-
1
-
-
34250305146
-
Identification and analysis of functional elements in 1 % of the human genome by the ENCODE pilot project
-
2212820
-
The ENCODE Project Consortium. Identification and analysis of functional elements in 1 % of the human genome by the ENCODE pilot project. Nature. 2007; 447:799-16.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
-
2
-
-
33646490270
-
Transcript annotation in FANTOM3: Mouse Gene Catalog based on physical cDNAs
-
Maeda N, Kasukawa T, Oyama R, Gough J, Frith M, Engström PG, et al. Transcript annotation in FANTOM3: Mouse Gene Catalog based on physical cDNAs. PLoS Genet. 2006; 2:62.
-
(2006)
PLoS Genet
, vol.2
, pp. 62
-
-
Maeda, N.1
Kasukawa, T.2
Oyama, R.3
Gough, J.4
Frith, M.5
Engström, P.G.6
-
3
-
-
79960911703
-
The reality of pervasive transcription
-
Clark MB, Amaral PP, Schlesinger FJ, Dinger ME, Taft RJ, Rinn JL, et al. The reality of pervasive transcription. PLoS Biol. 2011; 9:1000625.
-
(2011)
PLoS Biol
, vol.9
-
-
Clark, M.B.1
Amaral, P.P.2
Schlesinger, F.J.3
Dinger, M.E.4
Taft, R.J.5
Rinn, J.L.6
-
4
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
3439153
-
The ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012; 489:57-74.
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
-
5
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
2868100 1:CAS:528:DC%2BC3cXlsVyitbs%3D
-
Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, Adiconis X, et al. Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol. 2010; 28:503-10.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 503-510
-
-
Guttman, M.1
Garber, M.2
Levin, J.Z.3
Donaghey, J.4
Robinson, J.5
Adiconis, X.6
-
6
-
-
78650292831
-
The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA
-
3022773 1:CAS:528:DC%2BC3MXisFWquw%3D%3D
-
Kapranov P, St Laurent G, Raz T, Ozsolak F, Reynolds CP, Sorensen PH, et al. The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA. BMC Biol. 2010; 8:149.
-
(2010)
BMC Biol
, vol.8
, pp. 149
-
-
Kapranov, P.1
St. Laurent, G.2
Raz, T.3
Ozsolak, F.4
Reynolds, C.P.5
Sorensen, P.H.6
-
7
-
-
84902161967
-
Dark matter RNA illuminates the puzzle of genome-wide association studies
-
4054906
-
St Laurent G, Vyatkin Y, Kapranov P. Dark matter RNA illuminates the puzzle of genome-wide association studies. BMC Med. 2014; 12:97.
-
(2014)
BMC Med
, vol.12
, pp. 97
-
-
St. Laurent, G.1
Vyatkin, Y.2
Kapranov, P.3
-
8
-
-
34248162440
-
Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs
-
1855172 1:CAS:528:DC%2BD2sXltF2isbc%3D
-
Ponjavic J, Ponting CP, Lunter G. Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res. 2007; 17:556-65.
-
(2007)
Genome Res
, vol.17
, pp. 556-565
-
-
Ponjavic, J.1
Ponting, C.P.2
Lunter, G.3
-
9
-
-
76249108851
-
Catalogues of mammalian long noncoding RNAs: Modest conservation and incompleteness
-
Marques AC, Ponting CP. Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness. Genome Biol. 2009; 10:124.
-
(2009)
Genome Biol
, vol.10
, pp. 124
-
-
Marques, A.C.1
Ponting, C.P.2
-
10
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
2754849 1:CAS:528:DC%2BD1MXht1ehsbo%3D
-
Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature. 2009; 458:223-7.
-
(2009)
Nature
, vol.458
, pp. 223-227
-
-
Guttman, M.1
Amit, I.2
Garber, M.3
French, C.4
Lin, M.F.5
Feldser, D.6
-
11
-
-
29444457713
-
Rapid evolution of noncoding RNAs: Lack of conservation does not mean lack of function
-
1:CAS:528:DC%2BD28Xkt1Wh
-
Pang KC, Frith MC, Mattick JS. Rapid evolution of noncoding RNAs: lack of conservation does not mean lack of function. Trends Genet. 2006; 22:1-5.
-
(2006)
Trends Genet
, vol.22
, pp. 1-5
-
-
Pang, K.C.1
Frith, M.C.2
Mattick, J.S.3
-
12
-
-
84898747543
-
Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals
-
3975061 1:CAS:528:DC%2BC2cXmt1Crs7Y%3D
-
Washietl S, Kellis M, Garber M. Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals. Genome Res. 2014; 24:616-28.
-
(2014)
Genome Res
, vol.24
, pp. 616-628
-
-
Washietl, S.1
Kellis, M.2
Garber, M.3
-
13
-
-
84895908120
-
The evolution of lncrna repertoires and expression patterns in tetrapods
-
1:CAS:528:DC%2BC2cXhsFemtLg%3D
-
Necsulea A, Soumillon M, Warnefors M, Liechti A, Daish T, Zeller, U, et al. The evolution of lncrna repertoires and expression patterns in tetrapods. Nature. 2014; 505(7485):635-40.
-
(2014)
Nature
, vol.505
, Issue.7485
, pp. 635-640
-
-
Necsulea, A.1
Soumillon, M.2
Warnefors, M.3
Liechti, A.4
Daish, T.5
Zeller, U.6
-
14
-
-
84874780403
-
The vast, conserved mammalian lincRNome
-
Managadze D, Lobkovsky AE, Wolf YI, Shabalina SA, Rogozin IB, Koonin EV. The vast, conserved mammalian lincRNome. PLoS Comput Biol. 2013; 9:1002917.
-
(2013)
PLoS Comput Biol
, vol.9
-
-
Managadze, D.1
Lobkovsky, A.E.2
Wolf, Y.I.3
Shabalina, S.A.4
Rogozin, I.B.5
Koonin, E.V.6
-
15
-
-
84928029167
-
Comparison of splice sites reveals that long non-coding RNAs are evolutionarily well conserved
-
May. Epub 2015 Mar 23
-
Nitsche A, Rose D, Fasold M, Reiche K, Stadler PF. Comparison of splice sites reveals that long non-coding RNAs are evolutionarily well conserved. RNA. 2015 May; 21(5):801-12. doi: 10.1261/rna.046342.114. Epub 2015 Mar 23.
-
(2015)
RNA
, vol.21
, Issue.5
, pp. 801-812
-
-
Nitsche, A.1
Rose, D.2
Fasold, M.3
Reiche, K.4
Stadler, P.F.5
-
16
-
-
67650022866
-
Conserved introns reveal novel transcripts in Drosophila melanogaster
-
2704441 1:CAS:528:DC%2BD1MXosVCktbg%3D
-
Hiller M, Findeiß S, Lein S, Marz M, Nickel C, Rose D, et al. Conserved introns reveal novel transcripts in Drosophila melanogaster. Genome Res. 2009; 19:1289-300.
-
(2009)
Genome Res
, vol.19
, pp. 1289-1300
-
-
Hiller, M.1
Findeiß, S.2
Lein, S.3
Marz, M.4
Nickel, C.5
Rose, D.6
-
17
-
-
77954399763
-
Long noncoding RNA genes: Conservation of sequence and brain expression among diverse amniotes
-
Chodroff RA, Goodstadt L, Sirey TM, Oliver PL, Davies KE, Green ED, et al. Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes. Genome Biol. 2010; 11:72.
-
(2010)
Genome Biol
, vol.11
, pp. 72
-
-
Chodroff, R.A.1
Goodstadt, L.2
Sirey, T.M.3
Oliver, P.L.4
Davies, K.E.5
Green, E.D.6
-
18
-
-
80053045739
-
Molecular mechanisms of long noncoding RNAs
-
3199020 1:CAS:528:DC%2BC3MXhtFymsLjP
-
Wang KC, Chang HY. Molecular mechanisms of long noncoding RNAs. Mol Cell. 2011; 43:904-14.
-
(2011)
Mol Cell
, vol.43
, pp. 904-914
-
-
Wang, K.C.1
Chang, H.Y.2
-
19
-
-
84865777822
-
Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs
-
3431479 1:CAS:528:DC%2BC38XhtlentL3E
-
Tilgner H, Knowles DG, Johnson R, Davis CA, Chakrabortty S, Djebali S, et al. Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs. Genome Res. 2012; 22:1616-25.
-
(2012)
Genome Res
, vol.22
, pp. 1616-1625
-
-
Tilgner, H.1
Knowles, D.G.2
Johnson, R.3
Davis, C.A.4
Chakrabortty, S.5
Djebali, S.6
-
20
-
-
80053384136
-
IGD: A resource for intronless genes in the human genome
-
1:CAS:528:DC%2BC3MXht1Clu7jO
-
Louhichi A, Fourati A, Rebaï A. IGD: a resource for intronless genes in the human genome. Gene. 2011; 488:35-40.
-
(2011)
Gene
, vol.488
, pp. 35-40
-
-
Louhichi, A.1
Fourati, A.2
Rebaï, A.3
-
21
-
-
81055126291
-
Export and stability of naturally intronless mRNAs require specific coding region sequences and the TREX mRNA export complex
-
3207654 1:CAS:528:DC%2BC3MXhsVOktLnP
-
Lei H, Dias AP, Reed R. Export and stability of naturally intronless mRNAs require specific coding region sequences and the TREX mRNA export complex. Proc Natl Acad Sci USA. 2011; 108:17985-90.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 17985-17990
-
-
Lei, H.1
Dias, A.P.2
Reed, R.3
-
22
-
-
77954968805
-
Distinct patterns of expression and evolution of intronless and intron-containing mammalian genes
-
2908711 1:CAS:528:DC%2BC3cXptlegtrg%3D
-
Shabalina SA, Ogurtsov AY, Spiridonov AN, Novichkov PS, Spiridonov NA, Koonin EV. Distinct patterns of expression and evolution of intronless and intron-containing mammalian genes. Mol Biol Evol. 2010; 27:1745-9.
-
(2010)
Mol Biol Evol
, vol.27
, pp. 1745-1749
-
-
Shabalina, S.A.1
Ogurtsov, A.Y.2
Spiridonov, A.N.3
Novichkov, P.S.4
Spiridonov, N.A.5
Koonin, E.V.6
-
23
-
-
54149091257
-
Metabolism and regulation of canonical histone mRNAs: Life without a poly(A) tail
-
2715827 1:CAS:528:DC%2BD1cXht1Ggu77L
-
Marzluff WF, Wagner EJ, Duronio RJ. Metabolism and regulation of canonical histone mRNAs: life without a poly(A) tail. Nat Rev Genet. 2008; 9:843-54.
-
(2008)
Nat Rev Genet
, vol.9
, pp. 843-854
-
-
Marzluff, W.F.1
Wagner, E.J.2
Duronio, R.J.3
-
24
-
-
34250189924
-
Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
-
Nakaya HI, Amaral PP, Louro R, Lopes A, Fachel AA, Moreira YB, et al. Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription. Genome Biol. 2007; 8:43.
-
(2007)
Genome Biol
, vol.8
, pp. 43
-
-
Nakaya, H.I.1
Amaral, P.P.2
Louro, R.3
Lopes, A.4
Fachel, A.A.5
Moreira, Y.B.6
-
25
-
-
33847193479
-
Androgen responsive intronic non-coding RNAs
-
1800835
-
Louro R, Nakaya HI, Amaral PP, Festa F, Sogayar MC, da Silva AM, et al. Androgen responsive intronic non-coding RNAs. BMC Biol. 2007; 5:4.
-
(2007)
BMC Biol
, vol.5
, pp. 4
-
-
Louro, R.1
Nakaya, H.I.2
Amaral, P.P.3
Festa, F.4
Sogayar, M.C.5
Da Silva, A.M.6
-
26
-
-
45449108588
-
Conserved tissue expression signatures of intronic noncoding RNAs transcribed from human and mouse loci
-
1:CAS:528:DC%2BD1cXnsFWru7g%3D
-
Louro R, El-Jundi T, Nakaya HI, Reis EM, Verjovski-Almeida S. Conserved tissue expression signatures of intronic noncoding RNAs transcribed from human and mouse loci. Genomics. 2008; 92:18-25.
-
(2008)
Genomics
, vol.92
, pp. 18-25
-
-
Louro, R.1
El-Jundi, T.2
Nakaya, H.I.3
Reis, E.M.4
Verjovski-Almeida, S.5
-
27
-
-
0037442493
-
The transcriptional activity of human chromosome 22
-
195998 1:CAS:528:DC%2BD3sXhslCqur0%3D
-
Rinn JL, Euskirchen G, Bertone P, Martone R, Luscombe NM, Hartman S, et al. The transcriptional activity of human chromosome 22. Genes Dev. 2003; 17:529-40.
-
(2003)
Genes Dev
, vol.17
, pp. 529-540
-
-
Rinn, J.L.1
Euskirchen, G.2
Bertone, P.3
Martone, R.4
Luscombe, N.M.5
Hartman, S.6
-
28
-
-
4444364003
-
Antisense intronic non-coding RNA levels correlate to the degree of tumor differentiation in prostate cancer
-
1:CAS:528:DC%2BD2cXmvFGisb4%3D
-
Reis EM, Nakaya HI, Louro R, Canavez FC, Flatschart AV, Almeida, GT, et al. Antisense intronic non-coding RNA levels correlate to the degree of tumor differentiation in prostate cancer. Oncogene. 2004; 23:6684-92.
-
(2004)
Oncogene
, vol.23
, pp. 6684-6692
-
-
Reis, E.M.1
Nakaya, H.I.2
Louro, R.3
Canavez, F.C.4
Flatschart, A.V.5
-
29
-
-
84884618929
-
The intronic long noncoding RNA ANRASSF1 recruits PRC2 to the RASSF1A promoter, reducing the expression of RASSF1A and increasing cell proliferation
-
Beckedorff FC, Ayupe AC, Crocci-Souza R, Amaral MS, Nakaya HI, Soltys DT, et al. The intronic long noncoding RNA ANRASSF1 recruits PRC2 to the RASSF1A promoter, reducing the expression of RASSF1A and increasing cell proliferation. PLoS Genet. 2013; 9:1003705.
-
(2013)
PLoS Genet
, vol.9
-
-
Beckedorff, F.C.1
Ayupe, A.C.2
Crocci-Souza, R.3
Amaral, M.S.4
Nakaya, H.I.5
Soltys, D.T.6
-
30
-
-
84869151299
-
Stable intronic sequence RNA (sisRNA), a new class of noncoding RNA from the oocyte nucleus of Xenopus tropicalis
-
3505824 1:CAS:528:DC%2BC38Xhslyls7rK
-
Gardner EJ, Nizami ZF, Talbot Jr CC, Gall JG. Stable intronic sequence RNA (sisRNA), a new class of noncoding RNA from the oocyte nucleus of Xenopus tropicalis. Genes Dev. 2012; 26:2550-9.
-
(2012)
Genes Dev
, vol.26
, pp. 2550-2559
-
-
Gardner, E.J.1
Nizami, Z.F.2
Talbot, C.C.3
Gall, J.G.4
-
31
-
-
61849133411
-
Long intronic noncoding RNA transcription: Expression noise or expression choice?
-
1:CAS:528:DC%2BD1MXjtFensr0%3D
-
Louro R, Smirnova AS, Verjovski-Almeida S. Long intronic noncoding RNA transcription: expression noise or expression choice?. Genomics. 2009; 93:291-8.
-
(2009)
Genomics
, vol.93
, pp. 291-298
-
-
Louro, R.1
Smirnova, A.S.2
Verjovski-Almeida, S.3
-
32
-
-
81055150443
-
Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer
-
3225313 1:CAS:528:DC%2BC38XksFGrtQ%3D%3D
-
Tahira AC, Kubrusly MS, Faria MF, Dazzani B, Fonseca RS, Maracaja-Coutinho V, et al. Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer. Mol Cancer. 2011; 10:141.
-
(2011)
Mol Cancer
, vol.10
, pp. 141
-
-
Tahira, A.C.1
Kubrusly, M.S.2
Faria, M.F.3
Dazzani, B.4
Fonseca, R.S.5
Maracaja-Coutinho, V.6
-
33
-
-
68349090253
-
Regulation of the mammalian epigenome by long noncoding RNAs
-
1:CAS:528:DC%2BD1MXhtVSns73N
-
Whitehead J, Pandey GK, Kanduri C. Regulation of the mammalian epigenome by long noncoding RNAs. Biochim Biophys Acta. 2009; 1790:936-47.
-
(2009)
Biochim Biophys Acta
, vol.1790
, pp. 936-947
-
-
Whitehead, J.1
Pandey, G.K.2
Kanduri, C.3
-
34
-
-
0016825478
-
Chromatin-associated RNA content of heterochromatin and euchromatin
-
1:CAS:528:DyaE28XhsVSq
-
Paul IJ, Duerksen JD. Chromatin-associated RNA content of heterochromatin and euchromatin. Mol Cell Biochem. 1975; 9:9-16.
-
(1975)
Mol Cell Biochem
, vol.9
, pp. 9-16
-
-
Paul, I.J.1
Duerksen, J.D.2
-
35
-
-
43149109529
-
RNA is an integral component of chromatin that contributes to its structural organization
-
Rodríguez-Campos A, Azorín F. RNA is an integral component of chromatin that contributes to its structural organization. PLoS ONE. 2007; 2:1182.
-
(2007)
PLoS ONE
, vol.2
, pp. 1182
-
-
Rodríguez-Campos, A.1
Azorín, F.2
-
36
-
-
77954231525
-
Characterization of the RNA content of chromatin
-
2892091 1:CAS:528:DC%2BC3cXovFeitr0%3D
-
Mondal T, Rasmussen M, Pandey GK, Isaksson A, Kanduri C. Characterization of the RNA content of chromatin. Genome Res. 2010; 20:899-907.
-
(2010)
Genome Res
, vol.20
, pp. 899-907
-
-
Mondal, T.1
Rasmussen, M.2
Pandey, G.K.3
Isaksson, A.4
Kanduri, C.5
-
37
-
-
84863861287
-
Regulation of chromatin structure by long noncoding RNAs: Focus on natural antisense transcripts
-
Magistri M, Faghihi MA, St. Laurent 3rd G, Wahlestedt C. Regulation of chromatin structure by long noncoding RNAs: focus on natural antisense transcripts. Trends Genet. 2012; 28:389-96.
-
(2012)
Trends Genet
, vol.28
, pp. 389-396
-
-
Magistri, M.1
Faghihi, M.A.2
St. Laurent, G.3
Wahlestedt, C.4
-
38
-
-
84874610339
-
Changes in higher order structures of chromatin by RNP complexes
-
3594275 1:CAS:528:DC%2BC3sXnsV2ms70%3D
-
Schubert T, Längst G. Changes in higher order structures of chromatin by RNP complexes. RNA Biol. 2013; 10:175-9.
-
(2013)
RNA Biol
, vol.10
, pp. 175-179
-
-
Schubert, T.1
Längst, G.2
-
39
-
-
34250160256
-
RNA maps reveal new RNA classes and a possible function for pervasive transcription
-
1:CAS:528:DC%2BD2sXmtFSjtrw%3D
-
Kapranov P, Cheng J, Dike S, Nix D, Duttagupta R, Willingham AT, et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science. 2007; 316:1484-8.
-
(2007)
Science
, vol.316
, pp. 1484-1488
-
-
Kapranov, P.1
Cheng, J.2
Dike, S.3
Nix, D.4
Duttagupta, R.5
Willingham, A.T.6
-
40
-
-
46649093597
-
Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription
-
2823488 1:CAS:528:DC%2BD1cXotVertL4%3D
-
Wang X, Arai S, Song X, Reichart D, Du K, Pascual G, et al. Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription. Nature. 2008; 454:126-30.
-
(2008)
Nature
, vol.454
, pp. 126-130
-
-
Wang, X.1
Arai, S.2
Song, X.3
Reichart, D.4
Du, K.5
Pascual, G.6
-
41
-
-
79960046667
-
Identifying and searching for conserved RNA localisation signals
-
3082378 1:CAS:528:DC%2BC3MXntVChtb8%3D
-
Hamilton RS, Davis I. Identifying and searching for conserved RNA localisation signals. Methods Mol Biol. 2011; 714:447-66.
-
(2011)
Methods Mol Biol
, vol.714
, pp. 447-466
-
-
Hamilton, R.S.1
Davis, I.2
-
42
-
-
84868235742
-
Tuning the engine: An introduction to resources on post-transcriptional regulation of gene expression
-
3583852 1:CAS:528:DC%2BC3sXhvFOgtrk%3D
-
Dassi E, Quattrone A. Tuning the engine: an introduction to resources on post-transcriptional regulation of gene expression. RNA Biol. 2012; 9:1224-32.
-
(2012)
RNA Biol
, vol.9
, pp. 1224-1232
-
-
Dassi, E.1
Quattrone, A.2
-
43
-
-
84897145161
-
Remote control of gene function by local translation
-
3988848 1:CAS:528:DC%2BC2cXmtVClsLg%3D
-
Jung H, Gkogkas CG, Sonenberg N, Holt CE. Remote control of gene function by local translation. Cell. 2014; 157:26-40.
-
(2014)
Cell
, vol.157
, pp. 26-40
-
-
Jung, H.1
Gkogkas, C.G.2
Sonenberg, N.3
Holt, C.E.4
-
44
-
-
84899065436
-
Expression of distinct RNAs from 3′ untranslated regions
-
Mercer TR, Wilhelm D, Dinger ME, Soldà G, Korbie DJ, Glazov EA, et al. Expression of distinct RNAs from 3' untranslated regions. Nucleic Acids Res. 2011; 2393-2403:39.
-
(2011)
Nucleic Acids Res
, vol.2393-2403
, pp. 39
-
-
Mercer, T.R.1
Wilhelm, D.2
Dinger, M.E.3
Soldà, G.4
Korbie, D.J.5
Glazov, E.A.6
-
45
-
-
79960569959
-
Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome
-
3127934 1:CAS:528:DC%2BC3MXovFent7g%3D
-
Flynn RA, Almada AE, Zamudio JR, Sharp PA. Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome. Proc Natl Acad Sci. 2011; 108(26):10460-5.
-
(2011)
Proc Natl Acad Sci
, vol.108
, Issue.26
, pp. 10460-10465
-
-
Flynn, R.A.1
Almada, A.E.2
Zamudio, J.R.3
Sharp, P.A.4
-
46
-
-
84858692231
-
Computational analysis of functional long noncoding RNAs reveals lack of peptide-coding capacity and parallels with 3′utrs
-
3312569 1:CAS:528:DC%2BC38XltFSmt78%3D
-
Niazi F, Valadkhan S. Computational analysis of functional long noncoding RNAs reveals lack of peptide-coding capacity and parallels with 3'utrs. RNA. 2012; 18:825-43.
-
(2012)
RNA
, vol.18
, pp. 825-843
-
-
Niazi, F.1
Valadkhan, S.2
-
47
-
-
77957850291
-
Emerging roles for natural microRNA sponges
-
Ebert MS, Sharp PA. Emerging roles for natural microRNA sponges. Curr Biol. 2010; 20:858-61.
-
(2010)
Curr Biol
, vol.20
, pp. 858-861
-
-
Ebert, M.S.1
Sharp, P.A.2
-
48
-
-
84901813910
-
miRNA sponges: Soaking up miRNAs for regulation of gene expression
-
1:CAS:528:DC%2BC2cXmsFWntbc%3D
-
Bak RO, Mikkelsen JG. miRNA sponges: soaking up miRNAs for regulation of gene expression. Wiley Interdiscip Rev RNA. 2014; 5:317-33.
-
(2014)
Wiley Interdiscip Rev RNA
, vol.5
, pp. 317-333
-
-
Bak, R.O.1
Mikkelsen, J.G.2
-
49
-
-
84875962753
-
Circular RNAs: Splicing's enigma variations
-
3616293 1:CAS:528:DC%2BC3sXjsFOnsbs%3D
-
Hentze MW, Preiss T. Circular RNAs: splicing's enigma variations. EMBO J. 2013; 32:923-5.
-
(2013)
EMBO J
, vol.32
, pp. 923-925
-
-
Hentze, M.W.1
Preiss, T.2
-
50
-
-
62449319486
-
MENε/β noncoding RNAs are essential for structural integrity of nuclear paraspeckles
-
2650297 1:CAS:528:DC%2BD1MXislahsrg%3D
-
Sasaki YTF, Ideue T, Sano M, Mituyama T, Hirose T. MENε/β noncoding RNAs are essential for structural integrity of nuclear paraspeckles. Proc Natl Acad Sci USA. 2009; 106:2525-30.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 2525-2530
-
-
Sasaki, Y.T.F.1
Ideue, T.2
Sano, M.3
Mituyama, T.4
Hirose, T.5
-
51
-
-
61849113891
-
MENε/β nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles
-
2661813 1:CAS:528:DC%2BD1MXjt12ktbs%3D
-
Sunwoo H, Dinger ME, Wilusz JE, Amaral PP, Mattick JS, Spector DL. MEN ε/β nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles. Genome Res. 2009; 19:347-59.
-
(2009)
Genome Res
, vol.19
, pp. 347-359
-
-
Sunwoo, H.1
Dinger, M.E.2
Wilusz, J.E.3
Amaral, P.P.4
Mattick, J.S.5
Spector, D.L.6
-
52
-
-
78650511795
-
Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs
-
3007124 1:CAS:528:DC%2BC3cXhsFyksrzM
-
Mao YS, Sunwoo H, Zhang B, Spector DL. Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs. Nat Cell Biol. 2011; 13:95-101.
-
(2011)
Nat Cell Biol
, vol.13
, pp. 95-101
-
-
Mao, Y.S.1
Sunwoo, H.2
Zhang, B.3
Spector, D.L.4
-
53
-
-
33847185603
-
A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains
-
1800850
-
Hutchinson J, Ensminger AW, Clemson CM, Lynch CR, Lawrence JB, Chess A. A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC Genomics. 2007; 8:39.
-
(2007)
BMC Genomics
, vol.8
, pp. 39
-
-
Hutchinson, J.1
Ensminger, A.W.2
Clemson, C.M.3
Lynch, C.R.4
Lawrence, J.B.5
Chess, A.6
-
54
-
-
78049458919
-
Evolution of the long non-coding RNAs MALAT1 and MENβ/ε
-
Ferreira CE, Miyano S, Stadler PF, editors. Advances in Bioinformatics and Computational Biology, 5th Brazilian Symposium on Bioinformatics Heidelberg: Springer
-
Stadler PF, editors. Evolution of the long non-coding RNAs MALAT1 and MEN β/ ε In: Ferreira CE, Miyano S, Stadler PF, editors. Advances in Bioinformatics and Computational Biology, 5th Brazilian Symposium on Bioinformatics. Lecture Notes in Computer Science, vol.6268. Heidelberg: Springer: 2010. p. 1-12.
-
(2010)
Lecture Notes in Computer Science
, vol.6268
-
-
Stadler, P.F.1
-
55
-
-
78650200618
-
Association of a novel long non-coding RNA in 8q24 with prostate cancer susceptibility
-
1:CAS:528:DC%2BC3MXhslKntr8%3D
-
Chung S, Nakagawa H, Uemura M, Piao L, Ashikawa K, Hosono N, et al. Association of a novel long non-coding RNA in 8q24 with prostate cancer susceptibility. Cancer Sci. 2011; 102:245-52.
-
(2011)
Cancer Sci
, vol.102
, pp. 245-252
-
-
Chung, S.1
Nakagawa, H.2
Uemura, M.3
Piao, L.4
Ashikawa, K.5
Hosono, N.6
-
56
-
-
84899076976
-
Cell cycle, oncogenic and tumor suppressor pathways regulate numerous long and macro non-protein coding RNAs
-
Hackermüller J, Reiche K, Otto C, Hösler N, Blumert C, Brocke-Heidrich K, et al. Cell cycle, oncogenic and tumor suppressor pathways regulate numerous long and macro non-protein coding RNAs. Genome Biol. 2014; 15:48.
-
(2014)
Genome Biol
, vol.15
, pp. 48
-
-
Hackermüller, J.1
Reiche, K.2
Otto, C.3
Hösler, N.4
Blumert, C.5
Brocke-Heidrich, K.6
-
57
-
-
33747603960
-
The imprinted Air ncRNA is an atypical RNAPII transcript that evades splicing and escapes nuclear export
-
Seidl CIM, Stricker SH, Barlow DP. The imprinted Air ncRNA is an atypical RNAPII transcript that evades splicing and escapes nuclear export. EMBO J. 2006; 25:1-11.
-
(2006)
EMBO J
, vol.25
, pp. 1-11
-
-
Seidl, C.I.M.1
Stricker, S.H.2
Barlow, D.P.3
-
58
-
-
57149112497
-
Silencing and transcriptional properties of the imprinted Airn ncRNA are independent of the endogenous promoter
-
2599881 1:CAS:528:DC%2BD1cXhtl2gsLbL
-
Stricker SH, Steenpass L, Pauler FM, Santoro F, Latos PA, Huang R, et al. Silencing and transcriptional properties of the imprinted Airn ncRNA are independent of the endogenous promoter. EMBO J. 2008; 27:3116-28.
-
(2008)
EMBO J
, vol.27
, pp. 3116-3128
-
-
Stricker, S.H.1
Steenpass, L.2
Pauler, F.M.3
Santoro, F.4
Latos, P.A.5
Huang, R.6
-
59
-
-
60149092541
-
The long noncoding RNA Kcnq1ot1 organises a lineage-specific nuclear domain for epigenetic gene silencing
-
2685953 1:CAS:528:DC%2BD1MXjsFKgt7c%3D
-
Redrup L, Branco MR, Perdeaux ER, Krueger C, Lewis A, Santos F, et al. The long noncoding RNA Kcnq1ot1 organises a lineage-specific nuclear domain for epigenetic gene silencing. Development. 2009; 136:525-30.
-
(2009)
Development
, vol.136
, pp. 525-530
-
-
Redrup, L.1
Branco, M.R.2
Perdeaux, E.R.3
Krueger, C.4
Lewis, A.5
Santos, F.6
-
60
-
-
68549099525
-
Critical evaluation of the FANTOM3 non-coding RNA transcripts
-
Nordström KJ, Mirza MA, Almén MS, Gloriam DE, Fredriksson R, Schiöth HB. Critical evaluation of the FANTOM3 non-coding RNA transcripts. Genomics. 2009; 94:169-76.
-
(2009)
Genomics
, vol.94
, pp. 169-176
-
-
Nordström, K.J.1
Mirza, M.A.2
Almén, M.S.3
Gloriam, D.E.4
Fredriksson, R.5
Schiöth, H.B.6
-
61
-
-
84860243435
-
Hidden treasures in unspliced est data
-
1:CAS:528:DC%2BC38Xmt1GntrY%3D
-
Engelhardt J, Stadler PF. Hidden treasures in unspliced est data. Theory Biosci. 2012; 131(1):49-57.
-
(2012)
Theory Biosci
, vol.131
, Issue.1
, pp. 49-57
-
-
Engelhardt, J.1
Stadler, P.F.2
-
62
-
-
0141920354
-
Comparing protein abundance and mRNA expression levels on a genomic scale
-
193646
-
Greenbaum D, Colangelo C, Williams K, Gerstein M. Comparing protein abundance and mRNA expression levels on a genomic scale. Genome Biol. 2003; 4:117.
-
(2003)
Genome Biol
, vol.4
, pp. 117
-
-
Greenbaum, D.1
Colangelo, C.2
Williams, K.3
Gerstein, M.4
-
63
-
-
68949205722
-
Correlations between RNA and protein expression profiles in 23 human cell lines
-
2728742
-
Gry M, Rimini R, Strömberg S, Asplund A, Pontén F, Uhlén M, et al. Correlations between RNA and protein expression profiles in 23 human cell lines. BMC Genomics. 2009; 10:365.
-
(2009)
BMC Genomics
, vol.10
, pp. 365
-
-
Gry, M.1
Rimini, R.2
Strömberg, S.3
Asplund, A.4
Pontén, F.5
Uhlén, M.6
-
64
-
-
77952276222
-
Detection of novel 3′ untranslated region extensions with 3′ expression microarrays
-
2858751
-
Thorrez L, Tranchevent LC, Chan HJ, Moreau Y, Schuit F. Detection of novel 3′ untranslated region extensions with 3′ expression microarrays. BMC Genomics. 2010; 11:205.
-
(2010)
BMC Genomics
, vol.11
, pp. 205
-
-
Thorrez, L.1
Tranchevent, L.C.2
Chan, H.J.3
Moreau, Y.4
Schuit, F.5
-
65
-
-
80052447253
-
Ending the message: Poly(A) signals then and now
-
3175714 1:CAS:528:DC%2BC3MXht1CjtLfK
-
Proudfoot NJ. Ending the message: poly(A) signals then and now. Genes Dev. 2011; 25:1770-82.
-
(2011)
Genes Dev
, vol.25
, pp. 1770-1782
-
-
Proudfoot, N.J.1
-
66
-
-
84867186197
-
Dynamic landscape of tandem 3' UTRs during zebrafish development
-
3460185 1:CAS:528:DC%2BC38XhsVKhsrvN
-
Li Y, Sun Y, Fu Y, Li M, Huang G, Zhang C, et al. Dynamic landscape of tandem 3' UTRs during zebrafish development. Genome Res. 2012; 22:1899-906.
-
(2012)
Genome Res
, vol.22
, pp. 1899-1906
-
-
Li, Y.1
Sun, Y.2
Fu, Y.3
Li, M.4
Huang, G.5
Zhang, C.6
-
67
-
-
84887053121
-
Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression
-
3828523 1:CAS:528:DC%2BC3sXhslyitbnL
-
Lianoglou S, Garg V, Yang JL, Leslie CS, Mayr C. Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression. Genes Dev. 2013; 27:2380-96.
-
(2013)
Genes Dev
, vol.27
, pp. 2380-2396
-
-
Lianoglou, S.1
Garg, V.2
Yang, J.L.3
Leslie, C.S.4
Mayr, C.5
-
68
-
-
9144233601
-
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage
-
307644 1:CAS:528:DC%2BD2cXhtVCmsQ%3D%3D
-
Shiraki T, Kondo S, Katayama S, Waki K, Kasukawa T, Kawaji H, et al. Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage. Proc Natl Acad Sci U S A. 2003; 100(26):15776-81.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, Issue.26
, pp. 15776-15781
-
-
Shiraki, T.1
Kondo, S.2
Katayama, S.3
Waki, K.4
Kasukawa, T.5
Kawaji, H.6
-
69
-
-
84897406127
-
A promoter-level mammalian expression atlas
-
The FANTOM Consortium and others. A promoter-level mammalian expression atlas. Nature. 2014; 507(7493):462-70.
-
(2014)
Nature
, vol.507
, Issue.7493
, pp. 462-470
-
-
-
70
-
-
84884220048
-
Long noncoding RNAs usher in a new era in the biology of enhancers
-
4108076
-
Ørom UA, Shiekhattar R. Long noncoding RNAs usher in a new era in the biology of enhancers. Cell. 2013; 154:1190-3.
-
(2013)
Cell
, vol.154
, pp. 1190-1193
-
-
Ørom, U.A.1
Shiekhattar, R.2
-
71
-
-
84893046921
-
Enhancer RNAs: The new molecules of transcription
-
4484728 1:CAS:528:DC%2BC2cXoslygt7Y%3D
-
Lai F, Shiekhattar R. Enhancer RNAs: the new molecules of transcription. Curr Opin Genet Dev. 2014; 25:38-42.
-
(2014)
Curr Opin Genet Dev
, vol.25
, pp. 38-42
-
-
Lai, F.1
Shiekhattar, R.2
-
72
-
-
84897446230
-
Enhancer RNAs and regulated transcriptional programs
-
4266492 1:CAS:528:DC%2BC2cXkvV2rurw%3D
-
Lam MT, Li W, Rosenfeld MG, Glass CK. Enhancer RNAs and regulated transcriptional programs. Trends Biochem Sci. 2014; 39:170-82.
-
(2014)
Trends Biochem Sci
, vol.39
, pp. 170-182
-
-
Lam, M.T.1
Li, W.2
Rosenfeld, M.G.3
Glass, C.K.4
-
74
-
-
84897459814
-
An atlas of active enhancers across human cell types and tissues
-
1:CAS:528:DC%2BC2cXkvV2mt7g%3D
-
Andersson R, Gebhard C, Miguel-Escalada I, Hoof I, Bornholdt J, Boyd M, et al. An atlas of active enhancers across human cell types and tissues. Nature. 2014; 507(7493):455-61.
-
(2014)
Nature
, vol.507
, Issue.7493
, pp. 455-461
-
-
Andersson, R.1
Gebhard, C.2
Miguel-Escalada, I.3
Hoof, I.4
Bornholdt, J.5
Boyd, M.6
-
75
-
-
84899563862
-
RECLU: A pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (cage)
-
4029093
-
Ohmiya H, Vitezic M, Frith MC, Itoh M, Carninci P, Forrest AR, et al. RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (cage). BMC Genomics. 2014; 15(1):269.
-
(2014)
BMC Genomics
, vol.15
, Issue.1
, pp. 269
-
-
Ohmiya, H.1
Vitezic, M.2
Frith, M.C.3
Itoh, M.4
Carninci, P.5
Forrest, A.R.6
-
76
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
-
3431493 1:CAS:528:DC%2BC38XhtlentLvO
-
Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H, et al. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res. 2012; 22:1775-89.
-
(2012)
Genome Res
, vol.22
, pp. 1775-1789
-
-
Derrien, T.1
Johnson, R.2
Bussotti, G.3
Tanzer, A.4
Djebali, S.5
Tilgner, H.6
-
77
-
-
84875448918
-
Integrative annotation of chromatin elements from encode data
-
3553955 1:CAS:528:DC%2BC3sXhtFyisr0%3D
-
Hoffman MM, Ernst J, Wilder SP, Kundaje A, Harris RS, Libbrecht M, et al. Integrative annotation of chromatin elements from encode data. Nucleic Acids Res. 2013; 41(2):827-41.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.2
, pp. 827-841
-
-
Hoffman, M.M.1
Ernst, J.2
Wilder, S.P.3
Kundaje, A.4
Harris, R.S.5
Libbrecht, M.6
-
78
-
-
1642577167
-
Molecular and temporal characteristics of human retropseudogenes
-
Devor EJ, Moffat-Wilson KA. Molecular and temporal characteristics of human retropseudogenes. Hum Biol. 2003; 75:661-72.
-
(2003)
Hum Biol
, vol.75
, pp. 661-672
-
-
Devor, E.J.1
Moffat-Wilson, K.A.2
-
79
-
-
35648987151
-
Analysis of the role of retrotransposition in gene evolution in vertebrates
-
2048973
-
Yu Z, Morais MDIvanga, Harrison PM. Analysis of the role of retrotransposition in gene evolution in vertebrates. BMC Bioinformatics. 2007; 8:308.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 308
-
-
Yu, Z.1
Morais, D.2
Ivanga, M.3
Harrison, P.M.4
-
80
-
-
14044272835
-
Fast and reliable prediction of noncoding RNAs
-
548974 1:CAS:528:DC%2BD2MXhvFKitLc%3D
-
Washietl S, Hofacker IL, Stadler PF. Fast and reliable prediction of noncoding RNAs. Proc Natl Acad Sci USA. 2005; 102:2454-9.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2454-2459
-
-
Washietl, S.1
Hofacker, I.L.2
Stadler, P.F.3
-
81
-
-
84873054511
-
RNAz 2.0: Improved noncoding RNA detection
-
Gruber AR, Findeiß S, Washietl S, Hofacker IL, Stadler PF. RNAz 2.0: improved noncoding RNA detection. Pac Symp Biocomput. 2010; 15:69-79.
-
(2010)
Pac Symp Biocomput
, vol.15
, pp. 69-79
-
-
Gruber, A.R.1
Findeiß, S.2
Washietl, S.3
Hofacker, I.L.4
Stadler, P.F.5
-
82
-
-
79953009230
-
RNAcode: Robust prediction of protein coding regions in comparative genomics data
-
3062170 1:CAS:528:DC%2BC3MXkslSgurk%3D
-
Washietl S, Findeiß S, Müller S, Kalkhof S, von Bergen M, Hofacker IL, et al. RNAcode: robust prediction of protein coding regions in comparative genomics data. RNA. 2011; 17:578-94.
-
(2011)
RNA
, vol.17
, pp. 578-594
-
-
Washietl, S.1
Findeiß, S.2
Müller, S.3
Kalkhof, S.4
Von Bergen, M.5
Hofacker, I.L.6
-
83
-
-
84865790047
-
An integrated encyclopedia of dna elements in the human genome
-
ENCODE Project Consortium
-
ENCODE Project Consortium. An integrated encyclopedia of dna elements in the human genome. Nature. 2012; 489(7414):57-74.
-
(2012)
Nature
, vol.489
, Issue.7414
, pp. 57-74
-
-
-
84
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
1182216 1:CAS:528:DC%2BD2MXotFaht7o%3D
-
Siepel A, Bejerano G, Pedersen JS, Hinrichs A, Hou M, Rosenbloom K, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005; 15:1034-50.
-
(2005)
Genome Res
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
Bejerano, G.2
Pedersen, J.S.3
Hinrichs, A.4
Hou, M.5
Rosenbloom, K.6
-
85
-
-
79551634894
-
Phast and rphast: Phylogenetic analysis with space/time models
-
3030812 1:CAS:528:DC%2BC3MXhtlelsro%3D
-
Hubisz MJ, Pollard KS, Siepel A. Phast and rphast: phylogenetic analysis with space/time models. Brief Bioinform. 2011; 12(1):41-51.
-
(2011)
Brief Bioinform
, vol.12
, Issue.1
, pp. 41-51
-
-
Hubisz, M.J.1
Pollard, K.S.2
Siepel, A.3
-
86
-
-
78650051452
-
Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome
-
2989990 1:CAS:528:DC%2BC3cXhsFGgu7bI
-
Mercer TR, Dinger ME, Bracken CP, Kolle G, Szubert JM, Korbie DJ, et al. Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. Genome Res. 2010; 20:1639-50.
-
(2010)
Genome Res
, vol.20
, pp. 1639-1650
-
-
Mercer, T.R.1
Dinger, M.E.2
Bracken, C.P.3
Kolle, G.4
Szubert, J.M.5
Korbie, D.J.6
-
87
-
-
77955376931
-
Splice-site mutations cause rrp6-mediated nuclear retention of the unspliced RNAs and transcriptional down-regulation of the splicing-defective genes
-
Eberle AB, Hessle V, Helbig R, Dantoft W, Gimber N, Visa N. Splice-site mutations cause rrp6-mediated nuclear retention of the unspliced RNAs and transcriptional down-regulation of the splicing-defective genes. PLoS ONE. 2010; 5:11540.
-
(2010)
PLoS ONE
, vol.5
, pp. 11540
-
-
Eberle, A.B.1
Hessle, V.2
Helbig, R.3
Dantoft, W.4
Gimber, N.5
Visa, N.6
-
88
-
-
0347755531
-
The ucsc table browser data retrieval tool
-
Karolchik D, Hinrichs AS, Furey TS, Roskin KM, Sugnet CW, Haussler D, et al. The ucsc table browser data retrieval tool. Nucleic Acids Res. 2004; 32(suppl 1):493-6.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 493-496
-
-
Karolchik, D.1
Hinrichs, A.S.2
Furey, T.S.3
Roskin, K.M.4
Sugnet, C.W.5
Haussler, D.6
-
89
-
-
0023685544
-
A survey on intron and exon lengths
-
338825 1:CAS:528:DyaL1MXjsVyjsw%3D%3D
-
Hawkins JD. A survey on intron and exon lengths. Nucleic Acids Res. 1988; 16:9893-908.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 9893-9908
-
-
Hawkins, J.D.1
-
90
-
-
33750962013
-
Intron size, abundance, and distribution within untranslated regions of genes
-
1:CAS:528:DC%2BD28Xht1ejtbrM
-
Hong X, Scofield DG, Lynch M. Intron size, abundance, and distribution within untranslated regions of genes. Mol Biol Evol. 2006; 23:2392-404.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 2392-2404
-
-
Hong, X.1
Scofield, D.G.2
Lynch, M.3
-
91
-
-
38349100266
-
Variation analysis and gene annotation of eight mhc haplotypes: The mhc haplotype project
-
2206249 1:CAS:528:DC%2BD1cXotlOjsw%3D%3D
-
Horton R, Gibson R, Coggill P, Miretti M, Allcock RJ, Almeida J, et al. Variation analysis and gene annotation of eight mhc haplotypes: the mhc haplotype project. Immunogenetics. 2008; 60(1):1-18.
-
(2008)
Immunogenetics
, vol.60
, Issue.1
, pp. 1-18
-
-
Horton, R.1
Gibson, R.2
Coggill, P.3
Miretti, M.4
Allcock, R.J.5
Almeida, J.6
-
92
-
-
77649210966
-
Molecular poltergeists: Mitochondrial DNA copies (numts) in sequenced nuclear genomes
-
Hazkani-Covo E, Zeller R, Martin W. Molecular poltergeists: Mitochondrial DNA copies (numts) in sequenced nuclear genomes. PLoS Genet. 2010; 6:1000834.
-
(2010)
PLoS Genet
, vol.6
-
-
Hazkani-Covo, E.1
Zeller, R.2
Martin, W.3
-
93
-
-
33847792061
-
Mitochondrial transcription and its regulation in mammalian cells
-
1:CAS:528:DC%2BD2sXisleisLg%3D
-
Asin-Cayuela J, Gustafsson CM. Mitochondrial transcription and its regulation in mammalian cells. Trends Biochem Sci. 2007; 32:111-7.
-
(2007)
Trends Biochem Sci
, vol.32
, pp. 111-117
-
-
Asin-Cayuela, J.1
Gustafsson, C.M.2
-
94
-
-
84867520708
-
Mammalian NUMT insertion is non-random
-
3467031 1:CAS:528:DC%2BC38XhsFWktb7F
-
Tsuji J, Frith MC, Tomii K, Horton P. Mammalian NUMT insertion is non-random. Nucleic Acids Res. 2012; 40(18):9073-88.
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.18
, pp. 9073-9088
-
-
Tsuji, J.1
Frith, M.C.2
Tomii, K.3
Horton, P.4
-
95
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
Pruitt KD, Tatusova T, Maglott DR. NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2007; 35:61-5.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 61-65
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
96
-
-
84865760395
-
Gencode: The reference human genome annotation for the encode project
-
3431492 1:CAS:528:DC%2BC38XhtlentLvN
-
Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, et al. Gencode: the reference human genome annotation for the encode project. Genome Res. 2012; 22(9):1760-74.
-
(2012)
Genome Res
, vol.22
, Issue.9
, pp. 1760-1774
-
-
Harrow, J.1
Frankish, A.2
Gonzalez, J.M.3
Tapanari, E.4
Diekhans, M.5
Kokocinski, F.6
-
97
-
-
65549128370
-
The fantom web resource: From mammalian transcriptional landscape to its dynamic regulation
-
Kawaji H, Severin J, Lizio M, Waterhouse A, Katayama S, Irvine KM, et al. The fantom web resource: from mammalian transcriptional landscape to its dynamic regulation. Genome Biol. 2009; 10(4):40.
-
(2009)
Genome Biol
, vol.10
, Issue.4
, pp. 40
-
-
Kawaji, H.1
Severin, J.2
Lizio, M.3
Waterhouse, A.4
Katayama, S.5
Irvine, K.M.6
-
98
-
-
77951770756
-
Bedtools: A flexible suite of utilities for comparing genomic features
-
2832824 1:CAS:528:DC%2BC3cXivFGkurc%3D
-
Quinlan AR, Hall IM. Bedtools: a flexible suite of utilities for comparing genomic features. Bioinformatics. 2010; 26(6):841-2.
-
(2010)
Bioinformatics
, vol.26
, Issue.6
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
99
-
-
84863304598
-
-
R Foundation for Statistical Computing Vienna, Austria
-
R Core Team. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing; 2013. http://www.R-project.org/.
-
(2013)
R: A Language and Environment for Statistical Computing
-
-
-
100
-
-
77955801615
-
Galaxy: A comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
-
Goecks J, Nekrutenko A, Taylor J, Galaxy Team. Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol. 2010; 11:86.
-
(2010)
Genome Biol
, vol.11
, pp. 86
-
-
Goecks, J.1
Nekrutenko, A.2
Taylor, J.3
-
101
-
-
0036079158
-
The human genome browser at ucsc
-
186604 1:CAS:528:DC%2BD38Xks12hs7s%3D
-
Kent WJ, Sugnet CW, Furey TS, Roskin KM, Pringle TH, Zahler AM, et al. The human genome browser at ucsc. Genome Res. 2002; 12(6):996-1006.
-
(2002)
Genome Res
, vol.12
, Issue.6
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
Zahler, A.M.6
-
102
-
-
78651314039
-
Update of the fantom web resource: From mammalian transcriptional landscape to its dynamic regulation
-
Kawaji H, Severin J, Lizio M, Forrest AR, van Nimwegen E, Rehli M, et al. Update of the fantom web resource: from mammalian transcriptional landscape to its dynamic regulation. Nucleic Acids Res. 2011; 39(Database issue):856-60.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.DATABASE ISSUE
, pp. 856-860
-
-
Kawaji, H.1
Severin, J.2
Lizio, M.3
Forrest, A.R.4
Van Nimwegen, E.5
Rehli, M.6
-
103
-
-
0036372452
-
Scoring pairwise genomic sequence alignments, 2002
-
Russ B. Altman, Keith A. Dunker, Lawrence Hunter, Kevin Lauderdale, Teri E. Klein, editors. USA: World Scientific Publishing Co Pte Ltd
-
Chiaromonte F, Yap V, Miller W. Scoring pairwise genomic sequence alignments, 2002. In: Russ B. Altman, Keith A. Dunker, Lawrence Hunter, Kevin Lauderdale, Teri E. Klein, editors. Pac Symp Biocomput. vol. 7. USA: World Scientific Publishing Co Pte Ltd: 2002. p. 115-26.
-
(2002)
Pac Symp Biocomput
, vol.7
, pp. 115-126
-
-
Chiaromonte, F.1
Yap, V.2
Miller, W.3
-
104
-
-
0037267806
-
Human-mouse alignments with blastz
-
430961 1:CAS:528:DC%2BD3sXnvFGlsg%3D%3D
-
Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, et al. Human-mouse alignments with blastz. Genome Res. 2003; 13(1):103-7.
-
(2003)
Genome Res
, vol.13
, Issue.1
, pp. 103-107
-
-
Schwartz, S.1
Kent, W.J.2
Smit, A.3
Zhang, Z.4
Baertsch, R.5
Hardison, R.C.6
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