-
2
-
-
0000281405
-
Monophyly or polyphyly of the order Rodentia: Possible conflict between morphological and molecular interpretations
-
10.1007/BF01041591
-
Monophyly or polyphyly of the order Rodentia: possible conflict between morphological and molecular interpretations. WP Luckett J-L Hartenberger, J Mammal Evol 1993 1 2 127 147 10.1007/BF01041591
-
(1993)
J Mammal Evol
, vol.1
, Issue.2
, pp. 127-147
-
-
Luckett, W.P.1
Hartenberger, J.-L.2
-
3
-
-
0001842636
-
The order Rodentia: Major questions on their evolutionary origin, relationships and suprafamilial systematics
-
New York and London, Plenum Press Luckett WP, Hartenberger J-L
-
The order Rodentia: major questions on their evolutionary origin, relationships and suprafamilial systematics. J-L Hartenberger, Evolutionary relationships among rodents: a multidisciplinary analysis New York and London, Plenum Press, Luckett WP, Hartenberger J-L, 1985 1 33
-
(1985)
Evolutionary Relationships among Rodents: A Multidisciplinary Analysis
, pp. 1-33
-
-
Hartenberger, J.-L.1
-
5
-
-
0001217831
-
Rodent phylogeny: New data and old problems
-
Oxford, Clarendon Press Benton MJ
-
Rodent phylogeny: new data and old problems. J-J Jaeger, The phylogeny and classification of the Tetrapods Oxford, Clarendon Press, Benton MJ, 1988 2 177 199
-
(1988)
The Phylogeny and Classification of the Tetrapods
, vol.2
, pp. 177-199
-
-
Jaeger, J.-J.1
-
6
-
-
0002520775
-
Beiträge zur nahern Kenntniss der Säugethiere Russlands
-
Beiträge zur nahern Kenntniss der Säugethiere Russlands. JF Brandt, Mem Acad Imp St Petersbourg Ser 1855 69 1 375
-
(1855)
Mem Acad Imp St Petersbourg ser
, vol.69
, pp. 1-375
-
-
Brandt, J.F.1
-
7
-
-
0000599391
-
Possible evolutionary relationships among Eocene and Lower Oligocene rodents of Asia, Europe and North America
-
New York and London, Plenum Press Luckett WP, Hartenberger J-L
-
Possible evolutionary relationships among Eocene and Lower Oligocene rodents of Asia, Europe and North America. M Vianey-Liaud, Evolutionary relationships among rodents: a multidisciplinary analysis New York and London, Plenum Press, Luckett WP, Hartenberger J-L, 1985 277 309
-
(1985)
Evolutionary Relationships among Rodents: A Multidisciplinary Analysis
, pp. 277-309
-
-
Vianey-Liaud, M.1
-
8
-
-
4544232196
-
High-level phylogeny of early Tertiary rodents: Dental evidence
-
DOI 10.1111/j.1096-3642.2004.00131.x
-
High-level phylogeny of early Tertiary rodents: dental evidence. L Marivaux M Vianey-Liaud JJ Jaeger, Zool J Linn Soc 2004 142 1 105 134 10.1111/j.1096-3642.2004.00131.x (Pubitemid 39252071)
-
(2004)
Zoological Journal of the Linnean Society
, vol.142
, Issue.1
, pp. 105-134
-
-
Marivaux, L.1
Vianey-Liaud, M.2
Jaeger, J.-J.3
-
9
-
-
0002721768
-
Ueber das System der Nagetiere: Eine phylogenetische Studie
-
Ueber das System der Nagetiere: Eine phylogenetische Studie. T Tullberg, Nova Acta Reg Soc Sci Upsala Ser3 1899 18 1 514
-
(1899)
Nova Acta Reg Soc Sci Upsala Ser3
, vol.18
, pp. 1-514
-
-
Tullberg, T.1
-
10
-
-
0003014527
-
Evolutionary relationships among rodents: Comment and conclusions
-
New York and London, Plenum Press Luckett WP, Hartenberger J-L
-
Evolutionary relationships among rodents: comment and conclusions. WP Luckett J-L Hartenberger, Evolutionary relationships among rodents: a multidisciplinary analysis New York and London, Plenum Press, Luckett WP, Hartenberger J-L, 1985 227 276
-
(1985)
Evolutionary Relationships among Rodents: A Multidisciplinary Analysis
, pp. 227-276
-
-
Luckett, W.P.1
Hartenberger, J.-L.2
-
12
-
-
0029993941
-
The guinea pig is not a rodent
-
DOI 10.1038/381597a0
-
The guinea-pig is not a rodent. AM D'Erchia C Gissi G Pesole C Saccone U Arnason, Nature 1996 381 597 600 10.1038/381597a0 8637593 (Pubitemid 26177473)
-
(1996)
Nature
, vol.381
, Issue.6583
, pp. 597-600
-
-
D'Erchia, A.M.1
Gissi, C.2
Pesole, G.3
Saccone, C.4
Arnason, U.5
-
13
-
-
0026428609
-
Is the guinea-pig a rodent?
-
10.1038/351649a0 2052090
-
Is the guinea-pig a rodent? D Graur WA Hide W-H Li, Nature 1991 351 649 652 10.1038/351649a0 2052090
-
(1991)
Nature
, vol.351
, pp. 649-652
-
-
Graur, D.1
Hide, W.A.2
Li, W.-H.3
-
15
-
-
0041138924
-
Reply from D. Graur
-
10.1016/0169-5347(93)90247-M
-
Reply from D. Graur. D Graur, Trends Ecol Evol 1993 8 341 342 10.1016/0169-5347(93)90247-M
-
(1993)
Trends Ecol Evol
, vol.8
, pp. 341-342
-
-
Graur, D.1
-
16
-
-
0039951965
-
Mammalian phylogeny: Morphology and molecules
-
10.1016/0169-5347(93)90245-K
-
Mammalian phylogeny: morphology and molecules. MJ Novacek, Trends Ecol Evol 1993 8 339 340 10.1016/0169-5347(93)90245-K
-
(1993)
Trends Ecol Evol
, vol.8
, pp. 339-340
-
-
Novacek, M.J.1
-
17
-
-
0039359641
-
Mammalian phylogeny: Morphology and molecules
-
10.1016/0169-5347(93)90246-L
-
Mammalian phylogeny: morphology and molecules. FM Catzeflis, Trends Ecol Evol 1993 8 340 341 10.1016/0169-5347(93)90246-L
-
(1993)
Trends Ecol Evol
, vol.8
, pp. 340-341
-
-
Catzeflis, F.M.1
-
18
-
-
0031301965
-
Rodent monophyly: Pitfalls of molecular phylogenies
-
Rodent monophyly: pitfalls of molecular phylogenies. H Philippe, J Mol Evol 1997 45 712 715 9419251 (Pubitemid 128713338)
-
(1997)
Journal of Molecular Evolution
, vol.45
, Issue.6
, pp. 712-715
-
-
Philippe, H.1
-
19
-
-
0002618746
-
Are Guinea Pigs Rodents? the Importance of Adequate Models in Molecular Phylogenetics
-
Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics. J Sullivan DL Swofford, J Mammal Evol 1997 4 2 77 86 10.1023/A:1027314112438 (Pubitemid 127125190)
-
(1997)
Journal of Mammalian Evolution
, vol.4
, Issue.2
, pp. 77-86
-
-
Sullivan, J.1
Swofford, D.L.2
-
20
-
-
0035252080
-
Molecular phylogenetics and the origins of placental mammals
-
DOI 10.1038/35054550
-
Molecular phylogenetics and the origins of placental mammals. WJ Murphy E Eizirik WE Johnson YP Zhang OA Ryder SJ O'Brien, Nature 2001 409 614 618 10.1038/35054550 11214319 (Pubitemid 32154812)
-
(2001)
Nature
, vol.409
, Issue.6820
, pp. 614-618
-
-
Murphy, W.J.1
Eizirik, E.2
Johnson, W.E.3
Zhang, Y.P.4
Ryder, O.A.5
O'Brien, S.J.6
-
21
-
-
0035861441
-
Resolution of the early placental mammal radiation using bayesian phylogenetics
-
DOI 10.1126/science.1067179
-
Resolution of the early placental mammal radiation using Bayesian phylogenetics. WJ Murphy E Eizirik SJ O'Brien O Madsen M Scally CJ Douady E Teeling OA Ryder MJ Stanhope WW de Jong, Science 2001 294 5550 2348 2351 10.1126/science.1067179 11743200 (Pubitemid 33140557)
-
(2001)
Science
, vol.294
, Issue.5550
, pp. 2348-2351
-
-
Murphy, W.J.1
Eizirik, E.2
O'Brien, S.J.3
Madsen, O.4
Scally, M.5
Douady, C.J.6
Teeling, E.7
Ryder, O.A.8
Stanhope, M.J.9
De Jong, W.W.10
Springer, M.S.11
-
22
-
-
0034701104
-
Variance of molecular datings, evolution of rodents and the phylogenetic affinities between Ctenodactylidae and Hystricognathi
-
Variance of molecular datings, evolution of rodents, and the phylogenetic affinities between Ctenodactylidae and Hystricognathi. D Huchon FM Catzeflis EJP Douzery, Proc Biol Sci 2000 267 1441 393 402 10.1098/rspb.2000.1014 10722222 (Pubitemid 30133064)
-
(2000)
Proceedings of the Royal Society B: Biological Sciences
, vol.267
, Issue.1441
, pp. 393-402
-
-
Huchon, D.1
Catzeflis, F.M.2
Douzery, E.J.P.3
-
23
-
-
1542376765
-
Congruent Mammalian Trees from Mitochondrial and Nuclear Genes Using Bayesian Methods
-
DOI 10.1093/molbev/msh033
-
Congruent mammalian trees from mitochondrial and nuclear genes using Bayesian methods. A Reyes C Gissi F Catzeflis E Nevo G Pesole C Saccone, Mol Biol Evol 2004 21 2 397 403 10.1093/molbev/msh033 14660685 (Pubitemid 38314627)
-
(2004)
Molecular Biology and Evolution
, vol.21
, Issue.2
, pp. 397-403
-
-
Reyes, A.1
Gissi, C.2
Catzeflis, F.3
Nevo, E.4
Pesole, G.5
Saccone, C.6
-
24
-
-
33847091208
-
Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus
-
DOI 10.1186/1471-2148-7-16
-
Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus. DS Horner K Lefkimmiatis A Reyes C Gissi C Saccone G Pesole, BMC Evol Biol 2007 7 16 17288612 10.1186/1471-2148-7-16 (Pubitemid 46281218)
-
(2007)
BMC Evolutionary Biology
, vol.7
, pp. 16
-
-
Horner, D.S.1
Lefkimmiatis, K.2
Reyes, A.3
Gissi, C.4
Saccone, C.5
Pesole, G.6
-
25
-
-
0037355121
-
Higher-level systematics of rodents and divergence time estimates based on two congruent nuclear genes
-
DOI 10.1016/S1055-7903(02)00304-4
-
Higher-level systematics of rodents and divergence time estimates based on two congruent nuclear genes. RM Adkins AH Walton RL Honeycutt, Mol Phylogenet Evol 2003 26 3 409 420 10.1016/S1055-7903(02)00304-4 12644400 (Pubitemid 36386498)
-
(2003)
Molecular Phylogenetics and Evolution
, vol.26
, Issue.3
, pp. 409-420
-
-
Adkins, R.M.1
Walton, A.H.2
Honeycutt, R.L.3
-
26
-
-
0035028769
-
Molecular phylogeny and divergence time estimates for major rodent groups: Evidence from multiple genes
-
Molecular phylogeny and divergence time estimates for major rodent groups: evidence from multiple genes. RM Adkins EL Gelke D Rowe RL Honeycutt, Mol Biol Evol 2001 18 5 777 791 11319262 (Pubitemid 32372948)
-
(2001)
Molecular Biology and Evolution
, vol.18
, Issue.5
, pp. 777-791
-
-
Adkins, R.M.1
Gelke, E.L.2
Rowe, D.3
Honeycutt, R.L.4
-
27
-
-
0036365466
-
Molecular systematics of Sciurognathi (Rodentia): The mitochondrial cytochrome b and 12S rRNA genes support the Anomaluroidea (Pedetidae and Anomaluridae)
-
10.1006/mpev.2001.1056 11820843
-
Molecular systematics of Sciurognathi (Rodentia): The mitochondrial cytochrome b and 12S rRNA genes support the Anomaluroidea (Pedetidae and Anomaluridae). C Montgelard S Bentz C Tirard O Verneau FM Catzeflis, Mol Phylogenet Evol 2002 22 2 220 233 10.1006/mpev.2001.1056 11820843
-
(2002)
Mol Phylogenet Evol
, vol.22
, Issue.2
, pp. 220-233
-
-
Montgelard, C.1
Bentz, S.2
Tirard, C.3
Verneau, O.4
Catzeflis, F.M.5
-
28
-
-
0034783678
-
Phylogeny of Rodentia (mammalia) inferred from the nuclear-encoded gene IRBP
-
DOI 10.1006/mpev.2001.0945
-
Phylogeny of Rodentia (Mammalia) inferred from the nuclear-encoded gene IRBP. RW DeBry RM Sagel, Mol Phylogenet Evol 2001 19 2 290 301 10.1006/mpev.2001.0945 11341810 (Pubitemid 33001678)
-
(2001)
Molecular Phylogenetics and Evolution
, vol.19
, Issue.2
, pp. 290-301
-
-
Debry, R.W.1
Sagel, R.M.2
-
29
-
-
34250627653
-
Multiple molecular evidences for a living mammalian fossil
-
DOI 10.1073/pnas.0701289104
-
Multiple molecular evidences for a living mammalian fossil. D Huchon P Chevret U Jordan CW Kilpatrick V Ranwez PD Jenkins J Brosius J Schmitz, Proc Natl Acad Sci USA 2007 104 18 7495 7499 17452635 10.1073/pnas.0701289104 (Pubitemid 47185934)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.18
, pp. 7495-7499
-
-
Huchon, D.1
Chevret, P.2
Jordan, U.3
Kilpatrick, C.W.4
Ranwez, V.5
Jenkins, P.D.6
Brosius, J.7
Schmitz, J.8
-
30
-
-
0035986875
-
Rodent phylogeny and a timescale for the evolution of glires: Evidence from an extensive taxon sampling using three nuclear genes
-
Rodent phylogeny and a timescale for the evolution of glires: evidence from an extensive taxon sampling using three nuclear genes. D Huchon O Madsen MJJB Sibbald K Ament M Stanhope F Catzeflis WW De Jong EJP Douzery, Mol Biol Evol 2002 19 7 1053 1065 12082125 (Pubitemid 34743230)
-
(2002)
Molecular Biology and Evolution
, vol.19
, Issue.7
, pp. 1053-1065
-
-
Huchon, D.1
Madsen, O.2
Sibbald, M.J.J.B.3
Ament, K.4
Stanhope, M.J.5
Catzeflis, F.6
De Jong, W.W.7
Douzery, E.J.P.8
-
31
-
-
0242487521
-
Identifying Conflicting Signal in a Multigene Analysis Reveals a Highly Resolved Tree: The Phylogeny of Rodentia (Mammalia)
-
DOI 10.1080/10635150390235403
-
Identifying conflicting signal in a multigene analysis reveals a highly resolved tree: The phylogeny of Rodentia (Mammalia). RW DeBry, Syst Biol 2003 52 5 604 617 10.1080/10635150390235403 14530129 (Pubitemid 37365043)
-
(2003)
Systematic Biology
, vol.52
, Issue.5
, pp. 604-617
-
-
Debry, R.W.1
-
32
-
-
58149289890
-
Suprafamilial relationships among Rodentia and the phylogenetic effect of removing fast-evolving nucleotides in mitochondrial, exon and intron fragments
-
19036132 10.1186/1471-2148-8-321
-
Suprafamilial relationships among Rodentia and the phylogenetic effect of removing fast-evolving nucleotides in mitochondrial, exon and intron fragments. C Montgelard E Forty V Arnal CA Matthee, BMC Evol Biol 2008 8 321 19036132 10.1186/1471-2148-8-321
-
(2008)
BMC Evol Biol
, vol.8
, pp. 321
-
-
Montgelard, C.1
Forty, E.2
Arnal, V.3
Matthee, C.A.4
-
33
-
-
33847656285
-
Detecting and overcoming systematic Errors in genome-scale phylogenies
-
DOI 10.1080/10635150701397643, PII 778977148
-
Detecting and overcoming systematic errors in genome-scale phylogenies. N Rodriguez-Ezpeleta H Brinkmann B Roure N Lartillot BF Lang H Philippe, Syst Biol 2007 56 3 389 399 10.1080/10635150701397643 17520503 (Pubitemid 46826902)
-
(2007)
Systematic Biology
, vol.56
, Issue.3
, pp. 389-399
-
-
Rodreguez-Ezpeleta, N.1
Brinkmann, H.2
Roure, B.3
Lartillot, N.4
Lang, B.F.5
Philippe, H.6
-
34
-
-
2442691520
-
A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process
-
DOI 10.1093/molbev/msh112
-
A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process. N Lartillot H Philippe, Mol Biol Evol 2004 21 6 1095 1109 10.1093/molbev/msh112 15014145 (Pubitemid 38658218)
-
(2004)
Molecular Biology and Evolution
, vol.21
, Issue.6
, pp. 1095-1109
-
-
Lartillot, N.1
Philippe, H.2
-
36
-
-
33646237451
-
Automated scanning for phylogenetically informative transposed elements in rodents
-
10.1080/10635150601064806 17345675
-
Automated scanning for phylogenetically informative transposed elements in rodents. A Farwick U Jordan G Fuellen D Huchon F Catzeflis J Brosius J Schmitz, Syst Biol 2006 55 6 936 948 10.1080/10635150601064806 17345675
-
(2006)
Syst Biol
, vol.55
, Issue.6
, pp. 936-948
-
-
Farwick, A.1
Jordan, U.2
Fuellen, G.3
Huchon, D.4
Catzeflis, F.5
Brosius, J.6
Schmitz, J.7
-
37
-
-
0001900958
-
Phylogenetic analyses of middle ear features in fossil and living rodents
-
New York and London, Plenum Press Luckett WP, Hartenberger J-L
-
Phylogenetic analyses of middle ear features in fossil and living rodents. R Lavocat J-P Parent, Evolutionary relationships among rodents: a multidisciplinary analysis New York and London, Plenum Press, Luckett WP, Hartenberger J-L, 1985 333 354
-
(1985)
Evolutionary Relationships among Rodents: A Multidisciplinary Analysis
, pp. 333-354
-
-
Lavocat, R.1
Parent, J.-P.2
-
38
-
-
0000507221
-
Systematic value of the carotid arterial pattern in rodents
-
New York and London, Plenum Press Luckett WP, Hartenberger J-L
-
Systematic value of the carotid arterial pattern in rodents. J Bugge, Evolutionary relationships among rodents: a multidisciplinary analysis New York and London, Plenum Press, Luckett WP, Hartenberger J-L, 1985 381 402
-
(1985)
Evolutionary Relationships among Rodents: A Multidisciplinary Analysis
, pp. 381-402
-
-
Bugge, J.1
-
39
-
-
0028513079
-
Molecular systematics of the hystricognath rodents: Evidence from the mitochondrial 12S rRNA gene
-
10.1006/mpev.1994.1023 7820285
-
Molecular systematics of the hystricognath rodents: evidence from the mitochondrial 12S rRNA gene. MA Nedbal MW Allard RL Honeycutt, Mol Phylogenet Evol 1994 3 3 206 220 10.1006/mpev.1994.1023 7820285
-
(1994)
Mol Phylogenet Evol
, vol.3
, Issue.3
, pp. 206-220
-
-
Nedbal, M.A.1
Allard, M.W.2
Honeycutt, R.L.3
-
40
-
-
0034886217
-
From the Old World to the New World: A molecular chronicle of the phylogeny and biogeography of hystricognath rodents
-
DOI 10.1006/mpev.2001.0961
-
From the old-world to the new-world: a molecular chronicle of the phylogeny and biogeography of hystricognath rodents. D Huchon EJP Douzery, Mol Phylogenet Evol 2001 20 2 238 251 10.1006/mpev.2001.0961 11476632 (Pubitemid 32745271)
-
(2001)
Molecular Phylogenetics and Evolution
, vol.20
, Issue.2
, pp. 238-251
-
-
Huchon, D.1
Douzery, E.J.P.2
-
41
-
-
33745001667
-
Arrival and diversification of caviomorph rodents and platyrrhine primates in South America
-
10.1080/10635150500481390 16551580
-
Arrival and diversification of caviomorph rodents and platyrrhine primates in South America. C Poux P Chevret D Huchon WW de Jong EJP Douzery, Syst Biol 2006 55 2 228 244 10.1080/10635150500481390 16551580
-
(2006)
Syst Biol
, vol.55
, Issue.2
, pp. 228-244
-
-
Poux, C.1
Chevret, P.2
Huchon, D.3
De Jong, W.W.4
Douzery, E.J.P.5
-
42
-
-
17744376584
-
Adaptive evolution of the insulin gene in caviomorph rodents
-
DOI 10.1093/molbev/msi117
-
Adaptive evolution of the insulin gene in caviomorph rodents. JC Opazo RE Palma F Melo EP Lessa, Mol Biol Evol 2005 22 5 1290 1298 10.1093/molbev/msi117 15728738 (Pubitemid 40577767)
-
(2005)
Molecular Biology and Evolution
, vol.22
, Issue.5
, pp. 1290-1298
-
-
Opazo, J.C.1
Palma, R.E.2
Melo, F.3
Lessa, E.P.4
-
43
-
-
0033786164
-
Allozymic variation and systematic relationships of the Octodontidae and allied taxa (Mammalia, Rodentia)
-
Allozymic variation and systematic relationships of the Octodontidae and allied taxa (Mammalia, Rodentia). N Köhler MH Gallardo LC Contreras JC Torres-Mura, J Zool 2000 252 243 250
-
(2000)
J Zool
, vol.252
, pp. 243-250
-
-
Köhler, N.1
Gallardo, M.H.2
Contreras, L.C.3
Torres-Mura, J.C.4
-
44
-
-
34248216492
-
B1 SINEs in different rodent families
-
DOI 10.1016/j.ygeno.2007.02.007, PII S0888754307000535
-
B1SINEs in different rodent families. NA Veniaminova NS Vassetzky DA Kramerov, Genomics 2007 89 6 678 686 10.1016/j.ygeno.2007.02.007 17433864 (Pubitemid 46719799)
-
(2007)
Genomics
, vol.89
, Issue.6
, pp. 678-686
-
-
Veniaminova, N.A.1
Vassetzky, N.S.2
Kramerov, D.A.3
-
45
-
-
19044373497
-
Polytomies and bayesian phylogenetic inference
-
DOI 10.1080/10635150590924208
-
Polytomies and Bayesian phylogenetic inference. PO Lewis MT Holder KE Holsinger, Syst Biol 2005 54 2 241 253 10.1080/10635150590924208 16012095 (Pubitemid 40707806)
-
(2005)
Systematic Biology
, vol.54
, Issue.2
, pp. 241-253
-
-
Lewis, P.O.1
Holder, M.T.2
Holsinger, K.E.3
-
46
-
-
33947723056
-
Order Rodentia
-
Baltimore, MD, Johns Hopkins University Press Wilson DE, Reeder DM 3
-
Order Rodentia. MD Carleton GG Musser, Mammal species of the world: a taxonomic and geographic reference Baltimore, MD, Johns Hopkins University Press, Wilson DE, Reeder DM, 3 2005 2 745 752
-
(2005)
Mammal Species of the World: A Taxonomic and Geographic Reference
, vol.2
, pp. 745-752
-
-
Carleton, M.D.1
Musser, G.G.2
-
47
-
-
0141721403
-
Indels in protein-coding sequences of Euarchontoglires constrain the rooting of the eutherian tree
-
DOI 10.1016/S1055-7903(03)00116-7
-
Indels in protein-coding sequences of Euarchontoglires constrain the rooting of the eutherian tree. WW de Jong MA van Dijk C Poux G Kappe T van Rheede O Madsen, Mol Phylogenet Evol 2003 28 2 328 340 10.1016/S1055-7903(03) 00116-7 12878469 (Pubitemid 37435998)
-
(2003)
Molecular Phylogenetics and Evolution
, vol.28
, Issue.2
, pp. 328-340
-
-
De Jong, W.W.1
Van Dijk, M.A.M.2
Poux, C.3
Kappe, G.4
Van Rheede, T.5
Madsen, O.6
-
49
-
-
33646255212
-
Retroposed elements as archives for the evolutionary history of placental mammals
-
10.1371/journal.pbio.0040091 16515367
-
Retroposed elements as archives for the evolutionary history of placental mammals. JO Kriegs G Churakov M Kiefmann U Jordan J Brosius J Schmitz, PLoS Biol 2006 4 4 e91 10.1371/journal.pbio.0040091 16515367
-
(2006)
PLoS Biol
, vol.4
, Issue.4
, pp. 91
-
-
Kriegs, J.O.1
Churakov, G.2
Kiefmann, M.3
Jordan, U.4
Brosius, J.5
Schmitz, J.6
-
51
-
-
14644430471
-
ProbCons: Probabilistic consistency-based multiple sequence alignment
-
DOI 10.1101/gr.2821705
-
ProbCons: probabilistic consistency-based multiple sequence alignment. CB Do MSP Mahabhashyam M Brudno S Batzoglou, Genome Res 2005 15 2 330 340 15687296 10.1101/gr.2821705 (Pubitemid 40309398)
-
(2005)
Genome Research
, vol.15
, Issue.2
, pp. 330-340
-
-
Do, C.B.1
Mahabhashyam, M.S.P.2
Brudno, M.3
Batzoglou, S.4
-
52
-
-
13744252890
-
MAFFT version 5: Improvement in accuracy of multiple sequence alignment
-
DOI 10.1093/nar/gki198
-
MAFFT version 5: improvement in accuracy of multiple sequence alignment. K Katoh K Kuma H Toh T Miyata, Nucleic Acids Res 2005 33 2 511 518 15661851 10.1093/nar/gki198 (Pubitemid 40360980)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.2
, pp. 511-518
-
-
Katoh, K.1
Kuma, K.-I.2
Toh, H.3
Miyata, T.4
-
53
-
-
0034949377
-
SOAP, cleaning multiple alignments from unstable blocks
-
SOAP, cleaning multiple alignments from unstable blocks. A Löytynoja MC Milinkovitch, Bioinformatics 2001 17 6 573 574 10.1093/bioinformatics/17.6. 573 11395440 (Pubitemid 32600509)
-
(2001)
Bioinformatics
, vol.17
, Issue.6
, pp. 573-574
-
-
Loytynoja, A.1
Milinkovitch, M.C.2
-
54
-
-
33747847779
-
PAL2NAL: Robust conversion of protein sequence alignments into the corresponding codon alignments
-
DOI 10.1093/nar/gkl315
-
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments. M Suyama D Torrents P Bork, Nucleic Acids Res 2006 34 W609 W612 16845082 10.1093/nar/gkl315 (Pubitemid 44529842)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.WEB. SERV. ISS.
-
-
Suyama, M.1
Torrents, D.2
Bork, P.3
-
55
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
MODELTEST: testing the model of DNA substitution. D Posada KA Crandall, Bioinformatics 1998 14 817 818 10.1093/bioinformatics/14.9.817 9918953 (Pubitemid 28552116)
-
(1998)
Bioinformatics
, vol.14
, Issue.9
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
56
-
-
0004248459
-
PAUP*: Phylogenetic analysis using parsimony (* and other methods)
-
Sunderland, Massachusetts: Sinauer Associates
-
PAUP*: Phylogenetic analysis using parsimony (* and other methods). DL Swofford, version 4.0b10 edn Sunderland, Massachusetts: Sinauer Associates 2003
-
(2003)
Version 4.0b10 Edn
-
-
Swofford, D.L.1
-
57
-
-
19544387609
-
Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation
-
DOI 10.1093/molbev/msi129
-
Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation. J Sullivan Z Abdo P Joyce DL Swofford, Mol Biol Evol 2005 22 6 1386 1392 10.1093/molbev/ msi129 15758203 (Pubitemid 40734190)
-
(2005)
Molecular Biology and Evolution
, vol.22
, Issue.6
, pp. 1386-1392
-
-
Sullivan, J.1
Abdo, Z.2
Joyce, P.3
Swofford, D.L.4
-
58
-
-
18744382506
-
ProtTest: Selection of best-fit models of protein evolution
-
DOI 10.1093/bioinformatics/bti263
-
ProtTest: selection of best-fit models of protein evolution. F Abascal R Zardoya D Posada, Bioinformatics 2005 21 9 2104 2105 10.1093/bioinformatics/ bti263 15647292 (Pubitemid 40668057)
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 2104-2105
-
-
Abascal, F.1
Zardoya, R.2
Posada, D.3
-
59
-
-
0242578620
-
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
-
DOI 10.1080/10635150390235520
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. S Guindon O Gascuel, Syst Biol 2003 52 5 696 704 10.1080/10635150390235520 14530136 (Pubitemid 37365050)
-
(2003)
Systematic Biology
, vol.52
, Issue.5
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
60
-
-
33750403801
-
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
DOI 10.1093/bioinformatics/btl446
-
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. A Stamatakis, Bioinformatics 2006 22 21 2688 2690 10.1093/bioinformatics/btl446 16928733 (Pubitemid 44642609)
-
(2006)
Bioinformatics
, vol.22
, Issue.21
, pp. 2688-2690
-
-
Stamatakis, A.1
-
61
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
DOI 10.1093/bioinformatics/btg180
-
MrBayes 3: Bayesian phylogenetic inference under mixed models. F Ronquist JP Huelsenbeck, Bioinformatics 2003 19 12 1572 1574 10.1093/bioinformatics/ btg180 12912839 (Pubitemid 37038874)
-
(2003)
Bioinformatics
, vol.19
, Issue.12
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
62
-
-
33644826560
-
Computing Bayes factors using thermodynamic integration
-
DOI 10.1080/10635150500433722, PII G4465276345678
-
Computing Bayes factors using thermodynamic integration. N Lartillot H Philippe, Syst Biol 2006 55 2 195 207 10.1080/10635150500433722 16522570 (Pubitemid 43355101)
-
(2006)
Systematic Biology
, vol.55
, Issue.2
, pp. 195-207
-
-
Lartillot, N.1
Philippe, H.2
-
63
-
-
0036139287
-
CONSEL: For assessing the confidence of phylogenetic tree selection
-
CONSEL: for assessing the confidence of phylogenetic tree selection. H Shimodaira M Hasegawa, Bioinformatics 2001 17 12 1246 1247 10.1093/ bioinformatics/17.12.1246 11751242 (Pubitemid 33735360)
-
(2001)
Bioinformatics
, vol.17
, Issue.12
, pp. 1246-1247
-
-
Shimodaira, H.1
Hasegawa, M.2
-
64
-
-
4143051195
-
Comparison of site-specific rate-inference methods for protein sequences: Empirical Bayesian methods are superior
-
DOI 10.1093/molbev/msh194
-
Comparison of site-specific rate-inference methods for protein sequences: Empirical Bayesian methods are superior. I Mayrose D Graur N Ben-Tal T Pupko, Mol Biol Evol 2004 21 9 1781 1791 10.1093/molbev/msh194 15201400 (Pubitemid 39096894)
-
(2004)
Molecular Biology and Evolution
, vol.21
, Issue.9
, pp. 1781-1791
-
-
Mayrose, I.1
Graur, D.2
Ben-Tal, N.3
Pupko, T.4
-
65
-
-
0027157960
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. K Tamura M Nei, Mol Biol Evol 1993 10 512 529 8336541 (Pubitemid 23157236)
-
(1993)
Molecular Biology and Evolution
, vol.10
, Issue.3
, pp. 512-526
-
-
Tamura, K.1
Nei, M.2
-
66
-
-
13444259388
-
TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics
-
DOI 10.1186/1471-2148-4-18
-
TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. G Jobb A von Haeseler K Strimmer, BMC Evol Biol 2004 4 1 18 15222900 10.1186/1471-2148-4-18 (Pubitemid 40205271)
-
(2004)
BMC Evolutionary Biology
, vol.4
, pp. 18
-
-
Jobb, G.1
Von Haeseler, A.2
Strimmer, K.3
-
67
-
-
31344433677
-
An empirical examination of the utility of codon-substitution models in phylogeny reconstruction
-
DOI 10.1080/10635150500354688
-
An empirical examination of the utility of codon-substitution models in phylogeny reconstruction. FR Ren H Tanaka ZH Yang, Syst Biol 2005 54 5 808 818 10.1080/10635150500354688 16243764 (Pubitemid 43142296)
-
(2005)
Systematic Biology
, vol.54
, Issue.5
, pp. 808-818
-
-
Ren, F.1
Tanaka, H.2
Yang, Z.3
-
68
-
-
34547567977
-
Selecton 2007: Advanced models for detecting positive and purifying selection using a Bayesian inference approach
-
17586822 10.1093/nar/gkm382
-
Selecton 2007: advanced models for detecting positive and purifying selection using a Bayesian inference approach. A Stern A Doron-Faigenboim E Erez E Martz E Bacharach T Pupko, Nucleic Acids Res 2007 35 W506 W511 17586822 10.1093/nar/gkm382
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Stern, A.1
Doron-Faigenboim, A.2
Erez, E.3
Martz, E.4
Bacharach, E.5
Pupko, T.6
-
69
-
-
0034097381
-
Codon-substitution models for heterogeneous selection pressure at amino acid sites
-
Codon-substitution models for heterogeneous selection pressure at amino acid sites. ZH Yang R Nielsen N Goldman AMK Pedersen, Genetics 2000 155 1 431 449 10790415 (Pubitemid 30257141)
-
(2000)
Genetics
, vol.155
, Issue.1
, pp. 431-449
-
-
Yang, Z.1
Nielsen, R.2
Goldman, N.3
Pedersen, A.-M.K.4
-
70
-
-
0037230001
-
Pervasive adaptive evolution in mammalian fertilization proteins
-
Pervasive adaptive evolution in mammalian fertilization proteins. WJ Swanson R Nielsen QF Yang, Mol Biol Evol 2003 20 1 18 20 12519901 (Pubitemid 36077894)
-
(2003)
Molecular Biology and Evolution
, vol.20
, Issue.1
, pp. 18-20
-
-
Swanson, W.J.1
Nielsen, R.2
Yang, Q.3
-
71
-
-
3042601821
-
Covarion shifts cause a long-branch attraction artifact that unites microsporidia and archaebacteria in EF-1 phylogenies
-
DOI 10.1093/molbev/msh130
-
Covarion shifts cause a long-branch attraction artifact that unites microsporidia and archaebacteria in EF-1 alpha phylogenies. Y Inagaki E Susko NM Fast AJ Roger, Mol Biol Evol 2004 21 7 1340 1349 10.1093/molbev/msh130 15034136 (Pubitemid 38823737)
-
(2004)
Molecular Biology and Evolution
, vol.21
, Issue.7
, pp. 1340-1349
-
-
Inagaki, Y.1
Susko, E.2
Fast, N.M.3
Roger, A.J.4
-
72
-
-
0035029534
-
Maximum-likelihood phylogenetic analysis under a covarion-like model
-
Maximum-likelihood phylogenetic analysis under a covarion-like model. N Galtier, Mol Biol Evol 2001 18 5 866 873 11319270 (Pubitemid 32372956)
-
(2001)
Molecular Biology and Evolution
, vol.18
, Issue.5
, pp. 866-873
-
-
Galtier, N.1
-
73
-
-
57149084079
-
Evolutionary modeling of rate shifts reveals specificity determinants in HIV-1 subtypes
-
18989394 10.1371/journal.pcbi.1000214
-
Evolutionary modeling of rate shifts reveals specificity determinants in HIV-1 subtypes. O Penn A Stern ND Rubinstein J Dutheil E Bacharach N Galtier T Pupko, PLoS Comput Biol 2008 4 11 e1000214 18989394 10.1371/journal.pcbi.1000214
-
(2008)
PLoS Comput Biol
, vol.4
, Issue.11
, pp. 1000214
-
-
Penn, O.1
Stern, A.2
Rubinstein, N.D.3
Dutheil, J.4
Bacharach, E.5
Galtier, N.6
Pupko, T.7
|