-
1
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, et al. (2005) The transcriptional landscape of the mammalian genome. Science 309: 1559-1563.
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
Carninci, P.1
Kasukawa, T.2
Katayama, S.3
Gough, J.4
Frith, M.C.5
-
2
-
-
24644472515
-
Antisense transcription in the mammalian transcriptome
-
Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, et al. (2005) Antisense transcription in the mammalian transcriptome. Science 309: 1564-1566.
-
(2005)
Science
, vol.309
, pp. 1564-1566
-
-
Katayama, S.1
Tomaru, Y.2
Kasukawa, T.3
Waki, K.4
Nakanishi, M.5
-
3
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
Birney E, Stamatoyannopoulos JA, Dutta A, Guigo R, Gingeras TR, et al. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447: 799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
Birney, E.1
Stamatoyannopoulos, J.A.2
Dutta, A.3
Guigo, R.4
Gingeras, T.R.5
-
4
-
-
84856255316
-
Bioinformatics Tools and Novel Challenges in Long Non-Coding RNAs (lncRNAs) Functional Analysis
-
Da Sacco L, Baldassarre A, Masotti A, (2012) Bioinformatics Tools and Novel Challenges in Long Non-Coding RNAs (lncRNAs) Functional Analysis. Int J Mol Sci 13: 97-114.
-
(2012)
Int J Mol Sci
, vol.13
, pp. 97-114
-
-
Da Sacco, L.1
Baldassarre, A.2
Masotti, A.3
-
5
-
-
78751474118
-
Non-coding RNAs as regulators of embryogenesis
-
Pauli A, Rinn JL, Schier AF, (2011) Non-coding RNAs as regulators of embryogenesis. Nat Rev Genet 12: 136-149.
-
(2011)
Nat Rev Genet
, vol.12
, pp. 136-149
-
-
Pauli, A.1
Rinn, J.L.2
Schier, A.F.3
-
6
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, et al. (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25: 1915-1927.
-
(2011)
Genes Dev
, vol.25
, pp. 1915-1927
-
-
Cabili, M.N.1
Trapnell, C.2
Goff, L.3
Koziol, M.4
Tazon-Vega, B.5
-
7
-
-
84871069553
-
Epigenetic regulation by long noncoding RNAs
-
Lee JT, (2012) Epigenetic regulation by long noncoding RNAs. Science 338: 1435-1439.
-
(2012)
Science
, vol.338
, pp. 1435-1439
-
-
Lee, J.T.1
-
9
-
-
80755187797
-
Genomic imprinting: a mammalian epigenetic discovery model
-
Barlow DP, (2011) Genomic imprinting: a mammalian epigenetic discovery model. Annu Rev Genet 45: 379-403.
-
(2011)
Annu Rev Genet
, vol.45
, pp. 379-403
-
-
Barlow, D.P.1
-
10
-
-
84866927722
-
The Kcnq1ot1 long non-coding RNA affects chromatin conformation and expression of Kcnq1, but does not regulate its imprinting in the developing heart
-
Korostowski L, Sedlak N, Engel N, (2012) The Kcnq1ot1 long non-coding RNA affects chromatin conformation and expression of Kcnq1, but does not regulate its imprinting in the developing heart. PLoS Genet 8: e1002956.
-
(2012)
PLoS Genet
, vol.8
-
-
Korostowski, L.1
Sedlak, N.2
Engel, N.3
-
11
-
-
54049138948
-
Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin-level regulation
-
Pandey RR, Mondal T, Mohammad F, Enroth S, Redrup L, et al. (2008) Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin-level regulation. Mol Cell 32: 232-246.
-
(2008)
Mol Cell
, vol.32
, pp. 232-246
-
-
Pandey, R.R.1
Mondal, T.2
Mohammad, F.3
Enroth, S.4
Redrup, L.5
-
12
-
-
56549111129
-
The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin
-
Nagano T, Mitchell JA, Sanz LA, Pauler FM, Ferguson-Smith AC, et al. (2008) The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin. Science 322: 1717-1720.
-
(2008)
Science
, vol.322
, pp. 1717-1720
-
-
Nagano, T.1
Mitchell, J.A.2
Sanz, L.A.3
Pauler, F.M.4
Ferguson-Smith, A.C.5
-
13
-
-
84871060911
-
Airn transcriptional overlap, but not its lncRNA products, induces imprinted Igf2r silencing
-
Latos PA, Pauler FM, Koerner MV, Senergin HB, Hudson QJ, et al. (2012) Airn transcriptional overlap, but not its lncRNA products, induces imprinted Igf2r silencing. Science 338: 1469-1472.
-
(2012)
Science
, vol.338
, pp. 1469-1472
-
-
Latos, P.A.1
Pauler, F.M.2
Koerner, M.V.3
Senergin, H.B.4
Hudson, Q.J.5
-
14
-
-
34250729138
-
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
-
Rinn JL, Kertesz M, Wang JK, Squazzo SL, Xu X, et al. (2007) Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129: 1311-1323.
-
(2007)
Cell
, vol.129
, pp. 1311-1323
-
-
Rinn, J.L.1
Kertesz, M.2
Wang, J.K.3
Squazzo, S.L.4
Xu, X.5
-
15
-
-
84856557512
-
Spatiotemporal expression pattern of Mirg, an imprinted non-coding gene, during mouse embryogenesis
-
Han Z, He H, Zhang F, Huang Z, Liu Z, et al. (2012) Spatiotemporal expression pattern of Mirg, an imprinted non-coding gene, during mouse embryogenesis. J Mol Histol 43: 1-8.
-
(2012)
J Mol Histol
, vol.43
, pp. 1-8
-
-
Han, Z.1
He, H.2
Zhang, F.3
Huang, Z.4
Liu, Z.5
-
16
-
-
79954457710
-
Expression of non-coding RNA AB063319 derived from Rian gene during mouse development
-
Gu T, He H, Xing Y, Liu Q, Gu N, et al. (2011) Expression of non-coding RNA AB063319 derived from Rian gene during mouse development. J Mol Histol 42: 105-112.
-
(2011)
J Mol Histol
, vol.42
, pp. 105-112
-
-
Gu, T.1
He, H.2
Xing, Y.3
Liu, Q.4
Gu, N.5
-
17
-
-
84858796319
-
Expression of macro non-coding RNAs Meg8 and Irm in mouse embryonic development
-
Gu T, He H, Han Z, Zeng T, Huang Z, et al. (2012) Expression of macro non-coding RNAs Meg8 and Irm in mouse embryonic development. Acta Histochem 114: 392-399.
-
(2012)
Acta Histochem
, vol.114
, pp. 392-399
-
-
Gu, T.1
He, H.2
Han, Z.3
Zeng, T.4
Huang, Z.5
-
18
-
-
80051567157
-
Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development
-
Pal S, Gupta R, Kim H, Wickramasinghe P, Baubet V, et al. (2011) Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development. Genome Res 21: 1260-1272.
-
(2011)
Genome Res
, vol.21
, pp. 1260-1272
-
-
Pal, S.1
Gupta, R.2
Kim, H.3
Wickramasinghe, P.4
Baubet, V.5
-
19
-
-
33748675254
-
An RNA gene expressed during cortical development evolved rapidly in humans
-
Pollard KS, Salama SR, Lambert N, Lambot MA, Coppens S, et al. (2006) An RNA gene expressed during cortical development evolved rapidly in humans. Nature 443: 167-172.
-
(2006)
Nature
, vol.443
, pp. 167-172
-
-
Pollard, K.S.1
Salama, S.R.2
Lambert, N.3
Lambot, M.A.4
Coppens, S.5
-
20
-
-
38649114329
-
Specific expression of long noncoding RNAs in the mouse brain
-
Mercer TR, Dinger ME, Sunkin SM, Mehler MF, Mattick JS, (2008) Specific expression of long noncoding RNAs in the mouse brain. Proc Natl Acad Sci U S A 105: 716-721.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 716-721
-
-
Mercer, T.R.1
Dinger, M.E.2
Sunkin, S.M.3
Mehler, M.F.4
Mattick, J.S.5
-
21
-
-
69149097967
-
Transcriptome of embryonic and neonatal mouse cortex by high-throughput RNA sequencing
-
Han X, Wu X, Chung WY, Li T, Nekrutenko A, et al. (2009) Transcriptome of embryonic and neonatal mouse cortex by high-throughput RNA sequencing. Proc Natl Acad Sci U S A 106: 12741-12746.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 12741-12746
-
-
Han, X.1
Wu, X.2
Chung, W.Y.3
Li, T.4
Nekrutenko, A.5
-
22
-
-
80052536392
-
RNA-Seq of human neurons derived from iPS cells reveals candidate long non-coding RNAs involved in neurogenesis and neuropsychiatric disorders
-
Lin M, Pedrosa E, Shah A, Hrabovsky A, Maqbool S, et al. (2011) RNA-Seq of human neurons derived from iPS cells reveals candidate long non-coding RNAs involved in neurogenesis and neuropsychiatric disorders. PLoS One 6: e23356.
-
(2011)
PLoS One
, vol.6
-
-
Lin, M.1
Pedrosa, E.2
Shah, A.3
Hrabovsky, A.4
Maqbool, S.5
-
23
-
-
19944376457
-
Global identification of human transcribed sequences with genome tiling arrays
-
Bertone P, Stolc V, Royce TE, Rozowsky JS, Urban AE, et al. (2004) Global identification of human transcribed sequences with genome tiling arrays. Science 306: 2242-2246.
-
(2004)
Science
, vol.306
, pp. 2242-2246
-
-
Bertone, P.1
Stolc, V.2
Royce, T.E.3
Rozowsky, J.S.4
Urban, A.E.5
-
24
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, et al. (2010) Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol 28: 503-510.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 503-510
-
-
Guttman, M.1
Garber, M.2
Levin, J.Z.3
Donaghey, J.4
Robinson, J.5
-
25
-
-
57749195712
-
RNA-Seq: a revolutionary tool for transcriptomics
-
Wang Z, Gerstein M, Snyder M, (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10: 57-63.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 57-63
-
-
Wang, Z.1
Gerstein, M.2
Snyder, M.3
-
26
-
-
79953043801
-
The developmental transcriptome of Drosophila melanogaster
-
Graveley BR, Brooks AN, Carlson JW, Duff MO, Landolin JM, et al. (2011) The developmental transcriptome of Drosophila melanogaster. Nature 471: 473-479.
-
(2011)
Nature
, vol.471
, pp. 473-479
-
-
Graveley, B.R.1
Brooks, A.N.2
Carlson, J.W.3
Duff, M.O.4
Landolin, J.M.5
-
27
-
-
67650921949
-
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
-
Khalil AM, Guttman M, Huarte M, Garber M, Raj A, et al. (2009) Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A 106: 11667-11672.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 11667-11672
-
-
Khalil, A.M.1
Guttman, M.2
Huarte, M.3
Garber, M.4
Raj, A.5
-
28
-
-
79961202865
-
Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression
-
Prensner JR, Iyer MK, Balbin OA, Dhanasekaran SM, Cao Q, et al. (2011) Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nat Biotechnol 29: 742-749.
-
(2011)
Nat Biotechnol
, vol.29
, pp. 742-749
-
-
Prensner, J.R.1
Iyer, M.K.2
Balbin, O.A.3
Dhanasekaran, S.M.4
Cao, Q.5
-
29
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
-
Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, et al. (2012) The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res 22: 1775-1789.
-
(2012)
Genome Res
, vol.22
, pp. 1775-1789
-
-
Derrien, T.1
Johnson, R.2
Bussotti, G.3
Tanzer, A.4
Djebali, S.5
-
30
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
Guttman M, Amit I, Garber M, French C, Lin MF, et al. (2009) Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458: 223-227.
-
(2009)
Nature
, vol.458
, pp. 223-227
-
-
Guttman, M.1
Amit, I.2
Garber, M.3
French, C.4
Lin, M.F.5
-
31
-
-
84864629645
-
Rapid turnover of long noncoding RNAs and the evolution of gene expression
-
Kutter C, Watt S, Stefflova K, Wilson MD, Goncalves A, et al. (2012) Rapid turnover of long noncoding RNAs and the evolution of gene expression. PLoS Genet 8: e1002841.
-
(2012)
PLoS Genet
, vol.8
-
-
Kutter, C.1
Watt, S.2
Stefflova, K.3
Wilson, M.D.4
Goncalves, A.5
-
32
-
-
84870566023
-
Long noncoding RNAs in C. elegans
-
Nam JW, Bartel DP, (2012) Long noncoding RNAs in C. elegans. Genome Res 22: 2529-2540.
-
(2012)
Genome Res
, vol.22
, pp. 2529-2540
-
-
Nam, J.W.1
Bartel, D.P.2
-
33
-
-
84871910383
-
Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
-
Liu J, Jung C, Xu J, Wang H, Deng S, et al. (2012) Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis. Plant Cell 24: 4333-4345.
-
(2012)
Plant Cell
, vol.24
, pp. 4333-4345
-
-
Liu, J.1
Jung, C.2
Xu, J.3
Wang, H.4
Deng, S.5
-
34
-
-
84862822882
-
Identification of long non-protein coding RNAs in chicken skeletal muscle using next generation sequencing
-
Li T, Wang S, Wu R, Zhou X, Zhu D, et al. (2012) Identification of long non-protein coding RNAs in chicken skeletal muscle using next generation sequencing. Genomics 99: 292-298.
-
(2012)
Genomics
, vol.99
, pp. 292-298
-
-
Li, T.1
Wang, S.2
Wu, R.3
Zhou, X.4
Zhu, D.5
-
35
-
-
84864098110
-
Identification and properties of 1,119 candidate lincRNA loci in the Drosophila melanogaster genome
-
Young RS, Marques AC, Tibbit C, Haerty W, Bassett AR, et al. (2012) Identification and properties of 1,119 candidate lincRNA loci in the Drosophila melanogaster genome. Genome Biol Evol 4: 427-442.
-
(2012)
Genome Biol Evol
, vol.4
, pp. 427-442
-
-
Young, R.S.1
Marques, A.C.2
Tibbit, C.3
Haerty, W.4
Bassett, A.R.5
-
36
-
-
84857836107
-
Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
-
Pauli A, Valen E, Lin MF, Garber M, Vastenhouw NL, et al. (2012) Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis. Genome Res 22: 577-591.
-
(2012)
Genome Res
, vol.22
, pp. 577-591
-
-
Pauli, A.1
Valen, E.2
Lin, M.F.3
Garber, M.4
Vastenhouw, N.L.5
-
37
-
-
70149123708
-
Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain
-
Ponjavic J, Oliver PL, Lunter G, Ponting CP, (2009) Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain. PLoS Genet 5: e1000617.
-
(2009)
PLoS Genet
, vol.5
-
-
Ponjavic, J.1
Oliver, P.L.2
Lunter, G.3
Ponting, C.P.4
-
38
-
-
77954399763
-
Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes
-
Chodroff RA, Goodstadt L, Sirey TM, Oliver PL, Davies KE, et al. (2010) Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes. Genome Biol 11: R72.
-
(2010)
Genome Biol
, vol.11
-
-
Chodroff, R.A.1
Goodstadt, L.2
Sirey, T.M.3
Oliver, P.L.4
Davies, K.E.5
-
39
-
-
80052869283
-
lincRNAs act in the circuitry controlling pluripotency and differentiation
-
Guttman M, Donaghey J, Carey BW, Garber M, Grenier JK, et al. (2011) lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature 477: 295-300.
-
(2011)
Nature
, vol.477
, pp. 295-300
-
-
Guttman, M.1
Donaghey, J.2
Carey, B.W.3
Garber, M.4
Grenier, J.K.5
-
40
-
-
84860581983
-
Genome-wide analysis of long noncoding RNA stability
-
Clark MB, Johnston RL, Inostroza-Ponta M, Fox AH, Fortini E, et al. (2012) Genome-wide analysis of long noncoding RNA stability. Genome Res 22: 885-898.
-
(2012)
Genome Res
, vol.22
, pp. 885-898
-
-
Clark, M.B.1
Johnston, R.L.2
Inostroza-Ponta, M.3
Fox, A.H.4
Fortini, E.5
-
41
-
-
84866127830
-
Identifying ChIP-seq enrichment using MACS
-
Feng J, Liu T, Qin B, Zhang Y, Liu XS, (2012) Identifying ChIP-seq enrichment using MACS. Nat Protoc 7: 1728-1740.
-
(2012)
Nat Protoc
, vol.7
, pp. 1728-1740
-
-
Feng, J.1
Liu, T.2
Qin, B.3
Zhang, Y.4
Liu, X.S.5
-
42
-
-
65449136284
-
TopHat: discovering splice junctions with RNA-Seq
-
Trapnell C, Pachter L, Salzberg SL, (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25: 1105-1111.
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
43
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, et al. (2010) Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 28: 511-515.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
-
44
-
-
84857836107
-
Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
-
Pauli A, Valen E, Lin MF, Garber M, Vastenhouw NL, et al. (2012) Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis. Genome Res 22: 577-591.
-
(2012)
Genome Res
, vol.22
, pp. 577-591
-
-
Pauli, A.1
Valen, E.2
Lin, M.F.3
Garber, M.4
Vastenhouw, N.L.5
-
45
-
-
34547582418
-
CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine
-
Kong L, Zhang Y, Ye ZQ, Liu XQ, Zhao SQ, et al. (2007) CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res 35: W345-349.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Kong, L.1
Zhang, Y.2
Ye, Z.Q.3
Liu, X.Q.4
Zhao, S.Q.5
-
46
-
-
84874248583
-
Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells
-
Sigova AA, Mullen AC, Molinie B, Gupta S, Orlando DA, et al. (2013) Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells. Proc Natl Acad Sci U S A 110: 2876-2881.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, pp. 2876-2881
-
-
Sigova, A.A.1
Mullen, A.C.2
Molinie, B.3
Gupta, S.4
Orlando, D.A.5
-
47
-
-
84865079670
-
Computational identification and functional predictions of long noncoding RNA in Zea mays
-
Boerner S, McGinnis KM, (2012) Computational identification and functional predictions of long noncoding RNA in Zea mays. PLoS One 7: e43047.
-
(2012)
PLoS One
, vol.7
-
-
Boerner, S.1
McGinnis, K.M.2
-
48
-
-
77955110979
-
Genome-wide computational identification and manual annotation of human long noncoding RNA genes
-
Jia H, Osak M, Bogu GK, Stanton LW, Johnson R, et al. (2010) Genome-wide computational identification and manual annotation of human long noncoding RNA genes. RNA 16: 1478-1487.
-
(2010)
RNA
, vol.16
, pp. 1478-1487
-
-
Jia, H.1
Osak, M.2
Bogu, G.K.3
Stanton, L.W.4
Johnson, R.5
-
49
-
-
84856083581
-
Analysis of transcriptome complexity through RNA sequencing in normal and failing murine hearts
-
Lee JH, Gao C, Peng G, Greer C, Ren S, et al. (2011) Analysis of transcriptome complexity through RNA sequencing in normal and failing murine hearts. Circ Res 109: 1332-1341.
-
(2011)
Circ Res
, vol.109
, pp. 1332-1341
-
-
Lee, J.H.1
Gao, C.2
Peng, G.3
Greer, C.4
Ren, S.5
-
50
-
-
80051898233
-
A transcriptomic atlas of mouse neocortical layers
-
Belgard TG, Marques AC, Oliver PL, Abaan HO, Sirey TM, et al. (2011) A transcriptomic atlas of mouse neocortical layers. Neuron 71: 605-616.
-
(2011)
Neuron
, vol.71
, pp. 605-616
-
-
Belgard, T.G.1
Marques, A.C.2
Oliver, P.L.3
Abaan, H.O.4
Sirey, T.M.5
-
52
-
-
65649112466
-
Functional and evolutionary insights into human brain development through global transcriptome analysis
-
Johnson MB, Kawasawa YI, Mason CE, Krsnik Z, Coppola G, et al. (2009) Functional and evolutionary insights into human brain development through global transcriptome analysis. Neuron 62: 494-509.
-
(2009)
Neuron
, vol.62
, pp. 494-509
-
-
Johnson, M.B.1
Kawasawa, Y.I.2
Mason, C.E.3
Krsnik, Z.4
Coppola, G.5
-
53
-
-
79960903405
-
Alternative splicing takes shape during neuronal development
-
Grabowski P, (2011) Alternative splicing takes shape during neuronal development. Curr Opin Genet Dev 21: 388-394.
-
(2011)
Curr Opin Genet Dev
, vol.21
, pp. 388-394
-
-
Grabowski, P.1
-
54
-
-
77955883388
-
Biases in Illumina transcriptome sequencing caused by random hexamer priming
-
Hansen KD, Brenner SE, Dudoit S, (2010) Biases in Illumina transcriptome sequencing caused by random hexamer priming. Nucleic Acids Res 38: e131.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Hansen, K.D.1
Brenner, S.E.2
Dudoit, S.3
-
56
-
-
67649671961
-
Long noncoding RNAs: functional surprises from the RNA world
-
Wilusz JE, Sunwoo H, Spector DL, (2009) Long noncoding RNAs: functional surprises from the RNA world. Genes Dev 23: 1494-1504.
-
(2009)
Genes Dev
, vol.23
, pp. 1494-1504
-
-
Wilusz, J.E.1
Sunwoo, H.2
Spector, D.L.3
-
57
-
-
81055155799
-
Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes
-
Ingolia NT, Lareau LF, Weissman JS, (2011) Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes. Cell 147: 789-802.
-
(2011)
Cell
, vol.147
, pp. 789-802
-
-
Ingolia, N.T.1
Lareau, L.F.2
Weissman, J.S.3
-
58
-
-
77954786287
-
Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis
-
Kondo T, Plaza S, Zanet J, Benrabah E, Valenti P, et al. (2010) Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis. Science 329: 336-339.
-
(2010)
Science
, vol.329
, pp. 336-339
-
-
Kondo, T.1
Plaza, S.2
Zanet, J.3
Benrabah, E.4
Valenti, P.5
-
59
-
-
84865839598
-
Long noncoding RNAs are rarely translated in two human cell lines
-
Banfai B, Jia H, Khatun J, Wood E, Risk B, et al. (2012) Long noncoding RNAs are rarely translated in two human cell lines. Genome Res 22: 1646-1657.
-
(2012)
Genome Res
, vol.22
, pp. 1646-1657
-
-
Banfai, B.1
Jia, H.2
Khatun, J.3
Wood, E.4
Risk, B.5
-
60
-
-
84860742355
-
NONCODE v3.0: integrative annotation of long noncoding RNAs
-
Bu D, Yu K, Sun S, Xie C, Skogerbo G, et al. (2012) NONCODE v3.0: integrative annotation of long noncoding RNAs. Nucleic Acids Res 40: D210-215.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Bu, D.1
Yu, K.2
Sun, S.3
Xie, C.4
Skogerbo, G.5
-
61
-
-
34248162440
-
Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs
-
Ponjavic J, Ponting CP, Lunter G, (2007) Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res 17: 556-565.
-
(2007)
Genome Res
, vol.17
, pp. 556-565
-
-
Ponjavic, J.1
Ponting, C.P.2
Lunter, G.3
-
62
-
-
84865757142
-
Landscape of transcription in human cells
-
Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, et al. (2012) Landscape of transcription in human cells. Nature 489: 101-108.
-
(2012)
Nature
, vol.489
, pp. 101-108
-
-
Djebali, S.1
Davis, C.A.2
Merkel, A.3
Dobin, A.4
Lassmann, T.5
-
63
-
-
84869881863
-
Transposable elements reveal a stem cell specific class of long noncoding RNAs
-
Kelley DR, Rinn JL, (2012) Transposable elements reveal a stem cell specific class of long noncoding RNAs. Genome Biol 13: R107.
-
(2012)
Genome Biol
, vol.13
-
-
Kelley, D.R.1
Rinn, J.L.2
-
64
-
-
79956010263
-
Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network
-
Liao Q, Liu C, Yuan X, Kang S, Miao R, et al. (2011) Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network. Nucleic Acids Res 39: 3864-3878.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 3864-3878
-
-
Liao, Q.1
Liu, C.2
Yuan, X.3
Kang, S.4
Miao, R.5
-
65
-
-
84876571339
-
BioGPS and MyGene.info: organizing online, gene-centric information
-
Wu C, Macleod I, Su AI, (2013) BioGPS and MyGene.info: organizing online, gene-centric information. Nucleic Acids Res 41: D561-565.
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Wu, C.1
Macleod, I.2
Su, A.I.3
-
66
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by RNA-Seq
-
Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B, (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 5: 621-628.
-
(2008)
Nat Methods
, vol.5
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
67
-
-
84869015900
-
Genome-wide analysis reveals distinct patterns of epigenetic features in long non-coding RNA loci
-
Sati S, Ghosh S, Jain V, Scaria V, Sengupta S, (2012) Genome-wide analysis reveals distinct patterns of epigenetic features in long non-coding RNA loci. Nucleic Acids Res 40: 10018-10031.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 10018-10031
-
-
Sati, S.1
Ghosh, S.2
Jain, V.3
Scaria, V.4
Sengupta, S.5
-
68
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead B, Trapnell C, Pop M, Salzberg SL, (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.
-
(2009)
Genome Biol
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
69
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-type-specific gene expression
-
Heintzman ND, Hon GC, Hawkins RD, Kheradpour P, Stark A, et al. (2009) Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature 459: 108-112.
-
(2009)
Nature
, vol.459
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
Kheradpour, P.4
Stark, A.5
-
70
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state
-
Creyghton MP, Cheng AW, Welstead GG, Kooistra T, Carey BW, et al. (2010) Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci U S A 107: 21931-21936.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 21931-21936
-
-
Creyghton, M.P.1
Cheng, A.W.2
Welstead, G.G.3
Kooistra, T.4
Carey, B.W.5
-
71
-
-
77957243921
-
Long noncoding RNAs with enhancer-like function in human cells
-
Orom UA, Derrien T, Beringer M, Gumireddy K, Gardini A, et al. (2010) Long noncoding RNAs with enhancer-like function in human cells. Cell 143: 46-58.
-
(2010)
Cell
, vol.143
, pp. 46-58
-
-
Orom, U.A.1
Derrien, T.2
Beringer, M.3
Gumireddy, K.4
Gardini, A.5
-
72
-
-
50649118350
-
Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation
-
Dinger ME, Amaral PP, Mercer TR, Pang KC, Bruce SJ, et al. (2008) Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation. Genome Res 18: 1433-1445.
-
(2008)
Genome Res
, vol.18
, pp. 1433-1445
-
-
Dinger, M.E.1
Amaral, P.P.2
Mercer, T.R.3
Pang, K.C.4
Bruce, S.J.5
-
73
-
-
84455206362
-
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
-
Ulitsky I, Shkumatava A, Jan CH, Sive H, Bartel DP, (2011) Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell 147: 1537-1550.
-
(2011)
Cell
, vol.147
, pp. 1537-1550
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.H.3
Sive, H.4
Bartel, D.P.5
-
74
-
-
79959756263
-
Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters
-
Hung T, Wang Y, Lin MF, Koegel AK, Kotake Y, et al. (2011) Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters. Nat Genet 43: 621-629.
-
(2011)
Nat Genet
, vol.43
, pp. 621-629
-
-
Hung, T.1
Wang, Y.2
Lin, M.F.3
Koegel, A.K.4
Kotake, Y.5
-
75
-
-
41749110454
-
Developmental changes in KCNQ2 and KCNQ3 expression in human brain: possible contribution to the age-dependent etiology of benign familial neonatal convulsions
-
Kanaumi T, Takashima S, Iwasaki H, Itoh M, Mitsudome A, et al. (2008) Developmental changes in KCNQ2 and KCNQ3 expression in human brain: possible contribution to the age-dependent etiology of benign familial neonatal convulsions. Brain Dev 30: 362-369.
-
(2008)
Brain Dev
, vol.30
, pp. 362-369
-
-
Kanaumi, T.1
Takashima, S.2
Iwasaki, H.3
Itoh, M.4
Mitsudome, A.5
-
76
-
-
78651325932
-
lncRNAdb: a reference database for long noncoding RNAs
-
Amaral PP, Clark MB, Gascoigne DK, Dinger ME, Mattick JS, (2011) lncRNAdb: a reference database for long noncoding RNAs. Nucleic Acids Res 39: D146-151.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Amaral, P.P.1
Clark, M.B.2
Gascoigne, D.K.3
Dinger, M.E.4
Mattick, J.S.5
-
77
-
-
32244433670
-
Novel transcription factor zfh-5 is negatively regulated by its own antisense RNA in mouse brain
-
Komine Y, Nakamura K, Katsuki M, Yamamori T, (2006) Novel transcription factor zfh-5 is negatively regulated by its own antisense RNA in mouse brain. Mol Cell Neurosci 31: 273-283.
-
(2006)
Mol Cell Neurosci
, vol.31
, pp. 273-283
-
-
Komine, Y.1
Nakamura, K.2
Katsuki, M.3
Yamamori, T.4
-
78
-
-
77952367798
-
Widespread transcription at neuronal activity-regulated enhancers
-
Kim TK, Hemberg M, Gray JM, Costa AM, Bear DM, et al. (2010) Widespread transcription at neuronal activity-regulated enhancers. Nature 465: 182-187.
-
(2010)
Nature
, vol.465
, pp. 182-187
-
-
Kim, T.K.1
Hemberg, M.2
Gray, J.M.3
Costa, A.M.4
Bear, D.M.5
-
79
-
-
0034069495
-
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29.
-
(2000)
Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
-
80
-
-
38549126643
-
KEGG for linking genomes to life and the environment
-
Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, et al. (2008) KEGG for linking genomes to life and the environment. Nucleic Acids Res 36: D480-484.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Kanehisa, M.1
Araki, M.2
Goto, S.3
Hattori, M.4
Hirakawa, M.5
-
81
-
-
84862192725
-
The UniProt-GO Annotation database in 2011
-
Dimmer EC, Huntley RP, Alam-Faruque Y, Sawford T, O'Donovan C, et al. (2012) The UniProt-GO Annotation database in 2011. Nucleic Acids Res 40: D565-570.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Dimmer, E.C.1
Huntley, R.P.2
Alam-Faruque, Y.3
Sawford, T.4
O'Donovan, C.5
-
82
-
-
58549112996
-
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
-
Huang da W, Sherman BT, Lempicki RA, (2009) Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res 37: 1-13.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 1-13
-
-
da Huang, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
83
-
-
79959920881
-
An integrated ChIP-seq analysis platform with customizable workflows
-
Giannopoulou EG, Elemento O, (2011) An integrated ChIP-seq analysis platform with customizable workflows. BMC Bioinformatics 12: 277.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 277
-
-
Giannopoulou, E.G.1
Elemento, O.2
-
84
-
-
61849133411
-
Long intronic noncoding RNA transcription: expression noise or expression choice?
-
Louro R, Smirnova AS, Verjovski-Almeida S, (2009) Long intronic noncoding RNA transcription: expression noise or expression choice? Genomics 93: 291-298.
-
(2009)
Genomics
, vol.93
, pp. 291-298
-
-
Louro, R.1
Smirnova, A.S.2
Verjovski-Almeida, S.3
-
85
-
-
27744565709
-
Natural antisense as potential regulator of alternative initiation, splicing and termination
-
Enerly E, Sheng Z, Li KB, (2005) Natural antisense as potential regulator of alternative initiation, splicing and termination. In Silico Biol 5: 367-377.
-
(2005)
In Silico Biol
, vol.5
, pp. 367-377
-
-
Enerly, E.1
Sheng, Z.2
Li, K.B.3
-
86
-
-
80053574511
-
Non-coding RNA and antisense RNA. Nature's trash or treasure?
-
Knowling S, Morris KV, (2011) Non-coding RNA and antisense RNA. Nature's trash or treasure? Biochimie 93: 1922-1927.
-
(2011)
Biochimie
, vol.93
, pp. 1922-1927
-
-
Knowling, S.1
Morris, K.V.2
-
87
-
-
0344530945
-
Antisense regulation in X inactivation and autosomal imprinting
-
Ogawa Y, Lee JT, (2002) Antisense regulation in X inactivation and autosomal imprinting. Cytogenet Genome Res 99: 59-65.
-
(2002)
Cytogenet Genome Res
, vol.99
, pp. 59-65
-
-
Ogawa, Y.1
Lee, J.T.2
-
88
-
-
17344371752
-
Natural antisense transcripts associated with genes involved in eye development
-
Alfano G, Vitiello C, Caccioppoli C, Caramico T, Carola A, et al. (2005) Natural antisense transcripts associated with genes involved in eye development. Hum Mol Genet 14: 913-923.
-
(2005)
Hum Mol Genet
, vol.14
, pp. 913-923
-
-
Alfano, G.1
Vitiello, C.2
Caccioppoli, C.3
Caramico, T.4
Carola, A.5
-
89
-
-
35549001312
-
Genomic imprinting effects on brain development and function
-
Wilkinson LS, Davies W, Isles AR, (2007) Genomic imprinting effects on brain development and function. Nat Rev Neurosci 8: 832-843.
-
(2007)
Nat Rev Neurosci
, vol.8
, pp. 832-843
-
-
Wilkinson, L.S.1
Davies, W.2
Isles, A.R.3
-
90
-
-
69549128557
-
The function of non-coding RNAs in genomic imprinting
-
Koerner MV, Pauler FM, Huang R, Barlow DP, (2009) The function of non-coding RNAs in genomic imprinting. Development 136: 1771-1783.
-
(2009)
Development
, vol.136
, pp. 1771-1783
-
-
Koerner, M.V.1
Pauler, F.M.2
Huang, R.3
Barlow, D.P.4
-
91
-
-
80755152322
-
An RNA-Seq strategy to detect the complete coding and non-coding transcriptome including full-length imprinted macro ncRNAs
-
Huang R, Jaritz M, Guenzl P, Vlatkovic I, Sommer A, et al. (2011) An RNA-Seq strategy to detect the complete coding and non-coding transcriptome including full-length imprinted macro ncRNAs. PLoS One 6: e27288.
-
(2011)
PLoS One
, vol.6
-
-
Huang, R.1
Jaritz, M.2
Guenzl, P.3
Vlatkovic, I.4
Sommer, A.5
-
92
-
-
0034866588
-
Identification of a new imprinted gene, Rian, on mouse chromosome 12 by fluorescent differential display screening
-
Hatada I, Morita S, Obata Y, Sotomaru Y, Shimoda M, et al. (2001) Identification of a new imprinted gene, Rian, on mouse chromosome 12 by fluorescent differential display screening. J Biochem 130: 187-190.
-
(2001)
J Biochem
, vol.130
, pp. 187-190
-
-
Hatada, I.1
Morita, S.2
Obata, Y.3
Sotomaru, Y.4
Shimoda, M.5
-
93
-
-
77956164185
-
The primate-specific microRNA gene cluster (C19MC) is imprinted in the placenta
-
Noguer-Dance M, Abu-Amero S, Al-Khtib M, Lefevre A, Coullin P, et al. (2010) The primate-specific microRNA gene cluster (C19MC) is imprinted in the placenta. Hum Mol Genet 19: 3566-3582.
-
(2010)
Hum Mol Genet
, vol.19
, pp. 3566-3582
-
-
Noguer-Dance, M.1
Abu-Amero, S.2
Al-Khtib, M.3
Lefevre, A.4
Coullin, P.5
-
94
-
-
84873300214
-
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment
-
Klattenhoff CA, Scheuermann JC, Surface LE, Bradley RK, Fields PA, et al. (2013) Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell 152: 570-583.
-
(2013)
Cell
, vol.152
, pp. 570-583
-
-
Klattenhoff, C.A.1
Scheuermann, J.C.2
Surface, L.E.3
Bradley, R.K.4
Fields, P.A.5
-
95
-
-
78650594380
-
17A, a novel non-coding RNA, regulates GABA B alternative splicing and signaling in response to inflammatory stimuli and in Alzheimer disease
-
Massone S, Vassallo I, Fiorino G, Castelnuovo M, Barbieri F, et al. (2011) 17A, a novel non-coding RNA, regulates GABA B alternative splicing and signaling in response to inflammatory stimuli and in Alzheimer disease. Neurobiol Dis 41: 308-317.
-
(2011)
Neurobiol Dis
, vol.41
, pp. 308-317
-
-
Massone, S.1
Vassallo, I.2
Fiorino, G.3
Castelnuovo, M.4
Barbieri, F.5
-
96
-
-
77954572735
-
Long noncoding RNA as modular scaffold of histone modification complexes
-
Tsai MC, Manor O, Wan Y, Mosammaparast N, Wang JK, et al. (2010) Long noncoding RNA as modular scaffold of histone modification complexes. Science 329: 689-693.
-
(2010)
Science
, vol.329
, pp. 689-693
-
-
Tsai, M.C.1
Manor, O.2
Wan, Y.3
Mosammaparast, N.4
Wang, J.K.5
-
98
-
-
78649467088
-
Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells
-
Loewer S, Cabili MN, Guttman M, Loh YH, Thomas K, et al. (2010) Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells. Nat Genet 42: 1113-1117.
-
(2010)
Nat Genet
, vol.42
, pp. 1113-1117
-
-
Loewer, S.1
Cabili, M.N.2
Guttman, M.3
Loh, Y.H.4
Thomas, K.5
-
99
-
-
77951118936
-
Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis
-
Gupta RA, Shah N, Wang KC, Kim J, Horlings HM, et al. (2010) Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature 464: 1071-1076.
-
(2010)
Nature
, vol.464
, pp. 1071-1076
-
-
Gupta, R.A.1
Shah, N.2
Wang, K.C.3
Kim, J.4
Horlings, H.M.5
-
100
-
-
84870899078
-
Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study
-
Sun L, Zhang Z, Bailey TL, Perkins AC, Tallack MR, et al. (2012) Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study. BMC Bioinformatics 13: 331.
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 331
-
-
Sun, L.1
Zhang, Z.2
Bailey, T.L.3
Perkins, A.C.4
Tallack, M.R.5
-
101
-
-
77952908743
-
A large fraction of extragenic RNA pol II transcription sites overlap enhancers
-
De Santa F, Barozzi I, Mietton F, Ghisletti S, Polletti S, et al. (2010) A large fraction of extragenic RNA pol II transcription sites overlap enhancers. PLoS Biol 8: e1000384.
-
(2010)
PLoS Biol
, vol.8
-
-
De Santa, F.1
Barozzi, I.2
Mietton, F.3
Ghisletti, S.4
Polletti, S.5
-
102
-
-
79952115386
-
In-depth transcriptome analysis reveals novel TARs and prevalent antisense transcription in human cell lines
-
Klevebring D, Bjursell M, Emanuelsson O, Lundeberg J, (2010) In-depth transcriptome analysis reveals novel TARs and prevalent antisense transcription in human cell lines. PLoS One 5: e9762.
-
(2010)
PLoS One
, vol.5
-
-
Klevebring, D.1
Bjursell, M.2
Emanuelsson, O.3
Lundeberg, J.4
-
103
-
-
58149506281
-
Transcription is required for establishment of germline methylation marks at imprinted genes
-
Chotalia M, Smallwood SA, Ruf N, Dawson C, Lucifero D, et al. (2009) Transcription is required for establishment of germline methylation marks at imprinted genes. Genes Dev 23: 105-117.
-
(2009)
Genes Dev
, vol.23
, pp. 105-117
-
-
Chotalia, M.1
Smallwood, S.A.2
Ruf, N.3
Dawson, C.4
Lucifero, D.5
-
104
-
-
84865121188
-
An encyclopedia of mouse DNA elements (Mouse ENCODE)
-
Stamatoyannopoulos JA, Snyder M, Hardison R, Ren B, Gingeras T, et al. (2012) An encyclopedia of mouse DNA elements (Mouse ENCODE). Genome Biol 13: 418.
-
(2012)
Genome Biol
, vol.13
, pp. 418
-
-
Stamatoyannopoulos, J.A.1
Snyder, M.2
Hardison, R.3
Ren, B.4
Gingeras, T.5
-
105
-
-
84859436530
-
NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy
-
Pruitt KD, Tatusova T, Brown GR, Maglott DR, (2012) NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Res 40: D130-135.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Pruitt, K.D.1
Tatusova, T.2
Brown, G.R.3
Maglott, D.R.4
-
106
-
-
84858221706
-
Ensembl 2012
-
Flicek P, Amode MR, Barrell D, Beal K, Brent S, et al. (2012) Ensembl 2012. Nucleic Acids Res 40: D84-90.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Flicek, P.1
Amode, M.R.2
Barrell, D.3
Beal, K.4
Brent, S.5
-
107
-
-
84855989434
-
Closure of the NCBI SRA and implications for the long-term future of genomics data storage
-
Lipman D, Flicek P, Salzberg S, Gerstein M, Knight R, (2011) Closure of the NCBI SRA and implications for the long-term future of genomics data storage. Genome Biol 12: 402.
-
(2011)
Genome Biol
, vol.12
, pp. 402
-
-
Lipman, D.1
Flicek, P.2
Salzberg, S.3
Gerstein, M.4
Knight, R.5
-
108
-
-
84859865967
-
The UCSC Genome Browser database: extensions and updates 2011
-
Dreszer TR, Karolchik D, Zweig AS, Hinrichs AS, Raney BJ, et al. (2012) The UCSC Genome Browser database: extensions and updates 2011. Nucleic Acids Res 40: D918-923.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Dreszer, T.R.1
Karolchik, D.2
Zweig, A.S.3
Hinrichs, A.S.4
Raney, B.J.5
-
109
-
-
84859256941
-
Critical evaluation of imprinted gene expression by RNA-Seq: a new perspective
-
DeVeale B, van der Kooy D, Babak T, (2012) Critical evaluation of imprinted gene expression by RNA-Seq: a new perspective. PLoS Genet 8: e1002600.
-
(2012)
PLoS Genet
, vol.8
-
-
DeVeale, B.1
van der Kooy, D.2
Babak, T.3
-
110
-
-
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, et al. (2011) Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation. Nucleic Acids Res 39: D856-860.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Kawaji, H.1
Severin, J.2
Lizio, M.3
Forrest, A.R.4
van Nimwegen, E.5
-
111
-
-
79958724665
-
RNA sequencing reveals two major classes of gene expression levels in metazoan cells
-
Hebenstreit D, Fang M, Gu M, Charoensawan V, van Oudenaarden A, et al. (2011) RNA sequencing reveals two major classes of gene expression levels in metazoan cells. Mol Syst Biol 7: 497.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 497
-
-
Hebenstreit, D.1
Fang, M.2
Gu, M.3
Charoensawan, V.4
van Oudenaarden, A.5
-
112
-
-
74549125753
-
An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data
-
Ramskold D, Wang ET, Burge CB, Sandberg R, (2009) An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS Comput Biol 5: e1000598.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Ramskold, D.1
Wang, E.T.2
Burge, C.B.3
Sandberg, R.4
-
113
-
-
75549083389
-
UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs
-
Grillo G, Turi A, Licciulli F, Mignone F, Liuni S, et al. (2010) UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. Nucleic Acids Res 38: D75-80.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 75-80
-
-
Grillo, G.1
Turi, A.2
Licciulli, F.3
Mignone, F.4
Liuni, S.5
|