-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
2
-
-
0033555906
-
Tandem repeats finder: A program to analyze DNA sequences
-
Benson G (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 27: 573-580.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 573-580
-
-
Benson, G.1
-
3
-
-
33749522239
-
Junk DNA as an evolutionary force
-
Biémont C, Vieira CP (2006) Junk DNA as an evolutionary force. Nature 443: 521-524.
-
(2006)
Nature
, vol.443
, pp. 521-524
-
-
Biémont, C.1
Vieira, C.P.2
-
4
-
-
0036899717
-
High polymorphism of TPE repeats within natural populations of Drosophila melanogaster: A gradient of the 5 TPE hobo element in western Europe
-
Bonnivard E, Bazin C, Higuet D (2002) High polymorphism of TPE repeats within natural populations of Drosophila melanogaster: a gradient of the 5 TPE hobo element in western Europe. Mol Biol Evol 19: 2277-2284.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 2277-2284
-
-
Bonnivard, E.1
Bazin, C.2
Higuet, D.3
-
5
-
-
0035997904
-
Transposable element and the evolution of eukaryotic complexity
-
Bowen NJ, Jordan IK (2002) Transposable element and the evolution of eukaryotic complexity. Curr Issues Mol Biol 4: 65-76.
-
(2002)
Curr Issues Mol Biol
, vol.4
, pp. 65-76
-
-
Bowen, N.J.1
Jordan, I.K.2
-
6
-
-
0034828182
-
Drosophila euchromatic LTR retrotransposons are much younger than the host species in which they reside
-
Bowen NJ, McDonald JF (2001) Drosophila euchromatic LTR retrotransposons are much younger than the host species in which they reside. Genome Res 11: 1527-1540.
-
(2001)
Genome Res
, vol.11
, pp. 1527-1540
-
-
Bowen, N.J.1
McDonald, J.F.2
-
7
-
-
13144255696
-
The ecology of the genome-mobile DNA elements and their hosts
-
Brookfield JFY (2005) The ecology of the genome-mobile DNA elements and their hosts. Nat Rev Genet 6: 128-136.
-
(2005)
Nat Rev Genet
, vol.6
, pp. 128-136
-
-
Brookfield, J.F.Y.1
-
8
-
-
0025935671
-
Evidence for a common evolutionary origin of inverted repeat transposons in Drosophila and plants: Hobo, Activator, and Tam3
-
Calvi BR, Hong TJ, Findley SD, Gelbart WM (1991) Evidence for a common evolutionary origin of inverted repeat transposons in Drosophila and plants: hobo, Activator, and Tam3. Cell 66: 465-471.
-
(1991)
Cell
, vol.66
, pp. 465-471
-
-
Calvi, B.R.1
Hong, T.J.2
Findley, S.D.3
Gelbart, W.M.4
-
9
-
-
47149117454
-
Evolution of genes and genomes on the Drosophila phylogeny
-
Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman T, Kellis M, Gelbart W et al (2007) Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203-218.
-
(2007)
Nature
, vol.450
, pp. 203-218
-
-
Clark, A.G.1
Eisen, M.B.2
Smith, D.R.3
Bergman, C.M.4
Oliver, B.5
Markow, T.A.6
Kaufman, T.7
Kellis, M.8
Gelbart, W.9
-
11
-
-
0001910807
-
Transposable elements Bg (Zea mays) and Tag1 (Arabidopsis thaliana) encode protein sequences with homology to Ac like transposases
-
Essers L, Kunze R (1995) Transposable elements Bg (Zea mays) and Tag1 (Arabidopsis thaliana) encode protein sequences with homology to Ac like transposases. Maize Genet Coop Newslett 69: 38-41.
-
(1995)
Maize Genet Coop Newslett
, vol.69
, pp. 38-41
-
-
Essers, L.1
Kunze, R.2
-
13
-
-
56049109767
-
Different strategies to persist: The pogo-like Lemi1 transposon produces miniature inverted-repeat transposable elements or typical defective elements in different plant genomes
-
Guermonprez H, Loot C, Casacuberta JM (2008) Different strategies to persist: the pogo-like Lemi1 transposon produces miniature inverted-repeat transposable elements or typical defective elements in different plant genomes. Genetics 180: 83-92.
-
(2008)
Genetics
, vol.180
, pp. 83-92
-
-
Guermonprez, H.1
Loot, C.2
Casacuberta, J.M.3
-
14
-
-
56949105451
-
HAT-1_DP, a family of autonomous hAT transposons from Drosophila pseudoobscura
-
Kapitonov VV, Jurka J (2005) hAT-1_DP, a family of autonomous hAT transposons from Drosophila pseudoobscura. Repbase Reports 5: 44-54.
-
(2005)
Repbase Reports
, vol.5
, pp. 44-54
-
-
Kapitonov, V.V.1
Jurka, J.2
-
15
-
-
0037250168
-
The UCSC genome browser database
-
Karolchik D, Baertsch R, Diekhans M, Furey TS, Hinrichs A, Lu YT, Roskin KM, Schwartz M, Sugnet CW, Thomas DJ, Weber RJ, Haussler D, Kent WJ (2003) The UCSC genome browser database. Nucleic Acids Res 31: 51-54.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 51-54
-
-
Karolchik, D.1
Baertsch, R.2
Diekhans, M.3
Furey, T.S.4
Hinrichs, A.5
Lu, Y.T.6
Roskin, K.M.7
Schwartz, M.8
Sugnet, C.W.9
Thomas, D.J.10
Weber, R.J.11
Haussler, D.12
Kent, W.J.13
-
16
-
-
0347755531
-
The UCSC Table Browser data retrieval tool
-
Karolchik D, Hinrichs AS, Furey TS, Roskin KM, Sugnet CW, Haussler D, Kent WJ (2004) The UCSC Table Browser data retrieval tool. Nucleic Acids Res 32: D493-D496.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Karolchik, D.1
Hinrichs, A.S.2
Furey, T.S.3
Roskin, K.M.4
Sugnet, C.W.5
Haussler, D.6
Kent, W.J.7
-
17
-
-
0029806170
-
Restless, an active Ac-like transposon from the fungus Tolypocladium inflatum: Structure, expression, and alternative RNA splicing
-
Kempken F, Kück U (1996) Restless, an active Ac-like transposon from the fungus Tolypocladium inflatum: structure, expression, and alternative RNA splicing. Mol Cell Biol 16: 6563-6572.
-
(1996)
Mol Cell Biol
, vol.16
, pp. 6563-6572
-
-
Kempken, F.1
Kück, U.2
-
18
-
-
0035035214
-
The hAT family: A versatile transposon group common to plants, fungi, animals, and man
-
Kempken F, Windhofer F (2001) The hAT family: a versatile transposon group common to plants, fungi, animals, and man. Chromosoma 110: 1-9.
-
(2001)
Chromosoma
, vol.110
, pp. 1-9
-
-
Kempken, F.1
Windhofer, F.2
-
19
-
-
0036226603
-
BLAT-the blast-like alignment tool
-
Kent WJ (2002) BLAT-the blast-like alignment tool. Genome Res 12: 656-664.
-
(2002)
Genome Res
, vol.12
, pp. 656-664
-
-
Kent, W.J.1
-
20
-
-
0035105221
-
Transposable elements, parasitic DNA, and genome evolution
-
Kidwell MG, Lisch DR (2001) Transposable elements, parasitic DNA, and genome evolution. Evolution 55: 1-24.
-
(2001)
Evolution
, vol.55
, pp. 1-24
-
-
Kidwell, M.G.1
Lisch, D.R.2
-
21
-
-
67650272723
-
Theoretical approaches to the dynamics of transposable elements in genomes, populations, and species
-
D. H. Lankenau and J. N. Volff (Eds.), Berlin: Springer
-
Le Rouzic A, Capy P (2009) Theoretical approaches to the dynamics of transposable elements in genomes, populations, and species. In: Lankenau DH, Volff JN (eds) Transposons and the dynamic genome. Springer, Berlin.
-
(2009)
Transposons and the Dynamic Genome
-
-
Le Rouzic, A.1
Capy, P.2
-
22
-
-
37649005250
-
Long-term evolution of transposable elements
-
Le Rouzic A, Boutin TS, Capy P (2007a) Long-term evolution of transposable elements. Proc Natl Acad Sci USA 104(49): 19375-19380.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, Issue.49
, pp. 19375-19380
-
-
Le Rouzic, A.1
Boutin, T.S.2
Capy, P.3
-
23
-
-
33846902534
-
Genome ecosystem and transposable elements species
-
Le Rouzic A, Dupas S, Capy P (2007b) Genome ecosystem and transposable elements species. Gene 390: 214-220.
-
(2007)
Gene
, vol.390
, pp. 214-220
-
-
Le Rouzic, A.1
Dupas, S.2
Capy, P.3
-
24
-
-
0042525765
-
Sequence divergence within transposable element families in the Drosophila melanogaster genome
-
Lerat E, Rizzon C, Biémont C (2003) Sequence divergence within transposable element families in the Drosophila melanogaster genome. Genome Res 13: 1889-1896.
-
(2003)
Genome Res
, vol.13
, pp. 1889-1896
-
-
Lerat, E.1
Rizzon, C.2
Biémont, C.3
-
26
-
-
47149095750
-
The hobo-related elements in the melanogaster species group
-
Ortiz MF, Loreto ELS (2008) The hobo-related elements in the melanogaster species group. Genet Res 90(3): 243-252.
-
(2008)
Genet Res
, vol.90
, Issue.3
, pp. 243-252
-
-
Ortiz, M.F.1
Loreto, E.L.S.2
-
27
-
-
56949101240
-
Characterization of new hAT transposable elements in 12 Drosophila genomes
-
Ortiz MF, Loreto ELS (2009) Characterization of new hAT transposable elements in 12 Drosophila genomes. Genetica 135(1): 67-75.
-
(2009)
Genetica
, vol.135
, Issue.1
, pp. 67-75
-
-
Ortiz, M.F.1
Loreto, E.L.S.2
-
28
-
-
34250776711
-
A family of human microRNA genes from miniature inverted-repeat transposable elements
-
Piriyapongsa J, Jordan IK (2007) A family of human microRNA genes from miniature inverted-repeat transposable elements. PLoS ONE 2(2): e203.
-
(2007)
PLoS ONE
, vol.2
, Issue.2
-
-
Piriyapongsa, J.1
Jordan, I.K.2
-
29
-
-
33748510207
-
P elements and MITE relatives in the whole genome sequence of Anopheles gambiae
-
Quesneville H, Nouaud D, Anxolabéhère D (2006) P elements and MITE relatives in the whole genome sequence of Anopheles gambiae. BMC Genomics 7: 214.
-
(2006)
BMC Genomics
, vol.7
, pp. 214
-
-
Quesneville, H.1
Nouaud, D.2
Anxolabéhère, D.3
-
30
-
-
0346726028
-
Behavior of the hobo transposable element with regard to TPE repeats in transgenic lines of Drosophila melanogaster
-
Souames S, Bazin C, Bonnivard E, Higuet D (2003) Behavior of the hobo transposable element with regard to TPE repeats in transgenic lines of Drosophila melanogaster. Mol Biol Evol 20: 2055-2066.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 2055-2066
-
-
Souames, S.1
Bazin, C.2
Bonnivard, E.3
Higuet, D.4
-
31
-
-
34547781750
-
MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4.0
-
Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4. 0. Mol Biol Evol 24: 1596-1599.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
32
-
-
0032964297
-
Blast 2 sequences-a new tool for comparing protein and nucleotide sequences
-
Tatusova TA, Madden ML (1999) Blast 2 sequences-a new tool for comparing protein and nucleotide sequences. FEMS Microbiol Lett 174: 247-250.
-
(1999)
FEMS Microbiol Lett
, vol.174
, pp. 247-250
-
-
Tatusova, T.A.1
Madden, M.L.2
-
33
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
34
-
-
67650117674
-
Infra- and transspecific clues to understanding the dynamics of transposable elements
-
D. H. Lankenau and J. N. Volff (Eds.), Berlin: Springer-Verlag
-
Vieira C, Fablet M, Lerat E (2009) Infra- and transspecific clues to understanding the dynamics of transposable elements. In: Lankenau DH, Volff JN (eds) Transposons and the dynamic genome. Springer-Verlag, Berlin.
-
(2009)
Transposons and the Dynamic Genome
-
-
Vieira, C.1
Fablet, M.2
Lerat, E.3
-
35
-
-
33748936552
-
Turning junk into gold: Domestication of transposable elements and the creation of new genes in eukaryotes
-
Volff JN (2006) Turning junk into gold: domestication of transposable elements and the creation of new genes in eukaryotes. Bioessays 28: 913-922.
-
(2006)
Bioessays
, vol.28
, pp. 913-922
-
-
Volff, J.N.1
-
36
-
-
36249023071
-
A unified classification system for eukaryotic transposable elements
-
Wicker T, Sabot F, Hua-van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O, Paux E, SanMiguel P, Schulman AH (2007) A unified classification system for eukaryotic transposable elements. Nat Rev Genet 8: 973-982.
-
(2007)
Nat Rev Genet
, vol.8
, pp. 973-982
-
-
Wicker, T.1
Sabot, F.2
Hua-van, A.3
Bennetzen, J.L.4
Capy, P.5
Chalhoub, B.6
Flavell, A.7
Leroy, P.8
Morgante, M.9
Panaud, O.10
Paux, E.11
Sanmiguel, P.12
Schulman, A.H.13
-
37
-
-
43549088103
-
Abundant and species-specific DINE-1 transposable elements in 12 Drosophila genomes
-
Yang HP, Barbash DA (2008) Abundant and species-specific DINE-1 transposable elements in 12 Drosophila genomes. Genome Biol. 9: R39.
-
(2008)
Genome Biol.
, vol.9
-
-
Yang, H.P.1
Barbash, D.A.2
|