-
1
-
-
84879671055
-
Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs
-
23818866 3688513
-
Hangauer MJ, Vaughn IW, McManus MT. Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs. PLoS Genet. 2013;9(6):e1003569.
-
(2013)
PLoS Genet
, vol.9
, Issue.6
, pp. e1003569
-
-
Hangauer, M.J.1
Vaughn, I.W.2
McManus, M.T.3
-
2
-
-
84911444179
-
Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes
-
Ezkurdia I, Juan D, Rodriguez JM, Frankish A, Diekhans M, Harrow J, et al. Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes. Hum Mol Genet. 2014.
-
(2014)
Hum Mol Genet.
-
-
Ezkurdia, I.1
Juan, D.2
Rodriguez, J.M.3
Frankish, A.4
Diekhans, M.5
Harrow, J.6
-
3
-
-
0037062978
-
The antiquity of RNA-based evolution
-
12110897
-
Joyce GF. The antiquity of RNA-based evolution. Nature. 2002;418(6894):214-21.
-
(2002)
Nature
, vol.418
, Issue.6894
, pp. 214-221
-
-
Joyce, G.F.1
-
4
-
-
67650921949
-
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
-
19571010 2704857
-
Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Rivea Morales D, et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A. 2009;106(28):11667-72.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, Issue.28
, pp. 11667-11672
-
-
Khalil, A.M.1
Guttman, M.2
Huarte, M.3
Garber, M.4
Raj, A.5
Rivea Morales, D.6
-
5
-
-
84946086288
-
An update on LNCipedia: A database for annotated human lncRNA sequences
-
25378313 4383901
-
Volders P-J, Verheggen K, Menschaert G, Vandepoele K, Martens L, Vandesompele J, et al. An update on LNCipedia: a database for annotated human lncRNA sequences. Nucleic Acids Res. 2015;43(D1):D174-80.
-
(2015)
Nucleic Acids Res
, vol.43
, Issue.D1
, pp. D174-D180
-
-
Volders, P.-J.1
Verheggen, K.2
Menschaert, G.3
Vandepoele, K.4
Martens, L.5
Vandesompele, J.6
-
6
-
-
84879987789
-
LincRNAs: Genomics, evolution, and mechanisms
-
23827673 3924787
-
Ulitsky I, Bartel DP. lincRNAs: genomics, evolution, and mechanisms. Cell. 2013;154(1):26-46.
-
(2013)
Cell
, vol.154
, Issue.1
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
7
-
-
84879969127
-
Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins
-
23810193 3756563
-
Guttman M, Russell P, Ingolia NT, Weissman JS, Lander ES. Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins. Cell. 2013;154(1):240-51.
-
(2013)
Cell
, vol.154
, Issue.1
, pp. 240-251
-
-
Guttman, M.1
Russell, P.2
Ingolia, N.T.3
Weissman, J.S.4
Lander, E.S.5
-
8
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
21890647 3185964
-
Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, et al. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev. 2011;25(18):1915-27.
-
(2011)
Genes Dev
, vol.25
, Issue.18
, pp. 1915-1927
-
-
Cabili, M.N.1
Trapnell, C.2
Goff, L.3
Koziol, M.4
Tazon-Vega, B.5
Regev, A.6
-
9
-
-
84924063355
-
The landscape of long noncoding RNAs in the human transcriptome
-
Iyer MK, Niknafs YS, Malik R, Singhal U, Sahu A, Hosono Y, et al. The landscape of long noncoding RNAs in the human transcriptome. Nat Genet. 2015.
-
(2015)
Nat Genet.
-
-
Iyer, M.K.1
Niknafs, Y.S.2
Malik, R.3
Singhal, U.4
Sahu, A.5
Hosono, Y.6
-
10
-
-
84855539848
-
Targeted RNA sequencing reveals the deep complexity of the human transcriptome
-
Mercer TR, Gerhardt DJ, Dinger ME, Crawford J, Trapnell C, Jeddeloh JA, et al. Targeted RNA sequencing reveals the deep complexity of the human transcriptome. Nat Biotechnol. 2012;30(1):99-104.
-
(2012)
Nat Biotechnol
, vol.30
, Issue.1
, pp. 99-104
-
-
Mercer, T.R.1
Gerhardt, D.J.2
Dinger, M.E.3
Crawford, J.4
Trapnell, C.5
Jeddeloh, J.A.6
-
11
-
-
84891757415
-
Multiple knockout mouse models reveal lincRNAs are required for life and brain development
-
24381249 3874104
-
Sauvageau M, Goff LA, Lodato S, Bonev B, Groff AF, Gerhardinger C, et al. Multiple knockout mouse models reveal lincRNAs are required for life and brain development. Elife. 2013;2:e01749.
-
(2013)
Elife
, vol.2
, pp. e01749
-
-
Sauvageau, M.1
Goff, L.A.2
Lodato, S.3
Bonev, B.4
Groff, A.F.5
Gerhardinger, C.6
-
12
-
-
84876807416
-
Overexpression of long noncoding RNA PCAT-1 is a novel biomarker of poor prognosis in patients with colorectal cancer
-
Ge X, Chen Y, Liao X, Liu D, Li F, Ruan H, et al. Overexpression of long noncoding RNA PCAT-1 is a novel biomarker of poor prognosis in patients with colorectal cancer. Med Oncol. 2013;30(2):1-6.
-
(2013)
Med Oncol
, vol.30
, Issue.2
, pp. 1-6
-
-
Ge, X.1
Chen, Y.2
Liao, X.3
Liu, D.4
Li, F.5
Ruan, H.6
-
13
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
503-U166 20436462 2868100
-
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(5):503-U166.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.5
-
-
Guttman, M.1
Garber, M.2
Levin, J.Z.3
Donaghey, J.4
Robinson, J.5
Adiconis, X.6
-
14
-
-
76249108851
-
Catalogues of mammalian long noncoding RNAs: Modest conservation and incompleteness
-
19895688 3091318
-
Marques AC, Ponting CP. Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness. Genome Biol. 2009;10(11):R124.
-
(2009)
Genome Biol
, vol.10
, Issue.11
, pp. R124
-
-
Marques, A.C.1
Ponting, C.P.2
-
15
-
-
84884594782
-
A global map for dissecting phenotypic variants in human lincRNAs
-
23463026 3778363
-
Ning S, Wang P, Ye J, Li X, Li R, Zhao Z, et al. A global map for dissecting phenotypic variants in human lincRNAs. Eur J Hum Genet. 2013;21(10):1128-33.
-
(2013)
Eur J Hum Genet
, vol.21
, Issue.10
, pp. 1128-1133
-
-
Ning, S.1
Wang, P.2
Ye, J.3
Li, X.4
Li, R.5
Zhao, Z.6
-
16
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
19182780 2754849
-
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(7235):223-7.
-
(2009)
Nature
, vol.458
, Issue.7235
, pp. 223-227
-
-
Guttman, M.1
Amit, I.2
Garber, M.3
French, C.4
Lin, M.F.5
Feldser, D.6
-
17
-
-
80053590671
-
A global clustering algorithm to identify long intergenic non-coding RNA - With applications in mouse macrophages
-
21980340 3184070
-
Garmire LX, Garmire DG, Huang W, Yao J, Glass CK, Subramaniam S. A global clustering algorithm to identify long intergenic non-coding RNA - with applications in mouse macrophages. PLoS One. 2011;6(9):e24051.
-
(2011)
PLoS One
, vol.6
, Issue.9
, pp. e24051
-
-
Garmire, L.X.1
Garmire, D.G.2
Huang, W.3
Yao, J.4
Glass, C.K.5
Subramaniam, S.6
-
18
-
-
84865757142
-
Landscape of transcription in human cells
-
22955620 3684276
-
Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, Mortazavi A, et al. Landscape of transcription in human cells. Nature. 2012;489(7414):101-8.
-
(2012)
Nature
, vol.489
, Issue.7414
, pp. 101-108
-
-
Djebali, S.1
Davis, C.A.2
Merkel, A.3
Dobin, A.4
Lassmann, T.5
Mortazavi, A.6
-
19
-
-
79951551684
-
Genomewide characterization of non-polyadenylated RNAs
-
21324177 3188798
-
Yang L, Duff MO, Graveley BR, Carmichael GG, Chen L-L. Genomewide characterization of non-polyadenylated RNAs. Genome Biol. 2011;12(2):R16.
-
(2011)
Genome Biol
, vol.12
, Issue.2
, pp. R16
-
-
Yang, L.1
Duff, M.O.2
Graveley, B.R.3
Carmichael, G.G.4
Chen, L.-L.5
-
20
-
-
57849105533
-
The antisense transcriptomes of human cells
-
19056939 2824178
-
He Y, Vogelstein B, Velculescu VE, Papadopoulos N, Kinzler KW. The antisense transcriptomes of human cells. Science. 2008;322(5909):1855-7.
-
(2008)
Science
, vol.322
, Issue.5909
, pp. 1855-1857
-
-
He, Y.1
Vogelstein, B.2
Velculescu, V.E.3
Papadopoulos, N.4
Kinzler, K.W.5
-
21
-
-
84897386188
-
Comparison of CAGE and RNA-seq transcriptome profiling using clonally amplified and single-molecule next-generation sequencing
-
24676093 3975069
-
Kawaji H, Lizio M, Itoh M, Kanamori-Katayama M, Kaiho A, Nishiyori-Sueki H, et al. Comparison of CAGE and RNA-seq transcriptome profiling using clonally amplified and single-molecule next-generation sequencing. Genome Res. 2014;24(4):708-17.
-
(2014)
Genome Res
, vol.24
, Issue.4
, pp. 708-717
-
-
Kawaji, H.1
Lizio, M.2
Itoh, M.3
Kanamori-Katayama, M.4
Kaiho, A.5
Nishiyori-Sueki, H.6
-
22
-
-
84455206362
-
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
-
22196729 3376356
-
Ulitsky I, Shkumatava A, Jan CH, Sive H, Bartel DP. Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell. 2011;147(7):1537-50.
-
(2011)
Cell
, vol.147
, Issue.7
, pp. 1537-1550
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.H.3
Sive, H.4
Bartel, D.P.5
-
23
-
-
81055150443
-
Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer
-
22078386 3225313
-
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
-
24
-
-
79961202865
-
Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression
-
21804560 3152676
-
Prensner JR, Iyer MK, Balbin OA, Dhanasekaran SM, Cao Q, Brenner JC, et al. Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nat Biotechnol. 2011;29(8):742-9.
-
(2011)
Nat Biotechnol
, vol.29
, Issue.8
, pp. 742-749
-
-
Prensner, J.R.1
Iyer, M.K.2
Balbin, O.A.3
Dhanasekaran, S.M.4
Cao, Q.5
Brenner, J.C.6
-
26
-
-
34547582418
-
CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine
-
17631615 1933232
-
Kong L, Zhang Y, Ye ZQ, Liu XQ, Zhao SQ, Wei L, et al. CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res. 2007;35(Web Server issue):W345-349.
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.WEB SERVER ISSUE
, pp. W345-349
-
-
Kong, L.1
Zhang, Y.2
Ye, Z.Q.3
Liu, X.Q.4
Zhao, S.Q.5
Wei, L.6
-
27
-
-
84877357792
-
ISeeRNA: Identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data
-
23445546 3582448
-
Sun K, Chen X, Jiang P, Song X, Wang H, Sun H. iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data. BMC Genomics. 2013;14 Suppl 2:S7.
-
(2013)
BMC Genomics
, vol.14
, pp. S7
-
-
Sun, K.1
Chen, X.2
Jiang, P.3
Song, X.4
Wang, H.5
Sun, H.6
-
28
-
-
84864739324
-
Integrative transcriptome analysis suggest processing of a subset of long non-coding RNAs to small RNAs
-
22871084 3477000
-
Jalali S, Jayaraj GG, Scaria V. Integrative transcriptome analysis suggest processing of a subset of long non-coding RNAs to small RNAs. Biol Direct. 2012;7:25.
-
(2012)
Biol Direct
, vol.7
, pp. 25
-
-
Jalali, S.1
Jayaraj, G.G.2
Scaria, V.3
-
29
-
-
14944374438
-
Distributions of exons and introns in the human genome
-
15217358
-
Sakharkar MK, Chow VT, Kangueane P. Distributions of exons and introns in the human genome. In Silico Biol. 2004;4(4):387-93.
-
(2004)
In Silico Biol
, vol.4
, Issue.4
, pp. 387-393
-
-
Sakharkar, M.K.1
Chow, V.T.2
Kangueane, P.3
-
30
-
-
1942454210
-
Evidence that functional transcription units cover at least half of the human genome
-
15109775
-
Semon M, Duret L. Evidence that functional transcription units cover at least half of the human genome. Trends Genet. 2004;20(5):229-32.
-
(2004)
Trends Genet
, vol.20
, Issue.5
, pp. 229-232
-
-
Semon, M.1
Duret, L.2
-
31
-
-
84877147615
-
Long noncoding RNA: An emerging paradigm of cancer research
-
23359273
-
Qiu MT, Hu JW, Yin R, Xu L. Long noncoding RNA: an emerging paradigm of cancer research. Tumour Biol. 2013;34(2):613-20.
-
(2013)
Tumour Biol
, vol.34
, Issue.2
, pp. 613-620
-
-
Qiu, M.T.1
Hu, J.W.2
Yin, R.3
Xu, L.4
-
32
-
-
84887233614
-
Computational identification of human long intergenic non-coding RNAs using a GA-SVM algorithm
-
24120395
-
Wang Y, Li Y, Wang Q, Lv Y, Wang S, Chen X, et al. Computational identification of human long intergenic non-coding RNAs using a GA-SVM algorithm. Gene. 2014;533(1):94-9.
-
(2014)
Gene
, vol.533
, Issue.1
, pp. 94-99
-
-
Wang, Y.1
Li, Y.2
Wang, Q.3
Lv, Y.4
Wang, S.5
Chen, X.6
-
33
-
-
84865079670
-
Computational identification and functional predictions of long noncoding RNA in Zea mays
-
22916204 3420876
-
Boerner S, McGinnis KM. Computational identification and functional predictions of long noncoding RNA in Zea mays. PLoS One. 2012;7(8):e43047.
-
(2012)
PLoS One
, vol.7
, Issue.8
, pp. e43047
-
-
Boerner, S.1
McGinnis, K.M.2
-
34
-
-
84923332392
-
LncRNA-MFDL: Identification of human long non-coding RNAs by fusing multiple features and using deep learning
-
Fan X-N, Zhang S-W. lncRNA-MFDL: identification of human long non-coding RNAs by fusing multiple features and using deep learning. Mol Biosyst. 2015. 11.3 (2015):892-897.
-
(2015)
Mol Biosyst.
, vol.11
, Issue.3
, pp. 892-897
-
-
Fan, X.-N.1
Zhang, S.-W.2
-
35
-
-
84891798006
-
NONCODEv4: Exploring the world of long non-coding RNA genes
-
24285305 3965073
-
Xie C, Yuan J, Li H, Li M, Zhao G, Bu D, et al. NONCODEv4: exploring the world of long non-coding RNA genes. Nucleic Acids Res. 2014;42(D1):D98-D103.
-
(2014)
Nucleic Acids Res
, vol.42
, Issue.D1
, pp. D98-D103
-
-
Xie, C.1
Yuan, J.2
Li, H.3
Li, M.4
Zhao, G.5
Bu, D.6
-
36
-
-
84858221706
-
Ensembl 2012
-
22086963 3245178
-
Flicek P, Amode MR, Barrell D, Beal K, Brent S, Carvalho-Silva D, et al. Ensembl 2012. Nucleic Acids Res. 2012;40(Database issue):D84-90.
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.DATABASE ISSUE
, pp. D84-90
-
-
Flicek, P.1
Amode, M.R.2
Barrell, D.3
Beal, K.4
Brent, S.5
Carvalho-Silva, D.6
-
37
-
-
84865760395
-
GENCODE: The reference human genome annotation for the ENCODE Project
-
22955987 3431492
-
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
-
38
-
-
33646133653
-
The UCSC known genes
-
16500937
-
Hsu F, Kent WJ, Clawson H, Kuhn RM, Diekhans M, Haussler D. The UCSC known genes. Bioinformatics. 2006;22(9):1036-46.
-
(2006)
Bioinformatics
, vol.22
, Issue.9
, pp. 1036-1046
-
-
Hsu, F.1
Kent, W.J.2
Clawson, H.3
Kuhn, R.M.4
Diekhans, M.5
Haussler, D.6
-
39
-
-
13444252847
-
Rfam: Annotating non-coding RNAs in complete genomes
-
15608160 540035
-
Griffiths-Jones S, Moxon S, Marshall M, Khanna A, Eddy SR, Bateman A. Rfam: annotating non-coding RNAs in complete genomes. Nucleic Acids Res. 2005;33 suppl 1:D121-4.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. D121-D124
-
-
Griffiths-Jones, S.1
Moxon, S.2
Marshall, M.3
Khanna, A.4
Eddy, S.R.5
Bateman, A.6
-
40
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
Dunham I, Kundaje A, Aldred SF, Collins PJ, Davis CA, Doyle F, et al. 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
-
-
Dunham, I.1
Kundaje, A.2
Aldred, S.F.3
Collins, P.J.4
Davis, C.A.5
Doyle, F.6
-
41
-
-
84892999996
-
Methods for comprehensive experimental identification of RNA-protein interactions
-
24467948 4054858
-
McHugh CA, Russell P, Guttman M. Methods for comprehensive experimental identification of RNA-protein interactions. Genome Biol. 2014;15:203.
-
(2014)
Genome Biol
, vol.15
, pp. 203
-
-
McHugh, C.A.1
Russell, P.2
Guttman, M.3
-
42
-
-
84897477133
-
Noncoding RNAs and LRRFIP1 regulate TNF expression
-
24567534 3965610
-
Shi L, Song L, Fitzgerald M, Maurer K, Bagashev A, Sullivan KE. Noncoding RNAs and LRRFIP1 regulate TNF expression. J Immunol. 2014;192(7):3057-67.
-
(2014)
J Immunol
, vol.192
, Issue.7
, pp. 3057-3067
-
-
Shi, L.1
Song, L.2
Fitzgerald, M.3
Maurer, K.4
Bagashev, A.5
Sullivan, K.E.6
-
43
-
-
84890031914
-
Poly-combing the genome for RNA
-
24304912
-
Goff LA, Rinn JL. Poly-combing the genome for RNA. Nat Struct Mol Biol. 2013;20(12):1344-6.
-
(2013)
Nat Struct Mol Biol
, vol.20
, Issue.12
, pp. 1344-1346
-
-
Goff, L.A.1
Rinn, J.L.2
-
44
-
-
84921889184
-
Affinity Purification of Long Noncoding RNA-Protein Complexes from Formaldehyde Cross-Linked Mammalian Cells
-
edn.: Springer; New York
-
Gong C, Maquat LE. Affinity Purification of Long Noncoding RNA-Protein Complexes from Formaldehyde Cross-Linked Mammalian Cells. In: Regulatory Non-Coding RNAs. edn.: Springer; New York. 2015: 81-86.
-
(2015)
Regulatory Non-Coding RNAs
, pp. 81-86
-
-
Gong, C.1
Maquat, L.E.2
-
45
-
-
84926177361
-
Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes
-
Ma W, Ay F, Lee C, Gulsoy G, Deng X, Cook S, et al. Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes. Nat Methods. 2014.
-
(2014)
Nat Methods
-
-
Ma, W.1
Ay, F.2
Lee, C.3
Gulsoy, G.4
Deng, X.5
Cook, S.6
-
46
-
-
84901012314
-
A short guide to long non-coding RNA gene nomenclature
-
24716852 4021045
-
Wright MW. A short guide to long non-coding RNA gene nomenclature. Hum Genomics. 2014;8:7.
-
(2014)
Hum Genomics
, vol.8
, pp. 7
-
-
Wright, M.W.1
-
47
-
-
60349120914
-
Long non-coding RNAs: Insights into functions
-
19188922
-
Mercer TR, Dinger ME, Mattick JS. Long non-coding RNAs: insights into functions. Nat Rev Genet. 2009;10(3):155-9.
-
(2009)
Nat Rev Genet
, vol.10
, Issue.3
, pp. 155-159
-
-
Mercer, T.R.1
Dinger, M.E.2
Mattick, J.S.3
-
48
-
-
84885393469
-
Transcriptional regulation by Polycomb group proteins
-
24096405
-
Di Croce L, Helin K. Transcriptional regulation by Polycomb group proteins. Nat Struct Mol Biol. 2013;20(10):1147-55.
-
(2013)
Nat Struct Mol Biol
, vol.20
, Issue.10
, pp. 1147-1155
-
-
Di Croce, L.1
Helin, K.2
-
49
-
-
84942423490
-
LincRNA HOTAIR as a novel promoter of cancer progression
-
25663954 4318250
-
Loewen G, Zhuo Y, Zhuang Y, Jayawickramarajah J, Shan B. lincRNA HOTAIR as a novel promoter of cancer progression. J Can Res Updates. 2014;3(3):134-40.
-
(2014)
J Can Res Updates
, vol.3
, Issue.3
, pp. 134-140
-
-
Loewen, G.1
Zhuo, Y.2
Zhuang, Y.3
Jayawickramarajah, J.4
Shan, B.5
-
50
-
-
84863495094
-
The hallmarks of cancer: A long non-coding RNA point of view
-
22664915 3495743
-
Gutschner T, Diederichs S. The hallmarks of cancer: a long non-coding RNA point of view. RNA Biol. 2012;9(6):703-19.
-
(2012)
RNA Biol
, vol.9
, Issue.6
, pp. 703-719
-
-
Gutschner, T.1
Diederichs, S.2
-
51
-
-
67649671961
-
Long noncoding RNAs: Functional surprises from the RNA world
-
19571179 3152381
-
Wilusz JE, Sunwoo H, Spector DL. Long noncoding RNAs: functional surprises from the RNA world. Genes Dev. 2009;23(13):1494-504.
-
(2009)
Genes Dev
, vol.23
, Issue.13
, pp. 1494-1504
-
-
Wilusz, J.E.1
Sunwoo, H.2
Spector, D.L.3
-
52
-
-
84901954135
-
LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint
-
24857549 4103188
-
Dimitrova N, Zamudio JR, Jong RM, Soukup D, Resnick R, Sarma K, et al. LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint. Mol Cell. 2014;54(5):777-90.
-
(2014)
Mol Cell
, vol.54
, Issue.5
, pp. 777-790
-
-
Dimitrova, N.1
Zamudio, J.R.2
Jong, R.M.3
Soukup, D.4
Resnick, R.5
Sarma, K.6
-
53
-
-
80053045739
-
Molecular Mechanisms of Long Noncoding RNAs
-
21925379 3199020
-
Wang KC, Chang HY. Molecular Mechanisms of Long Noncoding RNAs. Mol Cell. 2011;43(6):904-14.
-
(2011)
Mol Cell
, vol.43
, Issue.6
, pp. 904-914
-
-
Wang, K.C.1
Chang, H.Y.2
-
54
-
-
81055140863
-
NcRNA- and Pc2 methylation-dependent gene relocation between nuclear structures mediates gene activation programs
-
22078878 3297197
-
Yang L, Lin C, Liu W, Zhang J, Ohgi KA, Grinstein JD, et al. ncRNA- and Pc2 methylation-dependent gene relocation between nuclear structures mediates gene activation programs. Cell. 2011;147(4):773-88.
-
(2011)
Cell
, vol.147
, Issue.4
, pp. 773-788
-
-
Yang, L.1
Lin, C.2
Liu, W.3
Zhang, J.4
Ohgi, K.A.5
Grinstein, J.D.6
-
55
-
-
84901660787
-
Structural basis of the non-coding RNA RsmZ acting as a protein sponge
-
24828038
-
Duss O, Michel E, Yulikov M, Schubert M, Jeschke G, Allain FHT. Structural basis of the non-coding RNA RsmZ acting as a protein sponge. Nature. 2014;509(7502):588-+.
-
(2014)
Nature
, vol.509
, Issue.7502
-
-
Duss, O.1
Michel, E.2
Yulikov, M.3
Schubert, M.4
Jeschke, G.5
Allain, F.H.T.6
-
56
-
-
79961170994
-
A ceRNA hypothesis: The Rosetta Stone of a hidden RNA language?
-
21802130 3235919
-
Salmena L, Poliseno L, Tay Y, Kats L, Pandolfi PP. A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell. 2011;146(3):353-8.
-
(2011)
Cell
, vol.146
, Issue.3
, pp. 353-358
-
-
Salmena, L.1
Poliseno, L.2
Tay, Y.3
Kats, L.4
Pandolfi, P.P.5
-
57
-
-
84882643385
-
Linc2GO: A human LincRNA function annotation resource based on ceRNA hypothesis
-
23793747
-
Liu K, Yan Z, Li Y, Sun Z. Linc2GO: a human LincRNA function annotation resource based on ceRNA hypothesis. Bioinformatics. 2013;29(17):2221-2.
-
(2013)
Bioinformatics
, vol.29
, Issue.17
, pp. 2221-2222
-
-
Liu, K.1
Yan, Z.2
Li, Y.3
Sun, Z.4
-
58
-
-
84878692521
-
Plasma HULC as a promising novel biomarker for the detection of hepatocellular carcinoma
-
Xie H, Ma H, Zhou D. Plasma HULC as a promising novel biomarker for the detection of hepatocellular carcinoma. BioMed research international 2013. 2013.
-
(2013)
BioMed Research International 2013
-
-
Xie, H.1
Ma, H.2
Zhou, D.3
-
59
-
-
84899630922
-
Linc-RNA-RoR acts as a "sponge" against mediation of the differentiation of endometrial cancer stem cells by microRNA-145
-
24589415
-
Zhou X, Gao Q, Wang J, Zhang X, Liu K, Duan Z. Linc-RNA-RoR acts as a "sponge" against mediation of the differentiation of endometrial cancer stem cells by microRNA-145. Gynecologic oncology. 2014; 133(2):333-339.
-
(2014)
Gynecologic Oncology
, vol.133
, Issue.2
, pp. 333-339
-
-
Zhou, X.1
Gao, Q.2
Wang, J.3
Zhang, X.4
Liu, K.5
Duan, Z.6
-
60
-
-
77956542998
-
CREB up-regulates long non-coding RNA, HULC expression through interaction with microRNA-372 in liver cancer
-
20423907 2938198
-
Wang J, Liu X, Wu H, Ni P, Gu Z, Qiao Y, et al. CREB up-regulates long non-coding RNA, HULC expression through interaction with microRNA-372 in liver cancer. Nucleic Acids Res. 2010;38(16):5366-83.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.16
, pp. 5366-5383
-
-
Wang, J.1
Liu, X.2
Wu, H.3
Ni, P.4
Gu, Z.5
Qiao, Y.6
-
61
-
-
84876367541
-
Endogenous miRNA sponge lincRNA-RoR regulates Oct4, Nanog, and Sox2 in human embryonic stem cell self-renewal
-
23541921
-
Wang Y, Xu Z, Jiang J, Xu C, Kang J, Xiao L, et al. Endogenous miRNA sponge lincRNA-RoR regulates Oct4, Nanog, and Sox2 in human embryonic stem cell self-renewal. Dev Cell. 2013;25(1):69-80.
-
(2013)
Dev Cell
, vol.25
, Issue.1
, pp. 69-80
-
-
Wang, Y.1
Xu, Z.2
Jiang, J.3
Xu, C.4
Kang, J.5
Xiao, L.6
-
62
-
-
84921908289
-
Volatile evolution of long noncoding RNA repertoires: Mechanisms and biological implications
-
25218058 4464757
-
Kapusta A, Feschotte C. Volatile evolution of long noncoding RNA repertoires: mechanisms and biological implications. Trends Genet. 2014;30(10):439-52.
-
(2014)
Trends Genet
, vol.30
, Issue.10
, pp. 439-452
-
-
Kapusta, A.1
Feschotte, C.2
-
63
-
-
84884969654
-
Widespread purifying selection on RNA structure in mammals
-
23847102 3783177
-
Smith MA, Gesell T, Stadler PF, Mattick JS. Widespread purifying selection on RNA structure in mammals. Nucleic Acids Res. 2013;41(17):8220-36.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.17
, pp. 8220-8236
-
-
Smith, M.A.1
Gesell, T.2
Stadler, P.F.3
Mattick, J.S.4
-
64
-
-
84869881863
-
Transposable elements reveal a stem cell-specific class of long noncoding RNAs
-
23181609 3580499
-
Kelley D, Rinn J. Transposable elements reveal a stem cell-specific class of long noncoding RNAs. Genome Biol. 2012;13(11):R107.
-
(2012)
Genome Biol
, vol.13
, Issue.11
, pp. R107
-
-
Kelley, D.1
Rinn, J.2
-
65
-
-
79960472211
-
Do repeated arrays of regulatory small RNA genes elicit genomic imprinting?
-
21618561
-
Labialle S, Cavaillé J. Do repeated arrays of regulatory small RNA genes elicit genomic imprinting? Bioessays. 2011;33(8):565-73.
-
(2011)
Bioessays
, vol.33
, Issue.8
, pp. 565-573
-
-
Labialle, S.1
Cavaillé, J.2
-
66
-
-
84875417100
-
Long non-coding RNAs function annotation: A global prediction method based on bi-colored networks
-
23132350 3554231
-
Guo X, Gao L, Liao Q, Xiao H, Ma X, Yang X, et al. Long non-coding RNAs function annotation: a global prediction method based on bi-colored networks. Nucleic Acids Res. 2013;41(2):e35.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.2
, pp. e35-e35
-
-
Guo, X.1
Gao, L.2
Liao, Q.3
Xiao, H.4
Ma, X.5
Yang, X.6
-
67
-
-
84872779963
-
Molecular mechanisms and function prediction of long noncoding RNA
-
Ma H, Hao Y, Dong X, Gong Q, Chen J, Zhang J, et al. Molecular mechanisms and function prediction of long noncoding RNA. Sci World J. 2012;2012.
-
(2012)
Sci World J.
, vol.2012
-
-
Ma, H.1
Hao, Y.2
Dong, X.3
Gong, Q.4
Chen, J.5
Zhang, J.6
-
68
-
-
11844278458
-
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
-
15652477
-
Lewis BP, Burge CB, Bartel DP. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell. 2005;120(1):15-20.
-
(2005)
Cell
, vol.120
, Issue.1
, pp. 15-20
-
-
Lewis, B.P.1
Burge, C.B.2
Bartel, D.P.3
-
69
-
-
77956846500
-
Improving performance of mammalian microRNA target prediction
-
20860840 2955701
-
Liu H, Yue D, Chen Y, Gao S-J, Huang Y. Improving performance of mammalian microRNA target prediction. BMC Bioinformatics. 2010;11(1):476.
-
(2010)
BMC Bioinformatics
, vol.11
, Issue.1
, pp. 476
-
-
Liu, H.1
Yue, D.2
Chen, Y.3
Gao, S.-J.4
Huang, Y.5
-
70
-
-
85003365400
-
MirMark: A site-level and UTR-level classifier for miRNA target prediction
-
25344330 4243195
-
Menor M, Ching T, Zhu X, Garmire D, Garmire LX. mirMark: a site-level and UTR-level classifier for miRNA target prediction. Genome Biol. 2014;15(10):500.
-
(2014)
Genome Biol
, vol.15
, Issue.10
, pp. 500
-
-
Menor, M.1
Ching, T.2
Zhu, X.3
Garmire, D.4
Garmire, L.X.5
-
71
-
-
84866402694
-
Computational prediction of polycomb-associated long non-coding RNAs
-
23028655 3441527
-
Glazko GV, Zybailov BL, Rogozin IB. Computational prediction of polycomb-associated long non-coding RNAs. PLoS One. 2012;7(9):e44878.
-
(2012)
PLoS One
, vol.7
, Issue.9
, pp. e44878
-
-
Glazko, G.V.1
Zybailov, B.L.2
Rogozin, I.B.3
-
73
-
-
33747849920
-
RNAhybrid: MicroRNA target prediction easy, fast and flexible
-
16845047 1538877
-
Krüger J, Rehmsmeier M. RNAhybrid: microRNA target prediction easy, fast and flexible. Nucleic Acids Res. 2006;34 suppl 2:W451-4.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W451-W454
-
-
Krüger, J.1
Rehmsmeier, M.2
-
74
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
Hofacker, Ivo L. »Fast folding and comparison of RNA secondary structures.» Monatshefte für Chemie/Chemical Monthly 125.2 (1994): 167-188.
-
(1994)
Monatshefte für Chemie/Chemical Monthly
, vol.125
, Issue.2
, pp. 167-188
-
-
Hofacker Ivo, L.1
-
75
-
-
84900444812
-
Computational tools for investigating RNA-protein interaction partners
-
Muppirala U, Lewis BA, Dobbs D. Computational tools for investigating RNA-protein interaction partners. J Comput Sci Syst Biol. 2013;6:182-7.
-
(2013)
J Comput Sci Syst Biol
, vol.6
, pp. 182-187
-
-
Muppirala, U.1
Lewis, B.A.2
Dobbs, D.3
-
76
-
-
78651338874
-
SVM based prediction of RNA binding proteins using binding residues and evolutionary information
-
20677174
-
Kumar M, Gromiha MM, Raghava GP. SVM based prediction of RNA binding proteins using binding residues and evolutionary information. J Mol Recognit. 2011;24(2):303-13.
-
(2011)
J Mol Recognit
, vol.24
, Issue.2
, pp. 303-313
-
-
Kumar, M.1
Gromiha, M.M.2
Raghava, G.P.3
-
78
-
-
33847055114
-
How to infer gene networks from expression profiles
-
17299415 1828749
-
Bansal M, Belcastro V, AmbesiImpiombato A, Di Bernardo D. How to infer gene networks from expression profiles. Mol Syst Biol. 2007;3(1):78.
-
(2007)
Mol Syst Biol
, vol.3
, Issue.1
, pp. 78
-
-
Bansal, M.1
Belcastro, V.2
AmbesiIimpiombato, A.3
Di Bernardo, D.4
-
79
-
-
84941141442
-
LncRNA2Target: A database for differentially expressed genes after lncRNA knockdown or overexpression
-
25399422 4383967
-
Jiang Q, Wang J, Wu X, Ma R, Zhang T, Jin S, et al. LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression. Nucleic Acids Res. 2015;43(D1):D193-6.
-
(2015)
Nucleic Acids Res
, vol.43
, Issue.D1
, pp. D193-D196
-
-
Jiang, Q.1
Wang, J.2
Wu, X.3
Ma, R.4
Zhang, T.5
Jin, S.6
-
80
-
-
84941049736
-
The 2015 Nucleic Acids Research Database Issue and Molecular Biology Database Collection
-
25593347 4383995
-
Galperin MY, Rigden DJ, Fernández-Suárez XM. The 2015 Nucleic Acids Research Database Issue and Molecular Biology Database Collection. Nucleic Acids Res. 2015;43(D1):D1-5.
-
(2015)
Nucleic Acids Res
, vol.43
, Issue.D1
, pp. D1-D5
-
-
Galperin, M.Y.1
Rigden, D.J.2
Fernández-Suárez, X.M.3
|