSUE
, pp. W84-W89
-
-
Datta, R.S.1
Meacham, C.2
Samad, B.3
-
78
-
-
33645320249
-
COCO-CL: hierarchical clustering of homology relations based on evolutionary correlations
-
Jothi R, Zotenko E, Tasneem A, Przytycka TM. COCO-CL: hierarchical clustering of homology relations based on evolutionary correlations. Bioinformatics. 2006;22:779-788.
-
(2006)
Bioinformatics
, vol.22
, pp. 779-788
-
-
Jothi, R.1
Zotenko, E.2
Tasneem, A.3
Przytycka, T.M.4
-
79
-
-
74049118261
-
Large-scale assignment of orthology: back to phylogenetics?
-
Gabaldón T. Large-scale assignment of orthology: back to phylogenetics? Genome Biol. 2008;9:235.
-
(2008)
Genome Biol
, vol.9
, pp. 235
-
-
Gabaldón, T.1
-
80
-
-
79953307693
-
A comprehensive benchmark study of multiple sequence alignment methods: current challenges and future perspectives
-
Thompson JD, Linard B, Lecompte O, Poch O. A comprehensive benchmark study of multiple sequence alignment methods: current challenges and future perspectives. PLoS One. 2011;6(3):e18093.
-
(2011)
PLoS One
, vol.6
, Issue.3
-
-
Thompson, J.D.1
Linard, B.2
Lecompte, O.3
Poch, O.4
-
81
-
-
34247324752
-
BranchClust: a phylogenetic algorithm for selecting gene families
-
Poptsova MS, Gogarten JP. BranchClust: a phylogenetic algorithm for selecting gene families. BMC Bioinformatics. 2007;8:120.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 120
-
-
Poptsova, M.S.1
Gogarten, J.P.2
-
82
-
-
77950538424
-
Phylogenetic assessment of alignments reveals neglected tree signal in gaps
-
Dessimoz C, Gil M. Phylogenetic assessment of alignments reveals neglected tree signal in gaps. Genome Biol. 2010;11:R37.
-
(2010)
Genome Biol
, vol.11
, pp. R37
-
-
Dessimoz, C.1
Gil, M.2
-
84
-
-
0642340503
-
OrthoParaMap: distinguishing orthologs from paralogs by integrating comparative genome data and gene phylogenies
-
Cannon SB, Young ND. OrthoParaMap: distinguishing orthologs from paralogs by integrating comparative genome data and gene phylogenies. BMC Bioinformatics. 2003;4:35.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 35
-
-
Cannon, S.B.1
Young, N.D.2
-
85
-
-
77956025840
-
Reconstructing gene histories in Ascomycota fungi
-
Wapinski I, Regev A. Reconstructing gene histories in Ascomycota fungi. Methods Enzymol. 2010;470:447-485.
-
(2010)
Methods Enzymol
, vol.470
, pp. 447-485
-
-
Wapinski, I.1
Regev, A.2
-
87
-
-
0034713383
-
Chromosomal evolution in Saccharomyces
-
Fischer G, James SA, Roberts IN, Oliver SG, Louis EJ. Chromosomal evolution in Saccharomyces. Nature. 2000;405:451-454.
-
(2000)
Nature
, vol.405
, pp. 451-454
-
-
Fischer, G.1
James, S.A.2
Roberts, I.N.3
Oliver, S.G.4
Louis, E.J.5
-
88
-
-
39049134682
-
Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data
-
Lemoine F, Lespinet O, Labedan B. Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data. BMC Evol Biol. 2007;7:237.
-
(2007)
BMC Evol Biol
, vol.7
, pp. 237
-
-
Lemoine, F.1
Lespinet, O.2
Labedan, B.3
-
89
-
-
33845670418
-
Quantification of insect genome divergence
-
Zdobnov EM, Bork P. Quantification of insect genome divergence. Trends Genet. 2007;23:16-20.
-
(2007)
Trends Genet
, vol.23
, pp. 16-20
-
-
Zdobnov, E.M.1
Bork, P.2
-
90
-
-
70349490066
-
Comparative genomics of protoploid Saccharomycetaceae
-
Souciet JL, Dujon B, Gaillardin C, et al. Comparative genomics of protoploid Saccharomycetaceae. Genome Res. 2009;19:1696-1709.
-
(2009)
Genome Res
, vol.19
, pp. 1696-1709
-
-
Souciet, J.L.1
Dujon, B.2
Gaillardin, C.3
-
91
-
-
15944400987
-
Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs
-
Zheng XH, Lu F, Wang Z, Zhong F, Hoover J, Mural R. Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs. Bioinformatics. 2005;21:703-710.
-
(2005)
Bioinformatics
, vol.21
, pp. 703-710
-
-
Zheng, X.H.1
Lu, F.2
Wang, Z.3
Zhong, F.4
Hoover, J.5
Mural, R.6
-
92
-
-
68149122283
-
Automated identification of conserved synteny after whole-genome duplication
-
Catchen JM, Conery JS, Postlethwait JH. Automated identification of conserved synteny after whole-genome duplication. Genome Res. 2009;19:1497-1505.
-
(2009)
Genome Res
, vol.19
, pp. 1497-1505
-
-
Catchen, J.M.1
Conery, J.S.2
Postlethwait, J.H.3
-
93
-
-
33644875753
-
Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser
-
Byrne KP, Wolfe KH. Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser. Nucleic Acids Res. 2006;34(Database issue):D452-D455.
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.DATABASE ISSUE
, pp. D452-D455
-
-
Byrne, K.P.1
Wolfe, K.H.2
-
94
-
-
70449510475
-
Combined phylogeny and neighbourhood analysis of the evolution of the ABC transporters conferring multiple drug resistance in hemiascomycete yeasts
-
Seret ML, Diffels JF, Goffeau A, Baret PV. Combined phylogeny and neighbourhood analysis of the evolution of the ABC transporters conferring multiple drug resistance in hemiascomycete yeasts. BMC Genomics. 2009;10:459.
-
(2009)
BMC Genomics
, vol.10
, pp. 459
-
-
Seret, M.L.1
Diffels, J.F.2
Goffeau, A.3
Baret, P.V.4
-
95
-
-
3142592324
-
Methods in comparative genomics: Genome correspondence, gene identification and regulatory motif discovery
-
Kellis M, Patterson N, Birren B, Berger B, Lander ES. Methods in comparative genomics: Genome correspondence, gene identification and regulatory motif discovery. J Comput Biol. 2004;11:319-355.
-
(2004)
J Comput Biol
, vol.11
, pp. 319-355
-
-
Kellis, M.1
Patterson, N.2
Birren, B.3
Berger, B.4
Lander, E.S.5
-
96
-
-
25844471721
-
The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species
-
Byrne KP, Wolfe KH. The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res. 2005;15:1456-1461.
-
(2005)
Genome Res
, vol.15
, pp. 1456-1461
-
-
Byrne, K.P.1
Wolfe, K.H.2
-
98
-
-
49549106251
-
Improved network-based identification of protein orthologs
-
Yosef N, Sharan R, Noble WS. Improved network-based identification of protein orthologs. Bioinformatics. 2008;24:i200-i206.
-
(2008)
Bioinformatics
, vol.24
, pp. i200-i206
-
-
Yosef, N.1
Sharan, R.2
Noble, W.S.3
-
99
-
-
77952278454
-
Detection of gene orthology from gene coexpression and protein interaction networks
-
Towfic F, VanderPlas S, Oliver CA, et al. Detection of gene orthology from gene coexpression and protein interaction networks. BMC Bioinformatics. 2010;11(suppl 3):S7.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. S7
-
-
Towfic, F.1
VanderPlas, S.2
Oliver, C.A.3
-
100
-
-
78651317907
-
IsoBase: a database of functionally related proteins across PPI networks
-
Park D, Singh R, Baym M, Liao CS, Berger B. IsoBase: a database of functionally related proteins across PPI networks. Nucleic Acids Res. 2011;39(Database issue):D295-D300.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.DATABASE ISSUE
, pp. D295-D300
-
-
Park, D.1
Singh, R.2
Baym, M.3
Liao, C.S.4
Berger, B.5
-
101
-
-
80053212413
-
Ortholog identification in the presence of domain architecture rearrangement
-
Sjolander K, Datta RS, Shen Y, Shoffner GM. Ortholog identification in the presence of domain architecture rearrangement. Brief Bioinform. 2011;12:413-422.
-
(2011)
Brief Bioinform
, vol.12
, pp. 413-422
-
-
Sjolander, K.1
Datta, R.S.2
Shen, Y.3
Shoffner, G.M.4
-
102
-
-
84901608044
-
Improvement of domain-level ortholog clustering by optimizing domain-specific sum-of-pairs score
-
Chiba H, Uchiyama I. Improvement of domain-level ortholog clustering by optimizing domain-specific sum-of-pairs score. BMC Bioinformatics. 2014;15:148.
-
(2014)
BMC Bioinformatics
, vol.15
, pp. 148
-
-
Chiba, H.1
Uchiyama, I.2
-
105
-
-
77953754620
-
Yeast evolutionary genomics
-
Dujon B. Yeast evolutionary genomics. Nat Rev Genet. 2010;11:512-524.
-
(2010)
Nat Rev Genet
, vol.11
, pp. 512-524
-
-
Dujon, B.1
-
106
-
-
77953197833
-
2x genomes-depth does matter
-
Milinkovitch MC, Helaers R, Depiereux E, Tzika AC, Gabaldón T. 2x genomes-depth does matter. Genome Biol. 2010;11:R16.
-
(2010)
Genome Biol
, vol.11
, pp. R16
-
-
Milinkovitch, M.C.1
Helaers, R.2
Depiereux, E.3
Tzika, A.C.4
Gabaldón, T.5
-
107
-
-
79958073627
-
Model organisms for genetics in the domain archaea: methanogens, halophiles, thermococcales and sulfolobales
-
Leigh JA, Albers SV, Atomi H, Allers T. Model organisms for genetics in the domain archaea: methanogens, halophiles, thermococcales and sulfolobales. FEMS Microbiol Rev. 2011;35(4):577-608.
-
(2011)
FEMS Microbiol Rev
, vol.35
, Issue.4
, pp. 577-608
-
-
Leigh, J.A.1
Albers, S.V.2
Atomi, H.3
Allers, T.4
-
109
-
-
85172547480
-
-
1000 Genomes Project. 2015. Available at: http://www.1000genomes.org/
-
(2015)
-
-
-
110
-
-
85172548622
-
-
1001 Genomes Project. 2015. Available at: http://www.1001genomes.org/
-
(2015)
-
-
-
112
-
-
68349157380
-
Insertion of horizontally transferred genes within conserved syntenic regions of yeast genomes
-
Rolland T, Neuvéglise C, Sacerdot C, Dujon B. Insertion of horizontally transferred genes within conserved syntenic regions of yeast genomes. PLoS One. 2009;4:e6515.
-
(2009)
PLoS One
, vol.4
-
-
Rolland, T.1
Neuvéglise, C.2
Sacerdot, C.3
Dujon, B.4
-
113
-
-
67149106149
-
Additions, losses, and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome
-
Gordon JL, Byrne KP, Wolfe KH. Additions, losses, and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome. PLoS Genet. 2009;5:e1000485.
-
(2009)
PLoS Genet
, vol.5
-
-
Gordon, J.L.1
Byrne, K.P.2
Wolfe, K.H.3
-
114
-
-
68949207909
-
Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model
-
Csurös M, Miklós I. Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model. Mol Biol Evol. 2009;26: 2087-2095.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 2087-2095
-
-
Csurös, M.1
Miklós, I.2
-
115
-
-
77958065555
-
Yeast ancestral genome reconstructions: the possibilities of computational methods II
-
Chauve C, Gavranovic H, Ouangraoua A, Tannier E. Yeast ancestral genome reconstructions: the possibilities of computational methods II. J Comput Biol. 2010;17:1097-1112.
-
(2010)
J Comput Biol
, vol.17
, pp. 1097-1112
-
-
Chauve, C.1
Gavranovic, H.2
Ouangraoua, A.3
Tannier, E.4
-
116
-
-
75749121403
-
Some algorithmic challenges in genome-wide ortholog assignment
-
Jiang T. Some algorithmic challenges in genome-wide ortholog assignment. J Comput Sci Technol. 2010;25:42-52.
-
(2010)
J Comput Sci Technol
, vol.25
, pp. 42-52
-
-
Jiang, T.1
-
118
-
-
77955885762
-
The effect of recombination on the reconstruction of ancestral sequences
-
Arenas M, Posada D. The effect of recombination on the reconstruction of ancestral sequences. Genetics. 2010;184(4):1133-1139.
-
(2010)
Genetics
, vol.184
, Issue.4
, pp. 1133-1139
-
-
Arenas, M.1
Posada, D.2
-
119
-
-
84896730564
-
Reconstructed ancestral myo-inositol-3-phosphate synthases indicate that ancestors of the Thermococcales and Thermotoga species were more thermophilic than their descendants
-
Butzin NC, Lapierre P, Green AG, Swithers KS, Gogarten JP, Noll KM. Reconstructed ancestral myo-inositol-3-phosphate synthases indicate that ancestors of the Thermococcales and Thermotoga species were more thermophilic than their descendants. PLoS One. 2013;8:e84300.
-
(2013)
PLoS One
, vol.8
-
-
Butzin, N.C.1
Lapierre, P.2
Green, A.G.3
Swithers, K.S.4
Gogarten, J.P.5
Noll, K.M.6
-
120
-
-
84900832991
-
Phenotypic comparisons of consensus variants versus laboratory resurrections of Precambrian proteins
-
Risso VA, Gavira JA, Gaucher EA, Sanchez-Ruiz JM. Phenotypic comparisons of consensus variants versus laboratory resurrections of Precambrian proteins. Proteins. 2014;82:887-896.
-
(2014)
Proteins
, vol.82
, pp. 887-896
-
-
Risso, V.A.1
Gavira, J.A.2
Gaucher, E.A.3
Sanchez-Ruiz, J.M.4
-
121
-
-
46449130540
-
Evolution. Building the tree of life, genome by genome
-
Pennisi E. Evolution. Building the tree of life, genome by genome. Science. 2008; 320:1716-1717.
-
(2008)
Science
, vol.320
, pp. 1716-1717
-
-
Pennisi, E.1
-
122
-
-
79952524392
-
Human genome 10th anniversary. Tracing the tree of life
-
Pennisi E. Human genome 10th anniversary. Tracing the tree of life. Science. 2011; 331:1005-1006.
-
(2011)
Science
, vol.331
, pp. 1005-1006
-
-
Pennisi, E.1
-
123
-
-
33645981936
-
A hybrid micro-macroevolutionary approach to gene tree reconstruction
-
Durand D, Halldorsson BV, Vernot B. A hybrid micro-macroevolutionary approach to gene tree reconstruction. J Comput Biol. 2005;13:320-335.
-
(2005)
J Comput Biol
, vol.13
, pp. 320-335
-
-
Durand, D.1
Halldorsson, B.V.2
Vernot, B.3
-
125
-
-
43549083961
-
Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants
-
Conte MG, Gaillard S, Droc G, Perin C. Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants. BMC Genomics. 2008;9:183.
-
(2008)
BMC Genomics
, vol.9
, pp. 183
-
-
Conte, M.G.1
Gaillard, S.2
Droc, G.3
Perin, C.4
-
126
-
-
70349413154
-
Probabilistic orthology analysis
-
Sennblad B, Lagergren J. Probabilistic orthology analysis. Syst Biol. 2009;58: 411-424.
-
(2009)
Syst Biol
, vol.58
, pp. 411-424
-
-
Sennblad, B.1
Lagergren, J.2
-
127
-
-
77953187312
-
GIGA: a simple, efficient algorithm for gene tree inference in the genomic age
-
Thomas PD. GIGA: a simple, efficient algorithm for gene tree inference in the genomic age. BMC Bioinformatics. 2010;11:312.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 312
-
-
Thomas, P.D.1
-
128
-
-
78651298101
-
Consistency properties of species tree inference by minimizing deep coalescences
-
Than CV, Rosenberg NA. Consistency properties of species tree inference by minimizing deep coalescences. J Comput Biol. 2011;18:1-15.
-
(2011)
J Comput Biol
, vol.18
, pp. 1-15
-
-
Than, C.V.1
Rosenberg, N.A.2
-
129
-
-
77954927657
-
Palaeophylogenomics of the vertebrate ancestor-impact of hidden paralogy on hagfish and lamprey gene phylogeny
-
Kuraku S. Palaeophylogenomics of the vertebrate ancestor-impact of hidden paralogy on hagfish and lamprey gene phylogeny. Integr Comp Biol. 2010;50: 124-129.
-
(2010)
Integr Comp Biol
, vol.50
, pp. 124-129
-
-
Kuraku, S.1
-
130
-
-
35448938494
-
Tracing the first step to speciation: ecological and genetic differentiation of a salamander population in a small forest
-
Steinfartz S, Weitere M, Tautz D. Tracing the first step to speciation: ecological and genetic differentiation of a salamander population in a small forest. Mol Ecol. 2007;16:4550-4561.
-
(2007)
Mol Ecol
, vol.16
, pp. 4550-4561
-
-
Steinfartz, S.1
Weitere, M.2
Tautz, D.3
-
131
-
-
65449142156
-
How confident can we be that orthologs are similar, but paralogs differ?
-
Studer RA, Robinson-Rechavi M. How confident can we be that orthologs are similar, but paralogs differ? Trends Genet. 2009;25:210-216.
-
(2009)
Trends Genet
, vol.25
, pp. 210-216
-
-
Studer, R.A.1
Robinson-Rechavi, M.2
-
133
-
-
84949277196
-
Macrotene chromosomes provide insights to a new mechanism of high-order gene amplification in eukaryotes
-
Thierry A, Khanna V, Créno S, et al. Macrotene chromosomes provide insights to a new mechanism of high-order gene amplification in eukaryotes. Nat Commun. 2015;6:6154.
-
(2015)
Nat Commun
, vol.6
, pp. 6154
-
-
Thierry, A.1
Khanna, V.2
Créno, S.3
-
134
-
-
53349117774
-
High-quality binary protein interaction map of the yeast interactome network
-
Yu H, Braun P, Yildirim MA, et al. High-quality binary protein interaction map of the yeast interactome network. Science. 2008;322:104-110.
-
(2008)
Science
, vol.322
, pp. 104-110
-
-
Yu, H.1
Braun, P.2
Yildirim, M.A.3
-
135
-
-
66349085886
-
Evolutionary constraints on structural similarity in orthologs and paralogs
-
Peterson ME, Chen F, Saven JG, Roos DS, Babbitt PC, Andrej Sali A. Evolutionary constraints on structural similarity in orthologs and paralogs. Protein Sci. 2009;18:1306-1315.
-
(2009)
Protein Sci
, vol.18
, pp. 1306-1315
-
-
Peterson, M.E.1
Chen, F.2
Saven, J.G.3
Roos, D.S.4
Babbitt, P.C.5
Andrej Sali, A.6
-
137
-
-
84876665869
-
Functional and evolutionary implications of gene orthology
-
Gabaldón T, Koonin EV. Functional and evolutionary implications of gene orthology. Nat Rev Genet. 2013;14(5):360-366.
-
(2013)
Nat Rev Genet
, vol.14
, Issue.5
, pp. 360-366
-
-
Gabaldón, T.1
Koonin, E.V.2
-
138
-
-
74549156448
-
Joining forces in the quest for orthologs
-
Gabaldón T, Dessimoz C, Huxley-Jones J, Vilella AJ, Sonnhammer EL, Lewis S. Joining forces in the quest for orthologs. Genome Biol. 2009;10:403.
-
(2009)
Genome Biol
, vol.10
, pp. 403
-
-
Gabaldón, T.1
Dessimoz, C.2
Huxley-Jones, J.3
Vilella, A.J.4
Sonnhammer, E.L.5
Lewis, S.6
-
139
-
-
84934300828
-
A phylogeny-based benchmarking test for orthology inference reveals the limitations of function-based validation
-
Trachana K, Forslund K, Larsson T, et al. A phylogeny-based benchmarking test for orthology inference reveals the limitations of function-based validation. PLoS One. 2014;9(11):e111122.
-
(2014)
PLoS One
, vol.9
, Issue.11
-
-
Trachana, K.1
Forslund, K.2
Larsson, T.3
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