-
1
-
-
1542513556
-
Mobile Elements: Drivers of Genome Evolution
-
10.1126/science.1089670, 15016989
-
Kazazian HH. Mobile Elements: Drivers of Genome Evolution. Science 2004, 303(5664):1626-1632. 10.1126/science.1089670, 15016989.
-
(2004)
Science
, vol.303
, Issue.5664
, pp. 1626-1632
-
-
Kazazian, H.H.1
-
2
-
-
21144441344
-
Lineage-specific expansions of retroviral insertions within the genomes of African great apes but not humans and orangutans
-
10.1371/journal.pbio.0030110, 1054887, 15737067
-
Yohn CT, Jiang Z, McGrath SD, Hayden KE, Khaitovich P, Johnson ME, Eichler MY, McPherson JD, Zhao S, Paabo S, et al. Lineage-specific expansions of retroviral insertions within the genomes of African great apes but not humans and orangutans. PLoS Biol 2005, 3(4):e110. 10.1371/journal.pbio.0030110, 1054887, 15737067.
-
(2005)
PLoS Biol
, vol.3
, Issue.4
-
-
Yohn, C.T.1
Jiang, Z.2
McGrath, S.D.3
Hayden, K.E.4
Khaitovich, P.5
Johnson, M.E.6
Eichler, M.Y.7
McPherson, J.D.8
Zhao, S.9
Paabo, S.10
-
3
-
-
44849120649
-
Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition
-
10.1101/gr.075770.107, 2413154,2413154, 18381897
-
Akagi K, Li J, Stephens RM, Volfovsky N, Symer DE. Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition. Genome Research 2008, 18(6):869-880. 10.1101/gr.075770.107, 2413154,2413154, 18381897.
-
(2008)
Genome Research
, vol.18
, Issue.6
, pp. 869-880
-
-
Akagi, K.1
Li, J.2
Stephens, R.M.3
Volfovsky, N.4
Symer, D.E.5
-
4
-
-
8544229065
-
Natural genetic variation caused by transposable elements in humans
-
10.1534/genetics.104.031757, 1448813, 15514065
-
Bennett EA, Coleman LE, Tsui C, Pittard WS, Devine SE. Natural genetic variation caused by transposable elements in humans. Genetics 2004, 168(2):933-951. 10.1534/genetics.104.031757, 1448813, 15514065.
-
(2004)
Genetics
, vol.168
, Issue.2
, pp. 933-951
-
-
Bennett, E.A.1
Coleman, L.E.2
Tsui, C.3
Pittard, W.S.4
Devine, S.E.5
-
5
-
-
33645464594
-
Recently mobilized transposons in the human and chimpanzee genomes
-
10.1086/501028, 1424692, 16532396
-
Mills RE, Bennett EA, Iskow RC, Luttig CT, Tsui C, Pittard WS, Devine SE. Recently mobilized transposons in the human and chimpanzee genomes. American journal of human genetics 2006, 78(4):671-679. 10.1086/501028, 1424692, 16532396.
-
(2006)
American journal of human genetics
, vol.78
, Issue.4
, pp. 671-679
-
-
Mills, R.E.1
Bennett, E.A.2
Iskow, R.C.3
Luttig, C.T.4
Tsui, C.5
Pittard, W.S.6
Devine, S.E.7
-
6
-
-
34247344319
-
Retrotransposable elements and human disease
-
Callinan PA, Batzer MA. Retrotransposable elements and human disease. Genome Dyn 2006, 1:104-115.
-
(2006)
Genome Dyn
, vol.1
, pp. 104-115
-
-
Callinan, P.A.1
Batzer, M.A.2
-
7
-
-
0032796376
-
Alu repeats and human disease
-
10.1006/mgme.1999.2864, 10381326
-
Deininger PL, Batzer MA. Alu repeats and human disease. Molecular genetics and metabolism 1999, 67(3):183-193. 10.1006/mgme.1999.2864, 10381326.
-
(1999)
Molecular genetics and metabolism
, vol.67
, Issue.3
, pp. 183-193
-
-
Deininger, P.L.1
Batzer, M.A.2
-
8
-
-
0032102720
-
Mobile elements and disease
-
10.1016/S0959-437X(98)80092-0, 21745151
-
Kazazian HH. Mobile elements and disease. Current Opinion in Genetics & Development 1998, 8(3):343-350. 10.1016/S0959-437X(98)80092-0, 21745151.
-
(1998)
Current Opinion in Genetics & Development
, vol.8
, Issue.3
, pp. 343-350
-
-
Kazazian, H.H.1
-
9
-
-
55549102967
-
Keeping active endogenous retroviral-like elements in check: the epigenetic perspective
-
10.1007/s00018-008-8494-3, 18818875
-
Maksakova IA, Mager DL, Reiss D. Keeping active endogenous retroviral-like elements in check: the epigenetic perspective. Cell Mol Life Sci 2008, 65(21):3329-3347. 10.1007/s00018-008-8494-3, 18818875.
-
(2008)
Cell Mol Life Sci
, vol.65
, Issue.21
, pp. 3329-3347
-
-
Maksakova, I.A.1
Mager, D.L.2
Reiss, D.3
-
10
-
-
34250870205
-
APOBEC3 proteins: major players in intracellular defence against LINE-1-mediated retrotransposition
-
Schumann GG. APOBEC3 proteins: major players in intracellular defence against LINE-1-mediated retrotransposition. Biochemical Society transactions 2007, 35(Pt 3):637-642.
-
(2007)
Biochemical Society transactions
, vol.35
, Issue.PART 3
, pp. 637-642
-
-
Schumann, G.G.1
-
11
-
-
77953810795
-
Transposable elements in the mammalian germline: a comfortable niche or a deadly trap?
-
10.1038/hdy.2010.53, 20442734
-
Zamudio N, Bourc'his D. Transposable elements in the mammalian germline: a comfortable niche or a deadly trap?. Heredity 2010, 105(1):92-104. 10.1038/hdy.2010.53, 20442734.
-
(2010)
Heredity
, vol.105
, Issue.1
, pp. 92-104
-
-
Zamudio, N.1
Bourc'his, D.2
-
12
-
-
1542563409
-
Initial sequencing and comparative analysis of the mouse genome
-
10.1038/nature01262, 12466850
-
Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, Ainscough R, Alexandersson M, An P, et al. Initial sequencing and comparative analysis of the mouse genome. Nature 2002, 420(6915):520-562. 10.1038/nature01262, 12466850.
-
(2002)
Nature
, vol.420
, Issue.6915
, pp. 520-562
-
-
Waterston, R.H.1
Lindblad-Toh, K.2
Birney, E.3
Rogers, J.4
Abril, J.F.5
Agarwal, P.6
Agarwala, R.7
Ainscough, R.8
Alexandersson, M.9
An, P.10
-
13
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
10.1038/35057062, 11237011
-
Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, et al. Initial sequencing and analysis of the human genome. Nature 2001, 409(6822):860-921. 10.1038/35057062, 11237011.
-
(2001)
Nature
, vol.409
, Issue.6822
, pp. 860-921
-
-
Lander, E.S.1
Linton, L.M.2
Birren, B.3
Nusbaum, C.4
Zody, M.C.5
Baldwin, J.6
Devon, K.7
Dewar, K.8
Doyle, M.9
FitzHugh, W.10
-
14
-
-
33645757337
-
Retroviral elements and their hosts: insertional mutagenesis in the mouse germ line
-
10.1371/journal.pgen.0020002, 1331978, 16440055
-
Maksakova IA, Romanish MT, Gagnier L, Dunn CA, van de Lagemaat LN, Mager DL. Retroviral elements and their hosts: insertional mutagenesis in the mouse germ line. PLoS genetics 2006, 2(1):e2. 10.1371/journal.pgen.0020002, 1331978, 16440055.
-
(2006)
PLoS genetics
, vol.2
, Issue.1
-
-
Maksakova, I.A.1
Romanish, M.T.2
Gagnier, L.3
Dunn, C.A.4
van de Lagemaat, L.N.5
Mager, D.L.6
-
16
-
-
55549096355
-
Murine endogenous retroviruses
-
10.1007/s00018-008-8497-0, 18818872
-
Stocking C, Kozak CA. Murine endogenous retroviruses. Cell Mol Life Sci 2008, 65(21):3383-3398. 10.1007/s00018-008-8497-0, 18818872.
-
(2008)
Cell Mol Life Sci
, vol.65
, Issue.21
, pp. 3383-3398
-
-
Stocking, C.1
Kozak, C.A.2
-
17
-
-
0035146194
-
The evolution of modern lineages of mouse L1 elements
-
Mears ML, Hutchison CA. The evolution of modern lineages of mouse L1 elements. J Mol Evol 2001, 52(1):51-62.
-
(2001)
J Mol Evol
, vol.52
, Issue.1
, pp. 51-62
-
-
Mears, M.L.1
Hutchison, C.A.2
-
18
-
-
0034760666
-
A novel active L1 retrotransposon subfamily in the mouse
-
10.1101/gr.198301, 311137, 11591644
-
Goodier JL, Ostertag EM, Du K, Kazazian HH. A novel active L1 retrotransposon subfamily in the mouse. Genome Res 2001, 11(10):1677-1685. 10.1101/gr.198301, 311137, 11591644.
-
(2001)
Genome Res
, vol.11
, Issue.10
, pp. 1677-1685
-
-
Goodier, J.L.1
Ostertag, E.M.2
Du, K.3
Kazazian, H.H.4
-
19
-
-
0032518909
-
An actively retrotransposing, novel subfamily of mouse L1 elements
-
10.1093/emboj/17.2.590, 1170408, 9430649
-
Naas TP, DeBerardinis RJ, Moran JV, Ostertag EM, Kingsmore SF, Seldin MF, Hayashizaki Y, Martin SL, Kazazian HH. An actively retrotransposing, novel subfamily of mouse L1 elements. Embo J 1998, 17(2):590-597. 10.1093/emboj/17.2.590, 1170408, 9430649.
-
(1998)
Embo J
, vol.17
, Issue.2
, pp. 590-597
-
-
Naas, T.P.1
DeBerardinis, R.J.2
Moran, J.V.3
Ostertag, E.M.4
Kingsmore, S.F.5
Seldin, M.F.6
Hayashizaki, Y.7
Martin, S.L.8
Kazazian, H.H.9
-
20
-
-
13444282428
-
L1Base: from functional annotation to prediction of active LINE-1 elements
-
539998, 15608246
-
Penzkofer T, Dandekar T, Zemojtel T. L1Base: from functional annotation to prediction of active LINE-1 elements. Nucl Acids Res 2005, 33(suppl_1):D498-500. 539998, 15608246.
-
(2005)
Nucl Acids Res
, vol.33
, Issue.SUPPL. 1
-
-
Penzkofer, T.1
Dandekar, T.2
Zemojtel, T.3
-
21
-
-
0036250811
-
Alu repeats and human genomic diversity
-
10.1038/nrg798, 11988762
-
Batzer MA, Deininger PL. Alu repeats and human genomic diversity. Nat Rev Genet 2002, 3(5):370-379. 10.1038/nrg798, 11988762.
-
(2002)
Nat Rev Genet
, vol.3
, Issue.5
, pp. 370-379
-
-
Batzer, M.A.1
Deininger, P.L.2
-
22
-
-
0022388991
-
Repeat sequence families derived from mammalian tRNA genes
-
10.1038/317819a0, 3851163
-
Daniels GR, Deininger PL. Repeat sequence families derived from mammalian tRNA genes. Nature 1985, 317(6040):819-822. 10.1038/317819a0, 3851163.
-
(1985)
Nature
, vol.317
, Issue.6040
, pp. 819-822
-
-
Daniels, G.R.1
Deininger, P.L.2
-
23
-
-
33947731008
-
Mighty Piwis defend the germline against genome intruders
-
10.1016/j.cell.2007.03.028, 17418784
-
O'Donnell KA, Boeke JD. Mighty Piwis defend the germline against genome intruders. Cell 2007, 129(1):37-44. 10.1016/j.cell.2007.03.028, 17418784.
-
(2007)
Cell
, vol.129
, Issue.1
, pp. 37-44
-
-
O'Donnell, K.A.1
Boeke, J.D.2
-
24
-
-
58749097426
-
Small RNAs in transcriptional gene silencing and genome defence
-
10.1038/nature07756, 19158787
-
Moazed D. Small RNAs in transcriptional gene silencing and genome defence. Nature 2009, 457(7228):413-420. 10.1038/nature07756, 19158787.
-
(2009)
Nature
, vol.457
, Issue.7228
, pp. 413-420
-
-
Moazed, D.1
-
25
-
-
77649296195
-
Small RNAs in mammalian germline: Tiny for immortal
-
10.1016/j.diff.2009.11.002, 20227007
-
Tang F. Small RNAs in mammalian germline: Tiny for immortal. Differentiation 2010, 79(3):141-146. 10.1016/j.diff.2009.11.002, 20227007.
-
(2010)
Differentiation
, vol.79
, Issue.3
, pp. 141-146
-
-
Tang, F.1
-
26
-
-
38849167412
-
Biogenesis and germline functions of piRNAs
-
Klattenhoff C, Theurkauf W. Biogenesis and germline functions of piRNAs. Development 2008, 135(1):3-9.
-
(2008)
Development
, vol.135
, Issue.1
, pp. 3-9
-
-
Klattenhoff, C.1
Theurkauf, W.2
-
27
-
-
33745336617
-
A germline-specific class of small RNAs binds mammalian Piwi proteins
-
Girard A, Sachidanandam R, Hannon GJ, Carmell MA. A germline-specific class of small RNAs binds mammalian Piwi proteins. Nature 2006, 442(7099):199-202.
-
(2006)
Nature
, vol.442
, Issue.7099
, pp. 199-202
-
-
Girard, A.1
Sachidanandam, R.2
Hannon, G.J.3
Carmell, M.A.4
-
28
-
-
33746527679
-
Characterization of the piRNA complex from rat testes
-
10.1126/science.1130164, 16778019
-
Lau NC, Seto AG, Kim J, Kuramochi-Miyagawa S, Nakano T, Bartel DP, Kingston RE. Characterization of the piRNA complex from rat testes. Science 2006, 313(5785):363-367. 10.1126/science.1130164, 16778019.
-
(2006)
Science
, vol.313
, Issue.5785
, pp. 363-367
-
-
Lau, N.C.1
Seto, A.G.2
Kim, J.3
Kuramochi-Miyagawa, S.4
Nakano, T.5
Bartel, D.P.6
Kingston, R.E.7
-
29
-
-
34248160438
-
Developmentally Regulated piRNA Clusters Implicate MILI in Transposon Control
-
10.1126/science.1142612, 17446352
-
Aravin AA, Sachidanandam R, Girard A, Fejes-Toth K, Hannon GJ. Developmentally Regulated piRNA Clusters Implicate MILI in Transposon Control. Science 2007, 316(5825):744-747. 10.1126/science.1142612, 17446352.
-
(2007)
Science
, vol.316
, Issue.5825
, pp. 744-747
-
-
Aravin, A.A.1
Sachidanandam, R.2
Girard, A.3
Fejes-Toth, K.4
Hannon, G.J.5
-
30
-
-
33947720638
-
MIWI2 is essential for spermatogenesis and repression of transposons in the mouse male germline
-
10.1016/j.devcel.2007.03.001, 17395546
-
Carmell MA, Girard A, van de Kant HJ, Bourc'his D, Bestor TH, de Rooij DG, Hannon GJ. MIWI2 is essential for spermatogenesis and repression of transposons in the mouse male germline. Dev Cell 2007, 12(4):503-514. 10.1016/j.devcel.2007.03.001, 17395546.
-
(2007)
Dev Cell
, vol.12
, Issue.4
, pp. 503-514
-
-
Carmell, M.A.1
Girard, A.2
van de Kant, H.J.3
Bourc'his, D.4
Bestor, T.H.5
de Rooij, D.G.6
Hannon, G.J.7
-
31
-
-
52049098967
-
A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice
-
10.1016/j.molcel.2008.09.003, 2730041, 18922463
-
Aravin AA, Sachidanandam R, Bourc'his D, Schaefer C, Pezic D, Toth KF, Bestor T, Hannon GJ. A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice. Molecular cell 2008, 31(6):785-799. 10.1016/j.molcel.2008.09.003, 2730041, 18922463.
-
(2008)
Molecular cell
, vol.31
, Issue.6
, pp. 785-799
-
-
Aravin, A.A.1
Sachidanandam, R.2
Bourc'his, D.3
Schaefer, C.4
Pezic, D.5
Toth, K.F.6
Bestor, T.7
Hannon, G.J.8
-
32
-
-
41649116098
-
DNA methylation of retrotransposon genes is regulated by Piwi family members MILI and MIWI2 in murine fetal testes
-
10.1101/gad.1640708, 2279202, 18381894
-
Kuramochi-Miyagawa S, Watanabe T, Gotoh K, Totoki Y, Toyoda A, Ikawa M, Asada N, Kojima K, Yamaguchi Y, Ijiri TW, et al. DNA methylation of retrotransposon genes is regulated by Piwi family members MILI and MIWI2 in murine fetal testes. Genes Dev 2008, 22(7):908-917. 10.1101/gad.1640708, 2279202, 18381894.
-
(2008)
Genes Dev
, vol.22
, Issue.7
, pp. 908-917
-
-
Kuramochi-Miyagawa, S.1
Watanabe, T.2
Gotoh, K.3
Totoki, Y.4
Toyoda, A.5
Ikawa, M.6
Asada, N.7
Kojima, K.8
Yamaguchi, Y.9
Ijiri, T.W.10
-
33
-
-
72849132752
-
Imprinting and epigenetic changes in the early embryo
-
10.1007/s00335-009-9225-2, 19760320
-
Weaver JR, Susiarjo M, Bartolomei MS. Imprinting and epigenetic changes in the early embryo. Mamm Genome 2009, 20(9-10):532-543. 10.1007/s00335-009-9225-2, 19760320.
-
(2009)
Mamm Genome
, vol.20
, Issue.9-10
, pp. 532-543
-
-
Weaver, J.R.1
Susiarjo, M.2
Bartolomei, M.S.3
-
34
-
-
36749037521
-
The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race
-
10.1126/science.1146484, 17975059
-
Aravin AA, Hannon GJ, Brennecke J. The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race. Science 2007, 318(5851):761-764. 10.1126/science.1146484, 17975059.
-
(2007)
Science
, vol.318
, Issue.5851
, pp. 761-764
-
-
Aravin, A.A.1
Hannon, G.J.2
Brennecke, J.3
-
35
-
-
0028925748
-
Tightly regulated, developmentally specific expression of the first open reading frame from LINE-1 during mouse embryogenesis
-
10.1073/pnas.92.5.1520, 42551, 7878012
-
Trelogan SA, Martin SL. Tightly regulated, developmentally specific expression of the first open reading frame from LINE-1 during mouse embryogenesis. Proc Natl Acad Sci USA 1995, 92(5):1520-1524. 10.1073/pnas.92.5.1520, 42551, 7878012.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, Issue.5
, pp. 1520-1524
-
-
Trelogan, S.A.1
Martin, S.L.2
-
36
-
-
0029898690
-
Germ line-specific expression of intracisternal A-particle retrotransposons in transgenic mice
-
231448, 8754850
-
Dupressoir A, Heidmann T. Germ line-specific expression of intracisternal A-particle retrotransposons in transgenic mice. Molecular and cellular biology 1996, 16(8):4495-4503. 231448, 8754850.
-
(1996)
Molecular and cellular biology
, vol.16
, Issue.8
, pp. 4495-4503
-
-
Dupressoir, A.1
Heidmann, T.2
-
37
-
-
0034829922
-
Two mouse piwi-related genes: miwi and mili
-
10.1016/S0925-4773(01)00499-3, 11578866
-
Kuramochi-Miyagawa S, Kimura T, Yomogida K, Kuroiwa A, Tadokoro Y, Fujita Y, Sato M, Matsuda Y, Nakano T. Two mouse piwi-related genes: miwi and mili. Mech Dev 2001, 108(1-2):121-133. 10.1016/S0925-4773(01)00499-3, 11578866.
-
(2001)
Mech Dev
, vol.108
, Issue.1-2
, pp. 121-133
-
-
Kuramochi-Miyagawa, S.1
Kimura, T.2
Yomogida, K.3
Kuroiwa, A.4
Tadokoro, Y.5
Fujita, Y.6
Sato, M.7
Matsuda, Y.8
Nakano, T.9
-
38
-
-
10744223519
-
Mili, a mammalian member of piwi family gene, is essential for spermatogenesis
-
10.1242/dev.00973, 14736746
-
Kuramochi-Miyagawa S, Kimura T, Ijiri TW, Isobe T, Asada N, Fujita Y, Ikawa M, Iwai N, Okabe M, Deng W, et al. Mili, a mammalian member of piwi family gene, is essential for spermatogenesis. Development 2004, 131(4):839-849. 10.1242/dev.00973, 14736746.
-
(2004)
Development
, vol.131
, Issue.4
, pp. 839-849
-
-
Kuramochi-Miyagawa, S.1
Kimura, T.2
Ijiri, T.W.3
Isobe, T.4
Asada, N.5
Fujita, Y.6
Ikawa, M.7
Iwai, N.8
Okabe, M.9
Deng, W.10
-
39
-
-
75549084786
-
DeepBase: a database for deeply annotating and mining deep sequencing data
-
10.1093/nar/gkp943, 2808990, 19966272
-
Yang JH, Shao P, Zhou H, Chen YQ, Qu LH. deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic Acids Res 2010, 38(Database):D123-130. 10.1093/nar/gkp943, 2808990, 19966272.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Yang, J.H.1
Shao, P.2
Zhou, H.3
Chen, Y.Q.4
Qu, L.H.5
-
40
-
-
23844525077
-
Repbase Update, a database of eukaryotic repetitive elements
-
10.1159/000084979, 16093699
-
Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, Walichiewicz J. Repbase Update, a database of eukaryotic repetitive elements. Cytogenet Genome Res 2005, 110(1-4):462-467. 10.1159/000084979, 16093699.
-
(2005)
Cytogenet Genome Res
, 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
-
41
-
-
34249937354
-
Thousands of human mobile element fragments undergo strong purifying selection near developmental genes
-
10.1073/pnas.0611223104, 1876562, 17463089
-
Lowe CB, Bejerano G, Haussler D. Thousands of human mobile element fragments undergo strong purifying selection near developmental genes. Proc Natl Acad Sci USA 2007, 104(19):8005-8010. 10.1073/pnas.0611223104, 1876562, 17463089.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, Issue.19
, pp. 8005-8010
-
-
Lowe, C.B.1
Bejerano, G.2
Haussler, D.3
-
42
-
-
74549153240
-
Alu and b1 repeats have been selectively retained in the upstream and intronic regions of genes of specific functional classes
-
2784220, 20019790
-
Tsirigos A, Rigoutsos I. Alu and b1 repeats have been selectively retained in the upstream and intronic regions of genes of specific functional classes. PLoS Comput Biol 2009, 5(12):e1000610.. 2784220, 20019790.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.12
-
-
Tsirigos, A.1
Rigoutsos, I.2
-
43
-
-
50849096091
-
Analysis of transposon interruptions suggests selection for L1 elements on the × chromosome
-
10.1371/journal.pgen.1000172, 2517846, 18769724
-
Abrusan G, Giordano J, Warburton PE. Analysis of transposon interruptions suggests selection for L1 elements on the × chromosome. PLoS genetics 2008, 4(8):e1000172. 10.1371/journal.pgen.1000172, 2517846, 18769724.
-
(2008)
PLoS genetics
, vol.4
, Issue.8
-
-
Abrusan, G.1
Giordano, J.2
Warburton, P.E.3
-
44
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
10.1073/pnas.0400782101, 395923, 15075390
-
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, et al. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci USA 2004, 101(16):6062-6067. 10.1073/pnas.0400782101, 395923, 15075390.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, Issue.16
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
-
45
-
-
70449953975
-
The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs
-
Jacquier A. The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs. Nat Rev Genet 2009, 10(12):833-844.
-
(2009)
Nat Rev Genet
, vol.10
, Issue.12
, pp. 833-844
-
-
Jacquier, A.1
-
46
-
-
57849140661
-
Divergent transcription from active promoters
-
10.1126/science.1162253, 2692996, 19056940
-
Seila AC, Calabrese JM, Levine SS, Yeo GW, Rahl PB, Flynn RA, Young RA, Sharp PA. Divergent transcription from active promoters. Science 2008, 322(5909):1849-1851. 10.1126/science.1162253, 2692996, 19056940.
-
(2008)
Science
, vol.322
, Issue.5909
, pp. 1849-1851
-
-
Seila, A.C.1
Calabrese, J.M.2
Levine, S.S.3
Yeo, G.W.4
Rahl, P.B.5
Flynn, R.A.6
Young, R.A.7
Sharp, P.A.8
-
47
-
-
0036798062
-
Retroelement distributions in the human genome: variations associated with age and proximity to genes
-
10.1101/gr.388902, 187529, 12368240
-
Medstrand P, van de Lagemaat LN, Mager DL. Retroelement distributions in the human genome: variations associated with age and proximity to genes. Genome Res 2002, 12(10):1483-1495. 10.1101/gr.388902, 187529, 12368240.
-
(2002)
Genome Res
, vol.12
, Issue.10
, pp. 1483-1495
-
-
Medstrand, P.1
van de Lagemaat, L.N.2
Mager, D.L.3
-
48
-
-
79957578583
-
Experimental design, preprocessing, normalization and differential expression analysis of small RNA sequencing experiments
-
10.1186/1758-907X-2-2, 3055805, 21356093
-
McCormick KP, Willmann MR, Meyers BC. Experimental design, preprocessing, normalization and differential expression analysis of small RNA sequencing experiments. Silence 2011, 2(1):2.. 10.1186/1758-907X-2-2, 3055805, 21356093.
-
(2011)
Silence
, vol.2
, Issue.1
-
-
McCormick, K.P.1
Willmann, M.R.2
Meyers, B.C.3
-
49
-
-
44849120649
-
Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition
-
10.1101/gr.075770.107, 2413154,2413154, 18381897
-
Akagi K, Li J, Stephens RM, Volfovsky N, Symer DE. Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition. Genome Res 2008, 18(6):869-880. 10.1101/gr.075770.107, 2413154,2413154, 18381897.
-
(2008)
Genome Res
, vol.18
, Issue.6
, pp. 869-880
-
-
Akagi, K.1
Li, J.2
Stephens, R.M.3
Volfovsky, N.4
Symer, D.E.5
-
50
-
-
0027497504
-
The mouse intracisternal A particle-promoted placental gene retrotransposition is mouse-strain-specific
-
10.1073/pnas.90.1.292, 45646, 7678343
-
Chang-Yeh A, Mold DE, Brilliant MH, Huang RC. The mouse intracisternal A particle-promoted placental gene retrotransposition is mouse-strain-specific. Proc Natl Acad Sci USA 1993, 90(1):292-296. 10.1073/pnas.90.1.292, 45646, 7678343.
-
(1993)
Proc Natl Acad Sci USA
, vol.90
, Issue.1
, pp. 292-296
-
-
Chang-Yeh, A.1
Mold, D.E.2
Brilliant, M.H.3
Huang, R.C.4
-
51
-
-
34547519199
-
Evolution of chromosome organization driven by selection for reduced gene expression noise
-
10.1038/ng2071, 17660811
-
Batada NN, Hurst LD. Evolution of chromosome organization driven by selection for reduced gene expression noise. Nat Genet 2007, 39(8):945-949. 10.1038/ng2071, 17660811.
-
(2007)
Nat Genet
, vol.39
, Issue.8
, pp. 945-949
-
-
Batada, N.N.1
Hurst, L.D.2
-
52
-
-
51049102332
-
Ripples from neighbouring transcription
-
10.1038/ncb1771, 19160492
-
Ebisuya M, Yamamoto T, Nakajima M, Nishida E. Ripples from neighbouring transcription. Nat Cell Biol 2008, 10(9):1106-1113. 10.1038/ncb1771, 19160492.
-
(2008)
Nat Cell Biol
, vol.10
, Issue.9
, pp. 1106-1113
-
-
Ebisuya, M.1
Yamamoto, T.2
Nakajima, M.3
Nishida, E.4
-
53
-
-
34848825637
-
Chromatin remodelling is a major source of coexpression of linked genes in yeast
-
10.1016/j.tig.2007.08.003, 17822800
-
Batada NN, Urrutia AO, Hurst LD. Chromatin remodelling is a major source of coexpression of linked genes in yeast. Trends in Genetics 2007, 23(10):480-484. 10.1016/j.tig.2007.08.003, 17822800.
-
(2007)
Trends in Genetics
, vol.23
, Issue.10
, pp. 480-484
-
-
Batada, N.N.1
Urrutia, A.O.2
Hurst, L.D.3
-
54
-
-
77951178014
-
Large-scale transcriptome data reveals transcriptional activity of fission yeast LTR retrotransposons
-
10.1186/1471-2164-11-167, 2848245, 20226011
-
Mourier T, Willerslev E. Large-scale transcriptome data reveals transcriptional activity of fission yeast LTR retrotransposons. BMC genomics 2010, 11:167. 10.1186/1471-2164-11-167, 2848245, 20226011.
-
(2010)
BMC genomics
, vol.11
, pp. 167
-
-
Mourier, T.1
Willerslev, E.2
-
55
-
-
0034079713
-
Human LINE retrotransposons generate processed pseudogenes
-
10.1038/74184, 10742098
-
Esnault C, Maestre J, Heidmann T. Human LINE retrotransposons generate processed pseudogenes. Nat Genet 2000, 24(4):363-367. 10.1038/74184, 10742098.
-
(2000)
Nat Genet
, vol.24
, Issue.4
, pp. 363-367
-
-
Esnault, C.1
Maestre, J.2
Heidmann, T.3
-
56
-
-
0041353551
-
LINE-mediated retrotransposition of marked Alu sequences
-
10.1038/ng1223, 12897783
-
Dewannieux M, Esnault C, Heidmann T. LINE-mediated retrotransposition of marked Alu sequences. Nat Genet 2003, 35(1):41-48. 10.1038/ng1223, 12897783.
-
(2003)
Nat Genet
, vol.35
, Issue.1
, pp. 41-48
-
-
Dewannieux, M.1
Esnault, C.2
Heidmann, T.3
-
57
-
-
4344583992
-
B2 RNA binds directly to RNA polymerase II to repress transcript synthesis
-
10.1038/nsmb812, 15300239
-
Espinoza CA, Allen TA, Hieb AR, Kugel JF, Goodrich JA. B2 RNA binds directly to RNA polymerase II to repress transcript synthesis. Nat Struct Mol Biol 2004, 11(9):822-829. 10.1038/nsmb812, 15300239.
-
(2004)
Nat Struct Mol Biol
, vol.11
, Issue.9
, pp. 822-829
-
-
Espinoza, C.A.1
Allen, T.A.2
Hieb, A.R.3
Kugel, J.F.4
Goodrich, J.A.5
-
58
-
-
4344579113
-
The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock
-
10.1038/nsmb813, 15300240
-
Allen TA, Von Kaenel S, Goodrich JA, Kugel JF. The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock. Nat Struct Mol Biol 2004, 11(9):816-821. 10.1038/nsmb813, 15300240.
-
(2004)
Nat Struct Mol Biol
, vol.11
, Issue.9
, pp. 816-821
-
-
Allen, T.A.1
Von Kaenel, S.2
Goodrich, J.A.3
Kugel, J.F.4
-
59
-
-
39549103642
-
Human Alu RNA Is a Modular Transacting Repressor of mRNA Transcription during Heat Shock
-
10.1016/j.molcel.2007.12.013, 18313387
-
Mariner PD, Walters RD, Espinoza CA, Drullinger LF, Wagner SD, Kugel JF, Goodrich JA. Human Alu RNA Is a Modular Transacting Repressor of mRNA Transcription during Heat Shock. Molecular cell 2008, 29(4):499-509. 10.1016/j.molcel.2007.12.013, 18313387.
-
(2008)
Molecular cell
, vol.29
, Issue.4
, pp. 499-509
-
-
Mariner, P.D.1
Walters, R.D.2
Espinoza, C.A.3
Drullinger, L.F.4
Wagner, S.D.5
Kugel, J.F.6
Goodrich, J.A.7
-
60
-
-
79952786337
-
DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration
-
10.1038/nature09830, 21297615
-
Kaneko H, Dridi S, Tarallo V, Gelfand BD, Fowler BJ, Cho WG, Kleinman ME, Ponicsan SL, Hauswirth WW, Chiodo VA, et al. DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration. Nature 2011, 471(7338):325-330. 10.1038/nature09830, 21297615.
-
(2011)
Nature
, vol.471
, Issue.7338
, pp. 325-330
-
-
Kaneko, H.1
Dridi, S.2
Tarallo, V.3
Gelfand, B.D.4
Fowler, B.J.5
Cho, W.G.6
Kleinman, M.E.7
Ponicsan, S.L.8
Hauswirth, W.W.9
Chiodo, V.A.10
-
61
-
-
23844479232
-
Reverse transcription in genome evolution
-
10.1159/000084938, 16093658
-
Mourier T. Reverse transcription in genome evolution. Cytogenet Genome Res 2005, 110(1-4):56-62. 10.1159/000084938, 16093658.
-
(2005)
Cytogenet Genome Res
, vol.110
, Issue.1-4
, pp. 56-62
-
-
Mourier, T.1
-
62
-
-
25444517024
-
Alu-SINE exonization: en route to protein-coding function
-
10.1093/molbev/msi164, 15901843
-
Krull M, Brosius J, Schmitz J. Alu-SINE exonization: en route to protein-coding function. Mol Biol Evol 2005, 22(8):1702-1711. 10.1093/molbev/msi164, 15901843.
-
(2005)
Mol Biol Evol
, vol.22
, Issue.8
, pp. 1702-1711
-
-
Krull, M.1
Brosius, J.2
Schmitz, J.3
-
63
-
-
23844534414
-
Impact of transposable elements on the evolution of mammalian gene regulation
-
10.1159/000084966, 16093686
-
Medstrand P, van de Lagemaat LN, Dunn CA, Landry JR, Svenback D, Mager DL. Impact of transposable elements on the evolution of mammalian gene regulation. Cytogenet Genome Res 2005, 110(1-4):342-352. 10.1159/000084966, 16093686.
-
(2005)
Cytogenet Genome Res
, vol.110
, Issue.1-4
, pp. 342-352
-
-
Medstrand, P.1
van de Lagemaat, L.N.2
Dunn, C.A.3
Landry, J.R.4
Svenback, D.5
Mager, D.L.6
-
64
-
-
77954100084
-
Transposable elements have rewired the core regulatory network of human embryonic stem cells
-
10.1038/ng.600, 20526341
-
Kunarso G, Chia NY, Jeyakani J, Hwang C, Lu X, Chan YS, Ng HH, Bourque G. Transposable elements have rewired the core regulatory network of human embryonic stem cells. Nat Genet 2010, 42(7):631-634. 10.1038/ng.600, 20526341.
-
(2010)
Nat Genet
, vol.42
, Issue.7
, pp. 631-634
-
-
Kunarso, G.1
Chia, N.Y.2
Jeyakani, J.3
Hwang, C.4
Lu, X.5
Chan, Y.S.6
Ng, H.H.7
Bourque, G.8
-
65
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
10.1186/gb-2009-10-3-r25, 2690996, 19261174
-
Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 2009, 10(3):R25. 10.1186/gb-2009-10-3-r25, 2690996, 19261174.
-
(2009)
Genome Biol
, vol.10
, Issue.3
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
66
-
-
0033563461
-
Sequence complexity and DNA curvature
-
10.1016/S0097-8485(99)00007-8, 10404619
-
Gabrielian A, Bolshoy A. Sequence complexity and DNA curvature. Comput Chem 1999, 23(3-4):263-274. 10.1016/S0097-8485(99)00007-8, 10404619.
-
(1999)
Comput Chem
, vol.23
, Issue.3-4
, pp. 263-274
-
-
Gabrielian, A.1
Bolshoy, A.2
-
67
-
-
33846078622
-
The UCSC genome browser database: update 2007
-
10.1093/nar/gkl928, 1669757, 17142222
-
Kuhn RM, Karolchik D, Zweig AS, Trumbower H, Thomas DJ, Thakkapallayil A, Sugnet CW, Stanke M, Smith KE, Siepel A, et al. The UCSC genome browser database: update 2007. Nucleic Acids Res 2007, 35(Database):D668-673. 10.1093/nar/gkl928, 1669757, 17142222.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Kuhn, R.M.1
Karolchik, D.2
Zweig, A.S.3
Trumbower, H.4
Thomas, D.J.5
Thakkapallayil, A.6
Sugnet, C.W.7
Stanke, M.8
Smith, K.E.9
Siepel, A.10
-
68
-
-
33846039019
-
Ensembl 2007
-
10.1093/nar/gkl996, 1761443, 17148474
-
Hubbard TJ, Aken BL, Beal K, Ballester B, Caccamo M, Chen Y, Clarke L, Coates G, Cunningham F, Cutts T, et al. Ensembl 2007. Nucleic Acids Res 2007, 35(Database):D610-617. 10.1093/nar/gkl996, 1761443, 17148474.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Hubbard, T.J.1
Aken, B.L.2
Beal, K.3
Ballester, B.4
Caccamo, M.5
Chen, Y.6
Clarke, L.7
Coates, G.8
Cunningham, F.9
Cutts, T.10
-
69
-
-
79961135005
-
R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL
-
R Development Core Team
-
R Development Core Team R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL. 2007, R Development Core Team., http://www.R-project.org
-
(2007)
-
-
|