-
2
-
-
0035105221
-
Perspective: Transposable elements, parasitic DNA, and genome evolution
-
Perspective: transposable elements, parasitic DNA, and genome evolution. MG Kidwell DR Lisch, Evolution Int J Org Evolution 2001 55 1 24 http://www.jstor.org/pss/2640685 (Pubitemid 32175281)
-
(2001)
Evolution
, vol.55
, Issue.1
, pp. 1-24
-
-
Kidwell, M.G.1
Lisch, D.R.2
-
3
-
-
0242666278
-
Evidence for the Contribution of LTR Retrotransposons to C. elegans Gene Evolution
-
DOI 10.1093/molbev/msg200
-
Evidence for the contribution of LTR retrotransposons to C. elegans gene evolution. EW Ganko V Bhattacharjee P Schliekelman JF McDonald, Mol Biol Evol 2003 20 11 1925 1931 http://dx.doi.org/10.1093/molbev/msg200 10.1093/molbev/msg200 12885961 (Pubitemid 37420946)
-
(2003)
Molecular Biology and Evolution
, vol.20
, Issue.11
, pp. 1925-1931
-
-
Ganko, E.W.1
Bhattacharjee, V.2
Schliekelman, P.3
McDonald, J.F.4
-
4
-
-
85158069207
-
Origins and evolution of retrotransposons
-
Herndon: ASM Press Craig NL, Craigie R, Gellert M, Lambowitz AM
-
Origins and evolution of retrotransposons. TH Eickbush HS Malik, Mobile DNA II Herndon: ASM Press, Craig NL, Craigie R, Gellert M, Lambowitz AM, 2002 1111 1144
-
(2002)
Mobile DNA II
, pp. 1111-1144
-
-
Eickbush, T.H.1
Malik, H.S.2
-
5
-
-
0025006614
-
Origin and evolution of retroelements based upon their reverse transcriptase sequences
-
1698615
-
Origin and evolution of retroelements based upon their reverse transcriptase sequences. Y Xiong TH Eickbush, EMBO J 1990 9 10 3353 3362 http://www.ncbi.nlm.nih.gov/pubmed/1698615?dopt=Abstract 1698615
-
(1990)
EMBO J
, vol.9
, Issue.10
, pp. 3353-3362
-
-
Xiong, Y.1
Eickbush, T.H.2
-
6
-
-
0033799581
-
Poised for contagion: Evolutionary origins of the infectious abilities of invertebrate retroviruses
-
10.1101/gr.145000. 10984449
-
Poised for contagion: evolutionary origins of the infectious abilities of invertebrate retroviruses. HS Malik S Henikoff TH Eickbush, Genome Res 2000 10 9 1307 1318 http://genome.cshlp.org/cgi/content/abstract/10/9/1307 10.1101/gr.145000 10984449
-
(2000)
Genome Res
, vol.10
, Issue.9
, pp. 1307-1318
-
-
Malik, H.S.1
Henikoff, S.2
Eickbush, T.H.3
-
7
-
-
0027992609
-
An env-like protein encoded by a Drosophila retroelement: Evidence that gypsy is an infectious retrovirus
-
10.1101/gad.8.17.2046. 7958877
-
An env-like protein encoded by a Drosophila retroelement: evidence that gypsy is an infectious retrovirus. SU Song T Gerasimova M Kurkulos JD Boeke VG Corces, Genes Dev 1994 8 17 2046 2057 http://genesdev.cshlp.org/cgi/content/ abstract/8/17/2046 10.1101/gad.8.17.2046 7958877
-
(1994)
Genes Dev
, vol.8
, Issue.17
, pp. 2046-2057
-
-
Song, S.U.1
Gerasimova, T.2
Kurkulos, M.3
Boeke, J.D.4
Corces, V.G.5
-
8
-
-
33748936552
-
Turning junk into gold: Domestication of transposable elements and the creation of new genes in eukaryotes
-
10.1002/bies.20452. 16937363
-
Turning junk into gold: domestication of transposable elements and the creation of new genes in eukaryotes. JN Volff, Bioessays 2006 28 9 913 922 http://dx.doi.org/10.1002/bies.20452 10.1002/bies.20452 16937363
-
(2006)
Bioessays
, vol.28
, Issue.9
, pp. 913-922
-
-
Volff, J.N.1
-
9
-
-
55949130857
-
Envelope-like retrotransposons in the plant kingdom: Evidence of their presence in gymnosperms (Pinus pinaster)
-
10.1007/s00239-008-9168-3. 18925379
-
Envelope-like retrotransposons in the plant kingdom: evidence of their presence in gymnosperms (Pinus pinaster). C Miguel M Simoes MM Oliveira M Rocheta, J Mol Evol 2008 67 5 517 525 http://dx.doi.org/10.1007/s00239-008-9168- 3 10.1007/s00239-008-9168-3 18925379
-
(2008)
J Mol Evol
, vol.67
, Issue.5
, pp. 517-525
-
-
Miguel, C.1
Simoes, M.2
Oliveira, M.M.3
Rocheta, M.4
-
10
-
-
79959364088
-
Mobile Genetic Elements
-
Sunderland: Sinauer Associates Lynch M
-
Mobile Genetic Elements. M Lynch, The Origin of Genome Architecture Sunderland: Sinauer Associates, Lynch M, 2007 151 192
-
(2007)
The Origin of Genome Architecture
, pp. 151-192
-
-
Lynch, M.1
-
11
-
-
0027281011
-
Pao, a highly divergent retrotransposable element from Bombyx mori containing long terminal repeats with tandem copies of the putative R region
-
Pao, a highly divergent retrotransposable element from Bombyx mori containing long terminal repeats with tandem copies of the putative R region. Y Xiong WD Burke TH Eickbush, Nucleic Acids Res 1993 21 9 2117 2123 http://nar.oxfordjournals.org/cgi/content/abstract/21/9/2117 10.1093/nar/21.9.2117 8389039 (Pubitemid 23160729)
-
(1993)
Nucleic Acids Research
, vol.21
, Issue.9
, pp. 2117-2123
-
-
Xiong, Y.1
Burke, W.D.2
Eickbush, T.H.3
-
12
-
-
0034748919
-
The DIRS1 group of retrotransposons
-
The DIRS1 group of retrotransposons. TJ Goodwin RT Poulter, Mol Biol Evol 2001 18 11 2067 2082 http://mbe.oxfordjournals.org/cgi/content/abstract/18/11/ 2067 11606703 (Pubitemid 33026778)
-
(2001)
Molecular Biology and Evolution
, vol.18
, Issue.11
, pp. 2067-2082
-
-
Goodwin, T.J.D.1
Poulter, R.T.M.2
-
13
-
-
0034143269
-
Systematic screening of Anopheles mosquito genomes yields evidence for a major clade of Pao-like retrotransposons
-
DOI 10.1046/j.1365-2583.2000.00167.x
-
Systematic screening of Anopheles mosquito genomes yields evidence for a major clade of Pao-like retrotransposons. JM Cook J Martin A Lewin RE Sinden M Tristem, Insect Mol Biol 2000 9 109 117 http://www3.interscience.wiley.com/ journal/119047480/abstract?CRETRY=1&SRETRY=0 10.1046/j.1365-2583.2000.00167. x 10672078 (Pubitemid 30124150)
-
(2000)
Insect Molecular Biology
, vol.9
, Issue.1
, pp. 109-117
-
-
Cook, J.M.1
Martin, J.2
Lewin, A.3
Sinden, R.E.4
Tristem, M.5
-
14
-
-
0035941478
-
New BEL-like LTR-retrotransposons in Fugu rubripes, Caenorhabditis elegans, and Drosophila melanogaster
-
DOI 10.1016/S0378-1119(00)00567-9, PII S0378111900005679
-
New BEL-like LTR-retrotransposons in Fugu rubripes, Caenorhabditis elegans, and Drosophila melanogaster. IG Frame JF Cutfield RT Poulter, Gene 2001 263 1-2 219 230 http://www.sciencedirect.com/science?-ob=ArticleURL&-udi= B6T39-42D2CGD-V&-user=5294990&-rdoc=1&-fmt=&-orig= search&-sort=d&view=c&-acct=C000049009&-version= 1&-urlVersion=0&-userid=5294990&md5= 8f2f72f0810f999e62907026d01a743a 10.1016/S0378-1119(00)00567-9 11223261 (Pubitemid 32167072)
-
(2001)
Gene
, vol.263
, Issue.1-2
, pp. 219-230
-
-
Frame, I.G.1
Cutfield, J.F.2
Poulter, R.T.M.3
-
15
-
-
12144291652
-
Saci-1, -2, and -3 and Perere, Four Novel Retrotransposons with High Transcriptional Activities from the Human Parasite Schistosoma mansoni
-
DOI 10.1128/JVI.78.6.2967-2978.2004
-
Saci-1, -2, and -3 and Perere, four novel retrotransposons with high transcriptional activities from the human parasite Schistosoma mansoni. R DeMarco AT Kowaltowski AA Machado MB Soares C Gargioni T Kawano V Rodrigues AMBN Madeira RA Wilson CFM Menck JC Setubal E Dias-Neto LCC Leite S Verjovski-Almeida, J Virol 2004 78 6 2967 2978 http://jvi.asm.org/cgi/content/ abstract/78/6/2967 10.1128/JVI.78.6.2967-2978.2004 14990715 (Pubitemid 38314354)
-
(2004)
Journal of Virology
, vol.78
, Issue.6
, pp. 2967-2978
-
-
DeMarco, R.1
Kowaltowski, A.T.2
Machado, A.A.3
Soares, M.B.4
Gargioni, C.5
Kawano, T.6
Rodrigues, V.7
Madeira, A.M.B.N.8
Wilson, R.A.9
Menck, C.F.M.10
Setubal, J.C.11
Dias-Neto, E.12
Leite, L.C.C.13
Verjovski-Almeida, S.14
-
16
-
-
17544371085
-
The Sinbad retrotransposon from the genome of the human blood fluke, Schistosoma mansoni, and the distribution of related Pao-like elements
-
10.1186/1471-2148-5-20. 15725362
-
The Sinbad retrotransposon from the genome of the human blood fluke, Schistosoma mansoni, and the distribution of related Pao-like elements. CS Copeland VH Mann ME Morales BH Kalinna PJ Brindley, BMC Evol Biol 2005 5 20 http://dx.doi.org/10.1186/1471-2148-5-20 10.1186/1471-2148-5-20 15725362
-
(2005)
BMC Evol Biol
, vol.5
, pp. 20
-
-
Copeland, C.S.1
Mann, V.H.2
Morales, M.E.3
Kalinna, B.H.4
Brindley, P.J.5
-
17
-
-
23844519396
-
Survey of long terminal repeat retrotransposons of domesticated silkworm (Bombyx mori)
-
DOI 10.1016/j.ibmb.2005.03.014
-
Survey of long terminal repeat retrotransposons of domesticated silkworm (Bombyx mori). X Jin-Shan X Qing-You L Jun P Guo-Qing Z Ze-Yang, Insect Biochem Mol Biol 2005 35 8 921 929 http://dx.doi.org/10.1016/j.ibmb.2005.03.014 10.1016/j.ibmb.2005.03.014 15944087 (Pubitemid 41556954)
-
(2005)
Insect Biochemistry and Molecular Biology
, vol.35
, Issue.8
, pp. 921-929
-
-
Jin-Shan, X.1
Qing-You, X.2
Jun, L.3
Guo-Qing, P.4
Ze-Yang, Z.5
-
18
-
-
0028102792
-
Tas, a retrotransposon from the parasitic nematode Ascaris lumbricoides
-
DOI 10.1016/0378-1119(94)90153-8
-
Tas, a retrotransposon from the parasitic nematode Ascaris lumbricoides. H Felder A Herzceg Y de Chastonay P Aeby H Tobler F Müller, Gene 1994 149 2 219 225 http://www.sciencedirect.com/science?-ob=ArticleURL&-udi=B6T39- 47P81R0-4&-user=5294990&-coverDate=11%2F18%2F1994&-rdoc=1&-fmt= high&-orig=search&-origin=search&-sort=d&-docanchor=&view= c&-searchStrId=1485647101&-rerunOrigin=scholar.google&-acct= C000049009&-version=1&-urlVersion=0&-userid=5294990&md5= c2ed112288d2d1d49d51da04712c1dbe&searchtype=a 10.1016/0378-1119(94)90153-8 7525414 (Pubitemid 24361908)
-
(1994)
Gene
, vol.149
, Issue.2
, pp. 219-225
-
-
Felder, H.1
Herzceg, A.2
De Chastonay, Y.3
Aeby, P.4
Tobler, H.5
Muller, F.6
-
19
-
-
0031032328
-
The enigma of Y chromosome degeneration: TRAM, a novel retrotransposon is preferentially located on the neo-Y chromosome of Drosophila miranda
-
The enigma of Y chromosome degeneration: TRAM, a novel retrotransposon is preferentially located on the Neo-Y chromosome of Drosophila miranda. M Steinemann S Steinemann, Genetics 1997 145 2 261 266 http://www.genetics.org/ cgi/content/abstract/145/2/261 9071582 (Pubitemid 27068381)
-
(1997)
Genetics
, vol.145
, Issue.2
, pp. 261-266
-
-
Steinemann, M.1
Steinemann, S.2
-
20
-
-
0035053292
-
Two novel Pao-like retrotransposons (Kamikaze and Yamato) from the silkworm species Bombyx mori and B. mandarina: Common structural features of Pao-like elements
-
10.1007/s004380000428. 11361350
-
Two novel Pao-like retrotransposons (Kamikaze and Yamato) from the silkworm species Bombyx mori and B. mandarina: common structural features of Pao-like elements. H Abe F Ohbayashi T Sugasaki M Kanehara T Terada T Shimada S Kawai K Mita Y Kanamori MT Yamamoto T Oshiki, Mol Genet Genomics 2001 265 2 375 385 http://www.springerlink.com/content/f85tfdw81qfutxav/ 10.1007/s004380000428 11361350
-
(2001)
Mol Genet Genomics
, vol.265
, Issue.2
, pp. 375-385
-
-
Abe, H.1
Ohbayashi, F.2
Sugasaki, T.3
Kanehara, M.4
Terada, T.5
Shimada, T.6
Kawai, S.7
Mita, K.8
Kanamori, Y.9
Yamamoto, M.T.10
Oshiki, T.11
-
21
-
-
79959339439
-
LTR retrotransposons from Daphnia
-
LTR retrotransposons from Daphnia. J Jurka O Kohany, Repbase Reports 2010 10 649 664
-
(2010)
Repbase Reports
, vol.10
, pp. 649-664
-
-
Jurka, J.1
Kohany, O.2
-
22
-
-
79955649699
-
The Gypsy Database (GyDB) of mobile genetic elements: Release 2.0
-
The Gypsy Database (GyDB) of mobile genetic elements: release 2.0. C Llorens R Futami L Covelli L Domínguez-Escribis JM Viu D Tamarit J Aguilar-Rodríguez M Vicente-Ripolles G Fuster GP Bernet F Maumus A Munoz-Pomer JM Sempere A Latorre A Moyawa, Nucleic Acids Res 2011 39 Database 70 D74 http://dx.doi.org/10.1093/nar/gkq1061
-
(2011)
Nucleic Acids Res
, Issue.39 DATABASE
-
-
Llorens, C.1
Futami, R.2
Covelli, L.3
Domínguez-Escribis, L.4
Viu, J.M.5
Tamarit, D.6
Aguilar-Rodríguez, J.7
Vicente-Ripolles, M.8
Fuster, G.9
Bernet, G.P.10
Maumus, F.11
Munoz-Pomer, A.12
Sempere, J.M.13
Latorre, A.14
Moyawa, A.15
-
23
-
-
79955649699
-
The Gypsy Database (GyDB) of mobile genetic elements: Release 2.0
-
The Gypsy Database (GyDB) of mobile genetic elements: release 2.0. C Llorens R Futami L Covelli L Domínguez-Escrib JM Viu D Tamarit J Aguilar-Rodríguez M Vicente-Ripolles G Fuster GP Bernet F Maumus A Munoz-Pomer JM Sempere A Latorre A Moya, Nucleic Acids Res 2010 http://dx.doi.org/10.1093/nar/gkq1061
-
(2010)
Nucleic Acids Res
-
-
Llorens, C.1
Futami, R.2
Covelli, L.3
Domínguez-Escrib, L.4
Viu, J.M.5
Tamarit, D.6
Aguilar-Rodríguez, J.7
Vicente-Ripolles, M.8
Fuster, G.9
Bernet, G.P.10
Maumus, F.11
Munoz-Pomer, A.12
Sempere, J.M.13
Latorre, A.14
Moya, A.15
-
24
-
-
24744467560
-
A genome-wide screening of BEL-Pao like retrotransposons in Anopheles gambiae by the LTR-STRUC program
-
DOI 10.1016/j.gene.2005.06.010, PII S0378111905003458
-
A genome-wide screening of BEL-Pao like retrotransposons in Anopheles gambiae by the LTR-STRUC program. RM Marsano R Caizzi, Gene 2005 357 2 115 121 http://dx.doi.org/10.1016/j.gene.2005.06.010 10.1016/j.gene.2005.06.010 16102916 (Pubitemid 41297577)
-
(2005)
Gene
, vol.357
, Issue.2
, pp. 115-121
-
-
Marsano, R.M.1
Caizzi, R.2
-
25
-
-
23844525077
-
Repbase Update, a database of eukaryotic repetitive elements
-
DOI 10.1159/000084979
-
Repbase Update, a database of eukaryotic repetitive elements. J Jurka VV Kapitonov A Pavlicek P Klonowski O Kohany J Walichiewicz, Cytogenet Genome Res 2005 110 1-4 462 467 http://dx.doi.org/10.1159/000084979 10.1159/000084979 16093699 (Pubitemid 41159923)
-
(2005)
Cytogenetic and Genome Research
, vol.110
, Issue.1-4
, pp. 462-467
-
-
Jurka, J.1
Kapitonov, V.V.2
Pavlicek, A.3
Klonowski, P.4
Kohany, O.5
Walichiewicz, J.6
-
26
-
-
34250902354
-
Genome sequence of Aedes aegypti, a major arbovirus vector
-
DOI 10.1126/science.1138878
-
Genome sequence of Aedes aegypti, a major arbovirus vector. V Nene JR Wortman D Lawson B Haas C Kodira ZJ Tu B Loftus Z Xi K Megy M Grabherr,, et al. Science 2007 316 5832 1718 1723 http://dx.doi.org/10.1126/science.1138878 10.1126/science.1138878 17510324 (Pubitemid 46988541)
-
(2007)
Science
, vol.316
, Issue.5832
, pp. 1718-1723
-
-
Nene, V.1
Wortman, J.R.2
Lawson, D.3
Haas, B.4
Kodira, C.5
Tu, Z.6
Loftus, B.7
Xi, Z.8
Megy, K.9
Grabherr, M.10
Ren, Q.11
Zdobnov, E.M.12
Lobo, N.F.13
Campbell, K.S.14
Brown, S.E.15
Bonaldo, M.F.16
Zhu, J.17
Sinkins, S.P.18
Hogenkamp, D.G.19
Amedeo, P.20
Arensburger, P.21
Atkinson, P.W.22
Bidwell, S.23
Biedler, J.24
Birney, E.25
Bruggner, R.V.26
Costas, J.27
Coy, M.R.28
Crabtree, J.29
Crawford, M.30
DeBruyn, B.31
DeCaprio, D.32
Eiglmeier, K.33
Eisenstadt, E.34
El-Dorry, H.35
Gelbart, W.M.36
Gomes, S.L.37
Hammond, M.38
Hannick, L.I.39
Hogan, J.R.40
Holmes, M.H.41
Jaffe, D.42
Johnston, J.S.43
Kennedy, R.C.44
Koo, H.45
Kravitz, S.46
Kriventseva, E.V.47
Kulp, D.48
LaButti, K.49
Lee, E.50
Li, S.51
Lovin, D.D.52
Mao, C.53
Mauceli, E.54
Menck, C.F.M.55
Miller, J.R.56
Montgomery, P.57
Mori, A.58
Nascimento, A.L.59
Naveira, H.F.60
Nusbaum, C.61
O'Leary, S.62
Orvis, J.63
Pertea, M.64
Quesneville, H.65
Reidenbach, K.R.66
Rogers, Y.-H.67
Roth, C.W.68
Schneider, J.R.69
Schatz, M.70
Shumway, M.71
Stanke, M.72
Stinson, E.O.73
Tubio, J.M.C.74
VanZee, J.P.75
Verjovski-Almeida, S.76
Werner, D.77
White, O.78
Wyder, S.79
Zeng, Q.80
Zhao, Q.81
Zhao, Y.82
Hill, C.A.83
Raikhel, A.S.84
Soares, M.B.85
Knudson, D.L.86
Lee, N.H.87
Galagan, J.88
Salzberg, S.L.89
Paulsen, I.T.90
Dimopoulos, G.91
Collins, F.H.92
Birren, B.93
Fraser-Liggett, C.M.94
Severson, D.W.95
more..
-
27
-
-
0005924596
-
Graph Clustering by Flow Simulation
-
University of Utrecht
-
Graph Clustering by Flow Simulation. S van Dongen, PhD thesis University of Utrecht 2000 http://www.micans.org/mcl/
-
(2000)
PhD Thesis
-
-
Van Dongen, S.1
-
28
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
An efficient algorithm for large-scale detection of protein families. AJ Enright SV Dongen CA Ouzounisw, Nucleic Acids Res 2002 30 7 1575 1584 http://nar.oxfordjournals.org/content/30/7/1575.abstract 10.1093/nar/30.7.1575 11917018 (Pubitemid 34679732)
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.7
, pp. 1575-1584
-
-
Enright, A.J.1
Van Dongen, S.2
Ouzounis, C.A.3
-
29
-
-
69549126582
-
Evolutionary dynamics of the LTR retrotransposons roo and rooA inferred from twelve complete Drosophila genomes
-
10.1186/1471-2148-9-205. 19689787
-
Evolutionary dynamics of the LTR retrotransposons roo and rooA inferred from twelve complete Drosophila genomes. N de la Chaux A Wagner, BMC Evol Biol 2009 9 205 http://dx.doi.org/10.1186/1471-2148-9-205 10.1186/1471-2148-9-205 19689787
-
(2009)
BMC Evol Biol
, vol.9
, pp. 205
-
-
De La Chaux, N.1
Wagner, A.2
-
30
-
-
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 http://dx.doi.org/10.1093/nar/gki198 10.1093/nar/gki198 15661851 (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
-
31
-
-
33745256005
-
Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative
-
DOI 10.1080/10635150600755453, PII T8083888667361
-
Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative. M Anisimova O Gascuel, Syst Biol 2006 55 4 539 552 http://sysbio.oxfordjournals.org/content/55/4/539 10.1080/10635150600755453 16785212 (Pubitemid 43922340)
-
(2006)
Systematic Biology
, vol.55
, Issue.4
, pp. 539-552
-
-
Anisimova, M.1
Gascuel, O.2
-
32
-
-
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 http://www.jstor.org/sici?sici=1063-5157(200310)52%3A5%3C696%3AASFAAA%3E2.0. CO%3B2-J 10.1080/10635150390235520 14530136 (Pubitemid 37365050)
-
(2003)
Systematic Biology
, vol.52
, Issue.5
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
33
-
-
0000616288
-
Nucleotide sequence of the transposable element, BEL, of Drosophila melanogaster
-
Nucleotide sequence of the transposable element, BEL, of Drosophila melanogaster. SP Davis HB Judd, Drosoph Inf Serv 1995 76 134 136
-
(1995)
Drosoph Inf Serv
, vol.76
, pp. 134-136
-
-
Davis, S.P.1
Judd, H.B.2
-
35
-
-
34548768028
-
Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes
-
DOI 10.1126/science.1142490
-
Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes. JCD Hotopp ME Clark DCSG Oliveira JM Foster P Fischer MCM Torres JD Giebel N Kumar N Ishmael S Wang J Ingram RV Nene J Shepard J Tomkins S Richards DJ Spiro E Ghedin BE Slatko H Tettelin JH Werren, Science 2007 317 5845 1753 1756 http://dx.doi.org/10.1126/science.1142490 10.1126/science.1142490 17761848 (Pubitemid 47461840)
-
(2007)
Science
, vol.317
, Issue.5845
, pp. 1753-1756
-
-
Dunning Hotopp, J.C.1
Clark, M.E.2
Oliveira, D.C.S.G.3
Foster, J.M.4
Fischer, P.5
Munoz Torres, M.C.6
Giebel, J.D.7
Kumar, N.8
Ishmael, N.9
Wang, S.10
Ingram, J.11
Nene, R.V.12
Shepard, J.13
Tomkins, J.14
Richards, S.15
Spiro, D.J.16
Ghedin, E.17
Slatko, B.E.18
Tettelin, H.19
Werren, J.H.20
more..
-
36
-
-
0033800838
-
Stress and transposable elements: Co-evolution or useful parasites?
-
11012710
-
Stress and transposable elements: co-evolution or useful parasites? P Capy G Gasperi C Biémont C Bazin, Heredity 2000 85 Pt 2 101 106 http://www.nature.com/hdy/journal/v85/n2/abs/6887510a.html 11012710
-
(2000)
Heredity
, vol.85
, Issue.PART 2
, pp. 101-106
-
-
Capy, P.1
Gasperi, G.2
Biémont, C.3
Bazin, C.4
-
37
-
-
0035208029
-
Evolutionary history of Cer elements and their impact on the C. elegans genome
-
DOI 10.1101/gr.196201
-
Evolutionary history of Cer elements and their impact on the C. elegans genome. EW Ganko KT Fielman JF McDonald, Genome Res 2001 11 12 2066 2074 http://dx.doi.org/10.1101/gr.196201 10.1101/gr.196201 11731497 (Pubitemid 33138804)
-
(2001)
Genome Research
, vol.11
, Issue.12
, pp. 2066-2074
-
-
Ganko, E.W.1
Fielman, K.T.2
McDonald, J.F.3
-
38
-
-
79959370720
-
BEL-type family of LTR-retrotransposons from Schmidtea mediterranea
-
BEL-type family of LTR-retrotransposons from Schmidtea mediterranea. J Jurka, Repbase Reports 2008 8 2 39 39
-
(2008)
Repbase Reports
, vol.8
, Issue.2
, pp. 39-39
-
-
Jurka, J.1
-
39
-
-
39749179047
-
LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons
-
10.1186/1471-2105-9-18. 18194517
-
LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons. D Ellinghaus S Kurtz U Willhoeft, BMC Bioinformatics 2008 9 18 http://dx.doi.org/10.1186/1471-2105-9-18 10.1186/1471-2105-9-18 18194517
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 18
-
-
Ellinghaus, D.1
Kurtz, S.2
Willhoeft, U.3
-
40
-
-
34247877564
-
De novo identification of LTR retrotransposons in eukaryotic genomes
-
10.1186/1471-2164-8-90. 17407597
-
De novo identification of LTR retrotransposons in eukaryotic genomes. M Rho JH Choi S Kim M Lynch H Tang, BMC Genomics 2007 8 90 http://dx.doi.org/10. 1186/1471-2164-8-90 10.1186/1471-2164-8-90 17407597
-
(2007)
BMC Genomics
, vol.8
, pp. 90
-
-
Rho, M.1
Choi, J.H.2
Kim, S.3
Lynch, M.4
Tang, H.5
-
41
-
-
77952670452
-
Identifying repeats and transposable elements in sequenced genomes: How to find your way through the dense forest of programs
-
10.1038/hdy.2009.165. 19935826
-
Identifying repeats and transposable elements in sequenced genomes: how to find your way through the dense forest of programs. E Lerat, Heredity 2010 104 6 520 533 http://dx.doi.org/10.1038/hdy.2009.165 10.1038/hdy.2009.165 19935826
-
(2010)
Heredity
, vol.104
, Issue.6
, pp. 520-533
-
-
Lerat, E.1
-
42
-
-
0028181441
-
Hidden Markov models in computational biology. Applications to protein modeling
-
10.1006/jmbi.1994.1104. 8107089
-
Hidden Markov models in computational biology. Applications to protein modeling. A Krogh M Brown IS Mian K Sjölander D Haussler, J Mol Biol 1994 235 5 1501 1531 http://dx.doi.org/10.1006/jmbi.1994.1104 10.1006/jmbi.1994.1104 8107089
-
(1994)
J Mol Biol
, vol.235
, Issue.5
, pp. 1501-1531
-
-
Krogh, A.1
Brown, M.2
Mian, I.S.3
Sjölander, K.4
Haussler, D.5
-
43
-
-
38549146894
-
The Pfam protein families database
-
The Pfam protein families database. RD Finn J Tate J Mistry PC Coggill SJ Sammut HR Hotz G Ceric K Forslund SR Eddy ELL Sonnhammer A Bateman, Nucleic Acids Res 2008 36 Database 281 D288 http://dx.doi.org/10.1093/nar/gkm960
-
(2008)
Nucleic Acids Res
, Issue.36 DATABASE
-
-
Finn, R.D.1
Tate, J.2
Mistry, J.3
Coggill, P.C.4
Sammut, S.J.5
Hotz, H.R.6
Ceric, G.7
Forslund, K.8
Eddy, S.R.9
Sonnhammer, E.L.L.10
Bateman, A.11
-
44
-
-
67650076197
-
The origins of apicomplexan sequence innovation
-
10.1101/gr.083386.108. 19363216
-
The origins of apicomplexan sequence innovation. J Wasmuth J Daub JM Peregrín-Alvarez CAM Finney J Parkinson, Genome Res 2009 19 7 1202 1213 http://dx.doi.org/10.1101/gr.083386.108 10.1101/gr.083386.108 19363216
-
(2009)
Genome Res
, vol.19
, Issue.7
, pp. 1202-1213
-
-
Wasmuth, J.1
Daub, J.2
Peregrín-Alvarez, J.M.3
Finney, C.A.M.4
Parkinson, J.5
-
45
-
-
40849094319
-
Integrating Markov clustering and molecular phylogenetics to reconstruct the cyanobacterial species tree from conserved protein families
-
DOI 10.1093/molbev/msn034
-
Integrating Markov clustering and molecular phylogenetics to reconstruct the cyanobacterial species tree from conserved protein families. WD Swingley RE Blankenship J Raymond, Mol Biol Evol 2008 25 4 643 654 http://dx.doi.org/10. 1093/molbev/msn034 10.1093/molbev/msn034 18296704 (Pubitemid 351398336)
-
(2008)
Molecular Biology and Evolution
, vol.25
, Issue.4
, pp. 643-654
-
-
Swingley, W.D.1
Blankenship, R.E.2
Raymond, J.3
-
46
-
-
0034786143
-
BioLayout - An automatic graph layout algorithm for similarity visualization
-
BioLayout-an automatic graph layout algorithm for similarity visualization. AJ Enright CA Ouzounis, Bioinformatics 2001 17 9 853 854 http://bioinformatics.oxfordjournals.org/content/17/9/853.abstract 10.1093/bioinformatics/17.9.853 11590107 (Pubitemid 32970489)
-
(2001)
Bioinformatics
, vol.17
, Issue.9
, pp. 853-854
-
-
Enright, A.J.1
Ouzounis, C.A.2
-
47
-
-
0021881958
-
The nucleotide sequences of copia and copia-related RNA in Drosophila virus-like particles
-
DOI 10.1038/315773a0
-
The nucleotide sequences of copia and copia-related RNA in Drosophila virus-like particles. Y Emori T Shiba S Kanaya S Inouye S Yuki K Saigo, Nature 1985 315 6022 773 776 10.1038/315773a0 2409449 (Pubitemid 15022936)
-
(1985)
Nature
, vol.315
, Issue.6022
, pp. 773-776
-
-
Emori, Y.1
Shiba, T.2
Kanaya, S.3
-
48
-
-
0022616156
-
Identification of genes for reverse transcriptase-like enzymes in two Drosophila retrotransposons, 412 and gypsy; a rapid detection method of reverse transcriptase genes using YXDD box probes
-
Identification of genes for reverse transcriptase-like enzymes in two Drosophila retrotransposons, 412 and gypsy; a rapid detection method of reverse transcriptase genes using YXDD box probes. S Yuki S Ishimaru S Inouye K Saigo, Nucleic Acids Res 1986 14 7 3017 3030 10.1093/nar/14.7.3017 2421255 (Pubitemid 16109019)
-
(1986)
Nucleic Acids Research
, vol.14
, Issue.7
, pp. 3017-3030
-
-
Yuki, S.1
Ishimaru, S.2
Inouye, S.3
Saigo, K.4
-
49
-
-
2642619574
-
-
PHYLIP package. http://evolution.genetics.washington.edu/phylip.html
-
PHYLIP Package
-
-
|