-
1
-
-
33750341578
-
The evolutionary dynamics of human endogenous retroviral families
-
Bannert N, Kurth R, (2006) The evolutionary dynamics of human endogenous retroviral families. Annu Rev Genomics Hum Genet 7: 149-173.
-
(2006)
Annu Rev Genomics Hum Genet
, vol.7
, pp. 149-173
-
-
Bannert, N.1
Kurth, R.2
-
2
-
-
0036088127
-
HERVd: database of human endogenous retroviruses
-
Paces J, Pavlicek A, Paces V, (2002) HERVd: database of human endogenous retroviruses. Nucleic Acids Res 30: 205-206.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 205-206
-
-
Paces, J.1
Pavlicek, A.2
Paces, V.3
-
3
-
-
0035734951
-
Evidence for genomic rearrangements mediated by human endogenous retroviruses during primate evolution
-
Hughes JF, Coffin JM, (2001) Evidence for genomic rearrangements mediated by human endogenous retroviruses during primate evolution. Nat Genet 29: 487-489.
-
(2001)
Nat Genet
, vol.29
, pp. 487-489
-
-
Hughes, J.F.1
Coffin, J.M.2
-
4
-
-
50849100134
-
Antiretroelement activity of APOBEC3H was lost twice in recent human evolution
-
OhAinle M, Kerns JA, Li MM, Malik HS, Emerman M, (2008) Antiretroelement activity of APOBEC3H was lost twice in recent human evolution. Cell Host Microbe 4: 249-259.
-
(2008)
Cell Host Microbe
, vol.4
, pp. 249-259
-
-
OhAinle, M.1
Kerns, J.A.2
Li, M.M.3
Malik, H.S.4
Emerman, M.5
-
5
-
-
34250839345
-
Restriction of an extinct retrovirus by the human TRIM5alpha antiviral protein
-
Kaiser SM, Malik HS, Emerman M, (2007) Restriction of an extinct retrovirus by the human TRIM5alpha antiviral protein. Science 316: 1756-1758.
-
(2007)
Science
, vol.316
, pp. 1756-1758
-
-
Kaiser, S.M.1
Malik, H.S.2
Emerman, M.3
-
7
-
-
23244460443
-
The distribution of the endogenous retroviruses HERV-K113 and HERV-K115 in health and disease
-
Moyes DL, Martin A, Sawcer S, Temperton N, Worthington J, et al. (2005) The distribution of the endogenous retroviruses HERV-K113 and HERV-K115 in health and disease. Genomics 86: 337-341.
-
(2005)
Genomics
, vol.86
, pp. 337-341
-
-
Moyes, D.L.1
Martin, A.2
Sawcer, S.3
Temperton, N.4
Worthington, J.5
-
8
-
-
52649113832
-
Human endogenous retrovirus K (HML-2) elements in the plasma of people with lymphoma and breast cancer
-
Contreras-Galindo R, Kaplan MH, Leissner P, Verjat T, Ferlenghi I, et al. (2008) Human endogenous retrovirus K (HML-2) elements in the plasma of people with lymphoma and breast cancer. J Virol 82: 9329-9336.
-
(2008)
J Virol
, vol.82
, pp. 9329-9336
-
-
Contreras-Galindo, R.1
Kaplan, M.H.2
Leissner, P.3
Verjat, T.4
Ferlenghi, I.5
-
9
-
-
33846829834
-
HIV-1 infection increases the expression of human endogenous retroviruses type K (HERV-K) in vitro
-
Contreras-Galindo R, Lopez P, Velez R, Yamamura Y, (2007) HIV-1 infection increases the expression of human endogenous retroviruses type K (HERV-K) in vitro. AIDS Res Hum Retroviruses 23: 116-122.
-
(2007)
AIDS Res Hum Retroviruses
, vol.23
, pp. 116-122
-
-
Contreras-Galindo, R.1
Lopez, P.2
Velez, R.3
Yamamura, Y.4
-
10
-
-
37349065803
-
T cell responses to human endogenous retroviruses in HIV-1 infection
-
Garrison KE, Jones RB, Meiklejohn DA, Anwar N, Ndhlovu LC, et al. (2007) T cell responses to human endogenous retroviruses in HIV-1 infection. PLoS Pathog 3: e165.
-
(2007)
PLoS Pathog
, vol.3
-
-
Garrison, K.E.1
Jones, R.B.2
Meiklejohn, D.A.3
Anwar, N.4
Ndhlovu, L.C.5
-
11
-
-
34250813062
-
Insertional polymorphisms: a new lease of life for endogenous retroviruses in human disease
-
Moyes D, Griffiths DJ, Venables PJ, (2007) Insertional polymorphisms: a new lease of life for endogenous retroviruses in human disease. Trends Genet 23: 326-333.
-
(2007)
Trends Genet
, vol.23
, pp. 326-333
-
-
Moyes, D.1
Griffiths, D.J.2
Venables, P.J.3
-
12
-
-
77954633050
-
HIV persistence and the prospect of long-term drug-free remissions for HIV-infected individuals
-
Trono D, Van Lint C, Rouzioux C, Verdin E, Barre-Sinoussi F, et al. (2010) HIV persistence and the prospect of long-term drug-free remissions for HIV-infected individuals. Science 329: 174-180.
-
(2010)
Science
, vol.329
, pp. 174-180
-
-
Trono, D.1
Van Lint, C.2
Rouzioux, C.3
Verdin, E.4
Barre-Sinoussi, F.5
-
13
-
-
0034108733
-
Identification and characterization of novel human endogenous retrovirus families by phylogenetic screening of the human genome mapping project database
-
Tristem M, (2000) Identification and characterization of novel human endogenous retrovirus families by phylogenetic screening of the human genome mapping project database. J Virol 74: 3715-3730.
-
(2000)
J Virol
, vol.74
, pp. 3715-3730
-
-
Tristem, M.1
-
14
-
-
0037357461
-
Estimation of divergence times for major lineages of primate species
-
Glazko GV, Nei M, (2003) Estimation of divergence times for major lineages of primate species. Mol Biol Evol 20: 424-434.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 424-434
-
-
Glazko, G.V.1
Nei, M.2
-
15
-
-
33645522272
-
Many human endogenous retrovirus K (HERV-K) proviruses are unique to humans
-
Barbulescu M, Turner G, Seaman MI, Deinard AS, Kidd KK, et al. (1999) Many human endogenous retrovirus K (HERV-K) proviruses are unique to humans. Curr Biol 9: 861-868.
-
(1999)
Curr Biol
, vol.9
, pp. 861-868
-
-
Barbulescu, M.1
Turner, G.2
Seaman, M.I.3
Deinard, A.S.4
Kidd, K.K.5
-
16
-
-
12144282045
-
Allelic variation of HERV-K(HML-2) endogenous retroviral elements in human populations
-
Macfarlane C, Simmonds P, (2004) Allelic variation of HERV-K(HML-2) endogenous retroviral elements in human populations. J Mol Evol 59: 642-656.
-
(2004)
J Mol Evol
, vol.59
, pp. 642-656
-
-
Macfarlane, C.1
Simmonds, P.2
-
17
-
-
0035797901
-
Insertional polymorphisms of full-length endogenous retroviruses in humans
-
Turner G, Barbulescu M, Su M, Jensen-Seaman MI, Kidd KK, et al. (2001) Insertional polymorphisms of full-length endogenous retroviruses in humans. Curr Biol 11: 1531-1535.
-
(2001)
Curr Biol
, vol.11
, pp. 1531-1535
-
-
Turner, G.1
Barbulescu, M.2
Su, M.3
Jensen-Seaman, M.I.4
Kidd, K.K.5
-
18
-
-
0029058002
-
Complement component C4 gene intron 9 as a phylogenetic marker for primates: long terminal repeats of the endogenous retrovirus ERV-K(C4) are a molecular clock of evolution
-
Dangel AW, Baker BJ, Mendoza AR, Yu CY, (1995) Complement component C4 gene intron 9 as a phylogenetic marker for primates: long terminal repeats of the endogenous retrovirus ERV-K(C4) are a molecular clock of evolution. Immunogenetics 42: 41-52.
-
(1995)
Immunogenetics
, vol.42
, pp. 41-52
-
-
Dangel, A.W.1
Baker, B.J.2
Mendoza, A.R.3
Yu, C.Y.4
-
19
-
-
1842687449
-
Long-term reinfection of the human genome by endogenous retroviruses
-
Belshaw R, Pereira V, Katzourakis A, Talbot G, Paces J, et al. (2004) Long-term reinfection of the human genome by endogenous retroviruses. Proc Natl Acad Sci U S A 101: 4894-4899.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 4894-4899
-
-
Belshaw, R.1
Pereira, V.2
Katzourakis, A.3
Talbot, G.4
Paces, J.5
-
21
-
-
0034682079
-
Differences in HERV-K LTR insertions in orthologous loci of humans and great apes
-
Lebedev YB, Belonovitch OS, Zybrova NV, Khil PP, Kurdyukov SG, et al. (2000) Differences in HERV-K LTR insertions in orthologous loci of humans and great apes. Gene 247: 265-277.
-
(2000)
Gene
, vol.247
, pp. 265-277
-
-
Lebedev, Y.B.1
Belonovitch, O.S.2
Zybrova, N.V.3
Khil, P.P.4
Kurdyukov, S.G.5
-
22
-
-
0024297354
-
Multiple sequence alignment with hierarchical clustering
-
Corpet F, (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res 16: 10881-10890.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 10881-10890
-
-
Corpet, F.1
-
23
-
-
33846542981
-
Reconstitution of an infectious human endogenous retrovirus
-
Lee YN, Bieniasz PD, (2007) Reconstitution of an infectious human endogenous retrovirus. PLoS Pathog 3: e10.
-
(2007)
PLoS Pathog
, vol.3
-
-
Lee, Y.N.1
Bieniasz, P.D.2
-
24
-
-
33845296602
-
Identification of an infectious progenitor for the multiple-copy HERV-K human endogenous retroelements
-
Dewannieux M, Harper F, Richaud A, Letzelter C, Ribet D, et al. (2006) Identification of an infectious progenitor for the multiple-copy HERV-K human endogenous retroelements. Genome Res 16: 1548-1556.
-
(2006)
Genome Res
, vol.16
, pp. 1548-1556
-
-
Dewannieux, M.1
Harper, F.2
Richaud, A.3
Letzelter, C.4
Ribet, D.5
-
25
-
-
72849121671
-
Cross-sectional dating of novel haplotypes of HERV-K 113 and HERV-K 115 indicate these proviruses originated in Africa before Homo sapiens
-
Jha AR, Pillai SK, York VA, Sharp ER, Storm EC, et al. (2009) Cross-sectional dating of novel haplotypes of HERV-K 113 and HERV-K 115 indicate these proviruses originated in Africa before Homo sapiens. Mol Biol Evol 26: 2617-2626.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 2617-2626
-
-
Jha, A.R.1
Pillai, S.K.2
York, V.A.3
Sharp, E.R.4
Storm, E.C.5
-
26
-
-
0036184745
-
Generating samples under a Wright-Fisher neutral model of genetic variation
-
Hudson RR, (2002) Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics 18: 337-338.
-
(2002)
Bioinformatics
, vol.18
, pp. 337-338
-
-
Hudson, R.R.1
-
27
-
-
27544497650
-
Calibrating a coalescent simulation of human genome sequence variation
-
Schaffner SF, Foo C, Gabriel S, Reich D, Daly MJ, et al. (2005) Calibrating a coalescent simulation of human genome sequence variation. Genome Res 15: 1576-1583.
-
(2005)
Genome Res
, vol.15
, pp. 1576-1583
-
-
Schaffner, S.F.1
Foo, C.2
Gabriel, S.3
Reich, D.4
Daly, M.J.5
-
28
-
-
0024313579
-
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
-
Tajima F, (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
Tajima, F.1
-
29
-
-
0027453041
-
Statistical tests of neutrality of mutations
-
Fu YX, Li WH, (1993) Statistical tests of neutrality of mutations. Genetics 133: 693-709.
-
(1993)
Genetics
, vol.133
, pp. 693-709
-
-
Fu, Y.X.1
Li, W.H.2
-
30
-
-
65649117685
-
DnaSP v5: a software for comprehensive analysis of DNA polymorphism data
-
Librado P, Rozas J, (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452.
-
(2009)
Bioinformatics
, vol.25
, pp. 1451-1452
-
-
Librado, P.1
Rozas, J.2
-
31
-
-
79957452113
-
-
Browser THS The HGDP Selection Browser
-
Browser THS The HGDP Selection Browser.
-
-
-
-
33
-
-
35349012592
-
Genome-wide detection and characterization of positive selection in human populations
-
Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, et al. (2007) Genome-wide detection and characterization of positive selection in human populations. Nature 449: 913-918.
-
(2007)
Nature
, vol.449
, pp. 913-918
-
-
Sabeti, P.C.1
Varilly, P.2
Fry, B.3
Lohmueller, J.4
Hostetter, E.5
-
35
-
-
13944279562
-
Stratigraphic placement and age of modern humans from Kibish, Ethiopia
-
McDougall I, Brown FH, Fleagle JG, (2005) Stratigraphic placement and age of modern humans from Kibish, Ethiopia. Nature 433: 733-736.
-
(2005)
Nature
, vol.433
, pp. 733-736
-
-
McDougall, I.1
Brown, F.H.2
Fleagle, J.G.3
-
36
-
-
0037564967
-
Pleistocene Homo sapiens from Middle Awash, Ethiopia
-
White TD, Asfaw B, DeGusta D, Gilbert H, Richards GD, et al. (2003) Pleistocene Homo sapiens from Middle Awash, Ethiopia. Nature 423: 742-747.
-
(2003)
Nature
, vol.423
, pp. 742-747
-
-
White, T.D.1
Asfaw, B.2
DeGusta, D.3
Gilbert, H.4
Richards, G.D.5
-
37
-
-
34648822341
-
Effects of recombination rate on human endogenous retrovirus fixation and persistence
-
Katzourakis A, Pereira V, Tristem M, (2007) Effects of recombination rate on human endogenous retrovirus fixation and persistence. J Virol 81: 10712-10717.
-
(2007)
J Virol
, vol.81
, pp. 10712-10717
-
-
Katzourakis, A.1
Pereira, V.2
Tristem, M.3
-
38
-
-
45849088092
-
The effects of recombination rate on the distribution and abundance of transposable elements
-
Dolgin ES, Charlesworth B, (2008) The effects of recombination rate on the distribution and abundance of transposable elements. Genetics 178: 2169-2177.
-
(2008)
Genetics
, vol.178
, pp. 2169-2177
-
-
Dolgin, E.S.1
Charlesworth, B.2
-
39
-
-
18544381909
-
A high-resolution recombination map of the human genome
-
Kong A, Gudbjartsson DF, Sainz J, Jonsdottir GM, Gudjonsson SA, et al. (2002) A high-resolution recombination map of the human genome. Nat Genet 31: 241-247.
-
(2002)
Nat Genet
, vol.31
, pp. 241-247
-
-
Kong, A.1
Gudbjartsson, D.F.2
Sainz, J.3
Jonsdottir, G.M.4
Gudjonsson, S.A.5
-
41
-
-
25144501550
-
Genomewide screening reveals high levels of insertional polymorphism in the human endogenous retrovirus family HERV-K(HML2): implications for present-day activity
-
Belshaw R, Dawson AL, Woolven-Allen J, Redding J, Burt A, et al. (2005) Genomewide screening reveals high levels of insertional polymorphism in the human endogenous retrovirus family HERV-K(HML2): implications for present-day activity. J Virol 79: 12507-12514.
-
(2005)
J Virol
, vol.79
, pp. 12507-12514
-
-
Belshaw, R.1
Dawson, A.L.2
Woolven-Allen, J.3
Redding, J.4
Burt, A.5
-
42
-
-
1242319532
-
Human endogenous retrovirus K solo-LTR formation and insertional polymorphisms: implications for human and viral evolution
-
Hughes JF, Coffin JM, (2004) Human endogenous retrovirus K solo-LTR formation and insertional polymorphisms: implications for human and viral evolution. Proc Natl Acad Sci U S A 101: 1668-1672.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 1668-1672
-
-
Hughes, J.F.1
Coffin, J.M.2
-
43
-
-
58149502605
-
A single amino acid substitution in a segment of the CA protein within Gag that has similarity to human immunodeficiency virus type 1 blocks infectivity of a human endogenous retrovirus K provirus in the human genome
-
Heslin DJ, Murcia P, Arnaud F, Van Doorslaer K, Palmarini M, et al. (2009) A single amino acid substitution in a segment of the CA protein within Gag that has similarity to human immunodeficiency virus type 1 blocks infectivity of a human endogenous retrovirus K provirus in the human genome. J Virol 83: 1105-1114.
-
(2009)
J Virol
, vol.83
, pp. 1105-1114
-
-
Heslin, D.J.1
Murcia, P.2
Arnaud, F.3
Van Doorslaer, K.4
Palmarini, M.5
|