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Volumn 8, Issue 1, 2015, Pages

Non-coding yet non-trivial: A review on the computational genomics of lincRNAs

Author keywords

[No Author keywords available]

Indexed keywords

COMPETING ENDOGENOUS RNA; LONG UNTRANSLATED RNA; RNA; SMALL UNTRANSLATED RNA; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

EID: 84951287682     PISSN: None     EISSN: 17560381     Source Type: Journal    
DOI: 10.1186/s13040-015-0075-z     Document Type: Review
Times cited : (17)

References (80)
  • 1
    • 84879671055 scopus 로고    scopus 로고
    • 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
  • 3
    • 0037062978 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 6
    • 84879987789 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 11
    • 84891757415 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 21
    • 84897386188 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 40
  • 41
    • 84892999996 scopus 로고    scopus 로고
    • 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
  • 43
    • 84890031914 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 50
    • 84863495094 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 79
    • 84941141442 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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


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