The decalog of long non-coding RNA involvement in cancer diagnosis and monitoring

References

• Djebali S, Davis CA, Merkel A, et al. Landscape of transcription in human cells. Nature 2012;489:101–8
   PubMed Web of Science ®Google Scholar
• Derrien T, Johnson R, Bussotti G, et al. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res 2012;22:1775–89
   PubMed Web of Science ®Google Scholar
• Spizzo R, Almeida MI, Colombatti A, Calin GA. Long non-coding RNAs and cancer: a new frontier of translational research? Oncogene 2012;31:4577–87
   PubMed Web of Science ®Google Scholar
• Gibb EA, Brown CJ, Lam WL. The functional role of long non-coding RNA in human carcinomas. Mol Cancer 2011;10:38 . doi: 10.1186/1476-4598-10-38
   PubMed Web of Science ®Google Scholar
• Ponting CP, Oliver PL, Reik W. Evolution and functions of long noncoding RNAs. Cell 2009;136:629–41
   PubMed Web of Science ®Google Scholar
• Costa FF. Non-coding RNAs: new players in eukaryotic biology. Gene 2005;357:83–94
   PubMedGoogle Scholar
• Niland CN, Merry CR, Khalil AM. Emerging roles for long non-coding RNAs in cancer and neurological disorders. Front Genet 2012;3:25 . doi: 10.3389/fgene.2012.00025
   PubMedGoogle Scholar
• Shi X, Sun M, Liu H, et al. Long non-coding RNAs: a new frontier in the study of human diseases. Cancer Lett 2013;339:159–66
   PubMed Web of Science ®Google Scholar
• Gutschner T, Diederichs S. The hallmarks of cancer: a long non-coding RNA point of view. RNA Biol 2012;9:703–19
   PubMed Web of Science ®Google Scholar
• Chen G, Wang Z, Wang D, et al. LncRNADisease: a database for long-non-coding RNA-associated diseases. Nucleic Acids Res 2013;41:D983–6
   PubMed Web of Science ®Google Scholar
• Frith MC, Bailey TL, Kasukawa T, et al. Discrimination of non-protein-coding transcripts from protein-coding mRNA. RNA Biol 2006;3:40–8
   PubMedGoogle Scholar
• Huang Y, Zhang JL, Yu XL, et al. Molecular functions of small regulatory noncoding RNA. Biochemistry (Mosc) 2013;78:221–30
   PubMed Web of Science ®Google Scholar
• Iorio MV, Croce CM. microRNA involvement in human cancer. Carcinogenesis 2012;33:1126–33
   PubMed Web of Science ®Google Scholar
• Deng S, Calin GA, Croce CM, et al. Mechanisms of microRNA deregulation in human cancer. Cell Cycle 2008;7:2643–6
   PubMed Web of Science ®Google Scholar
• Ferdin J, Kunej T, Calin GA. Non-coding RNAs: identification of cancer-associated microRNAs by gene profiling. Technol Cancer Res Treat 2010;9:123–38
   PubMed Web of Science ®Google Scholar
• Guttman M, Amit I, Garber M, et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 2009;458:223–7
   PubMed Web of Science ®Google Scholar
• Khalil AM, Guttman M, Huarte M, et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci USA 2009;106:11667–72
   PubMed Web of Science ®Google Scholar
• Babak T, Blencowe BJ, Hughes TR. A systematic search for new mammalian noncoding RNAs indicates little conserved intergenic transcription. BMC Genomics 2005;6:104
   PubMed Web of Science ®Google Scholar
• Mercer TR, Dinger ME, Sunkin SM, et al. Specific expression of long noncoding RNAs in the mouse brain. Proc Natl Acad Sci USA 2008;105:716–21
   PubMed Web of Science ®Google Scholar
• Novikova IV, Hennelly SP, Sanbonmatsu KY. Structural architecture of the human long non-coding RNA, steroid receptor RNA activator. Nucleic Acids Res 2012;40:5034–51
   PubMed Web of Science ®Google Scholar
• Wilusz JE, JnBaptiste CK, Lu LY, et al. A triple helix stabilizes the 3' ends of long noncoding RNAs that lack poly(A) tails. Genes Dev 2012;26:2392–407
   PubMed Web of Science ®Google Scholar
• Ling H, Fabbri M, Calin GA. MicroRNAs and other non-coding RNAs as targets for anticancer drug development. Nat Rev Drug Discov 2013;12:847–65
   PubMed Web of Science ®Google Scholar
• Wilusz JE, Sunwoo H, Spector DL. Long noncoding RNAs: functional surprises from the RNA world. Genes Dev 2009;23:1494–504
   PubMed Web of Science ®Google Scholar
• Dinger ME, Amaral PP, Mercer TR, et al. Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation. Genome Res 2008;18:1433–45
   PubMed Web of Science ®Google Scholar
• Rinn JL, Kertesz M, Wang JK, et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 2007;129:1311–23
   PubMed Web of Science ®Google Scholar
• Blackshaw S, Harpavat S, Trimarchi J, et al. Genomic analysis of mouse retinal development. PLoS Biol 2004;2:E247
   PubMed Web of Science ®Google Scholar
• Hutchinson JN, Ensminger AW, Clemson CM, et al. A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC Genomics 2007;8:39
   PubMed Web of Science ®Google Scholar
• Chen LL, Carmichael GG. Decoding the function of nuclear long non-coding RNAs. Curr Opin Cell Biol 2010;22:357–64
   Google Scholar
• Kornienko AE, Guenzl PM, Barlow DP, Pauler FM. Gene regulation by the act of long non-coding RNA transcription. BMC Biol 2013;11:59
   PubMed Web of Science ®Google Scholar
• Palmer AC, Egan JB, Shearwin KE. Transcriptional interference by RNA polymerase pausing and dislodgement of transcription factors. Transcription 2011;2:9–14
   PubMedGoogle Scholar
• Carrozza MJ, Li B, Florens L, et al. Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription. Cell 2005;123:581–92
   PubMed Web of Science ®Google Scholar
• Yu W, Gius D, Onyango P, et al. Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA. Nature 2008;451:202–6
   PubMed Web of Science ®Google Scholar
• Hogga I, Karch F. Transcription through the iab-7 cis-regulatory domain of the bithorax complex interferes with maintenance of Polycomb-mediated silencing. Development 2002;129:4915–22
   PubMedGoogle Scholar
• Schmitt S, Prestel M, Paro R. Intergenic transcription through a polycomb group response element counteracts silencing. Genes Dev 2005;19:697–708
   Web of Science ®Google Scholar
• Petruk S, Sedkov Y, Brock HW, Mazo A. A model for initiation of mosaic HOX gene expression patterns by non-coding RNAs in early embryos. RNA Biol 2007;4:1–6
   PubMed Web of Science ®Google Scholar
• Thebault P, Boutin G, Bhat W, et al. Transcription regulation by the noncoding RNA SRG1 requires Spt2-dependent chromatin deposition in the wake of RNA polymerase II. Mol Cell Biol 2011;31:1288–300
   PubMed Web of Science ®Google Scholar
• Martianov I, Ramadass A, Serra Barros A, et al. Repression of the human dihydrofolate reductase gene by a non-coding interfering transcript. Nature 2007;445:666–70
   PubMed Web of Science ®Google Scholar
• Feng J, Bi C, Clark BS, et al. The Evf-2 noncoding RNA is transcribed from the Dlx-5/6 ultraconserved region and functions as a Dlx-2 transcriptional coactivator. Genes Dev 2006;20:1470–84
   PubMed Web of Science ®Google Scholar
• Lanz RB, Razani B, Goldberg AD, O'Malley BW. Distinct RNA motifs are important for coactivation of steroid hormone receptors by steroid receptor RNA activator (SRA). Proc Natl Acad Sci USA 2002;99:16081–6
   PubMed Web of Science ®Google Scholar
• Shamovsky I, Ivannikov M, Kandel ES, et al. RNA-mediated response to heat shock in mammalian cells. Nature 2006;440:556–60
   PubMed Web of Science ®Google Scholar
• Willingham AT, Orth AP, Batalov S, et al. A strategy for probing the function of noncoding RNAs finds a repressor of NFAT. Science 2005;309:1570–3
   PubMed Web of Science ®Google Scholar
• Wang X, Arai S, Song X, et al. Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription. Nature 2008;454:126–30
   PubMed Web of Science ®Google Scholar
• Tsai MC, Manor O, Wan Y, et al. Long noncoding RNA as modular scaffold of histone modification complexes. Science 2010;329:689–93
   PubMed Web of Science ®Google Scholar
• Schmitz KM, Mayer C, Postepska A, Grummt I. Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes. Genes Dev 2010;24:2264–9
   PubMed Web of Science ®Google Scholar
• Zamaratski E, Pradeepkumar PI, Chattopadhyaya J. A critical survey of the structure-function of the antisense oligo/RNA heteroduplex as substrate for RNase H. J Biochem Biophys Methods 2001;48:189–208
   PubMedGoogle Scholar
• Gong C, Maquat LE. lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3' UTRs via Alu elements. Nature 2011;470:284–8
   PubMed Web of Science ®Google Scholar
• Cano A, Nieto MA. Non-coding RNAs take centre stage in epithelial-to-mesenchymal transition. Trends Cell Biol 2008;18:357–9
   PubMed Web of Science ®Google Scholar
• Carrieri C, Cimatti L, Biagioli M, et al. Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat. Nature 2012;491:454–7
   PubMed Web of Science ®Google Scholar
• Li Q, Su Z, Xu X, et al. AS1DHRS4, a head-to-head natural antisense transcript, silences the DHRS4 gene cluster in cis and trans. Proc Natl Acad Sci USA 2012;109:14110–15
   PubMed Web of Science ®Google Scholar
• Imamura T, Yamamoto S, Ohgane J, et al. Non-coding RNA directed DNA demethylation of Sphk1 CpG island. Biochem Biophys Res Commun 2004;322:593–600
   PubMed Web of Science ®Google Scholar
• Feinberg AP, Tycko B. The history of cancer epigenetics. Nat Rev Cancer 2004;4:143–53
   PubMed Web of Science ®Google Scholar
• Sasaki H, Matsui Y. Epigenetic events in mammalian germ-cell development: reprogramming and beyond. Nat Rev Genet 2008;9:129–40
   PubMed Web of Science ®Google Scholar
• Uhler JP, Hertel C, Svejstrup JQ. A role for noncoding transcription in activation of the yeast PHO5 gene. Proc Natl Acad Sci USA 2007;104:8011–16
   PubMed Web of Science ®Google Scholar
• Bracken AP, Helin K. Polycomb group proteins: navigators of lineage pathways led astray in cancer. Nat Rev Cancer 2009;9:773–84
   PubMed Web of Science ®Google Scholar
• Chu C, Qu K, Zhong FL, et al. Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions. Mol Cell 2011;44:667–78
   PubMed Web of Science ®Google Scholar
• Boyer LA, Plath K, Zeitlinger J, et al. Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature 2006;441:349–53
   PubMed Web of Science ®Google Scholar
• Bracken AP, Dietrich N, Pasini D, et al. Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions. Genes Dev 2006;20:1123–36
   PubMed Web of Science ®Google Scholar
• Zhao J, Ohsumi TK, Kung JT, et al. Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol Cell 2010;40:939–53
   PubMed Web of Science ®Google Scholar
• Camblong J, Iglesias N, Fickentscher C, et al. Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiae. Cell 2007;131:706–17
   PubMed Web of Science ®Google Scholar
• Houseley J, Rubbi L, Grunstein M, et al. A ncRNA modulates histone modification and mRNA induction in the yeast GAL gene cluster. Mol Cell 2008;32:685–95
   PubMed Web of Science ®Google Scholar
• Wutz A, Theussl HC, Dausman J, et al. Non-imprinted Igf2r expression decreases growth and rescues the Tme mutation in mice. Development 2001;128:1881–7
   PubMed Web of Science ®Google Scholar
• Sleutels F, Zwart R, Barlow DP. The non-coding Air RNA is required for silencing autosomal imprinted genes. Nature 2002;415:810–13
   PubMed Web of Science ®Google Scholar
• Royo H, Cavaillé J. Non-coding RNAs in imprinted gene clusters. Biol Cell 2008;100:149–66
   Google Scholar
• Blencowe BJ. Alternative splicing: new insights from global analyses. Cell 2006;126:37–47
   PubMed Web of Science ®Google Scholar
• Tripathi V, Ellis JD, Shen Z, et al. The nuclear-retained noncoding RNA MALAT1 regulates alternative splicing by modulating SR splicing factor phosphorylation. Mol Cell 2010;39:925–38
   PubMed Web of Science ®Google Scholar
• Kim YK, Furic L, Desgroseillers L, Maquat LE. Mammalian Staufen1 recruits Upf1 to specific mRNA 3'UTRs so as to elicit mRNA decay. Cell 2005;120:195–208
   PubMed Web of Science ®Google Scholar
• Faghihi MA, Modarresi F, Khalil AM, et al. Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of beta-secretase. Nat Med 2008;14:723–30
   PubMed Web of Science ®Google Scholar
• Yoon JH, Abdelmohsen K, Srikantan S, et al. LincRNA-p21 suppresses target mRNA translation. Mol Cell 2012;47:648–55
   PubMed Web of Science ®Google Scholar
• Wang H, Iacoangeli A, Popp S, et al. Dendritic BC1 RNA: functional role in regulation of translation initiation. J Neurosci 2002;22:10232–41
   PubMed Web of Science ®Google Scholar
• Watanabe T, Totoki Y, Toyoda A, et al. Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes. Nature 2008;453:539–43
   PubMed Web of Science ®Google Scholar
• Tam OH, Aravin AA, Stein P, et al. Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature 2008;453:534–8
   PubMed Web of Science ®Google Scholar
• Kallen AN, Zhou XB, Xu J, et al. The imprinted H19 lncRNA antagonizes let-7 microRNAs. Mol Cell 2013;52:101–12
   PubMed Web of Science ®Google Scholar
• Cesana M, Cacchiarelli D, Legnini I, et al. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell 2011;147:358–69
   PubMed Web of Science ®Google Scholar
• Jeon Y, Sarma K, Lee JT. New and Xisting regulatory mechanisms of X chromosome inactivation. Curr Opin Genet Dev 2012;22:62–71
   PubMed Web of Science ®Google Scholar
• Mattick JS, Amaral PP, Dinger ME, et al. RNA regulation of epigenetic processes. Bioessays 2009;31:51–9
   PubMed Web of Science ®Google Scholar
• Ørom UA, Derrien T, Beringer M, et al. Long noncoding RNAs with enhancer-like function in human cells. Cell 2010;143:46–58
   PubMed Web of Science ®Google Scholar
• Wapinski O, Chang HY. Long noncoding RNAs and human disease. Trends Cell Biol 2011;21:354–61
   PubMed Web of Science ®Google Scholar
• Guttman M, Donaghey J, Carey BW, et al. lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature 2011;477:295–300
   PubMed Web of Science ®Google Scholar
• Rando TA, Chang HY. Aging, rejuvenation, and epigenetic reprogramming: resetting the aging clock. Cell 2012;148:46–57
   PubMed Web of Science ®Google Scholar
• Wutz A, Rasmussen TP, Jaenisch R. Chromosomal silencing and localization are mediated by different domains of Xist RNA. Nat Genet 2002;30:167–74
   PubMed Web of Science ®Google Scholar
• Hasegawa Y, Brockdorff N, Kawano S, et al. The matrix protein hnRNP U is required for chromosomal localization of Xist RNA. Dev Cell 2010;19:469–76
   PubMed Web of Science ®Google Scholar
• Wutz A. RNAs templating chromatin structure for dosage compensation in animals. Bioessays 2003;25:434–42
   PubMed Web of Science ®Google Scholar
• Chaumeil J, Le Baccon P, Wutz A, Heard E. A novel role for Xist RNA in the formation of a repressive nuclear compartment into which genes are recruited when silenced. Genes Dev 2006;20:2223–37
   PubMed Web of Science ®Google Scholar
• Clemson CM, Hall LL, Byron M, et al. The X chromosome is organized into a gene-rich outer rim and an internal core containing silenced nongenic sequences. Proc Natl Acad Sci USA 2006;103:7688–93
   PubMed Web of Science ®Google Scholar
• Okamoto J, Hirata T, Chen Z, et al. EMX2 is epigenetically silenced and suppresses growth in human lung cancer. Oncogene 2010;29:5969–75
   PubMed Web of Science ®Google Scholar
• de Napoles M, Mermoud JE, Wakao R, et al. Polycomb group proteins Ring1A/B link ubiquitylation of histone H2A to heritable gene silencing and X inactivation. Dev Cell 2004;7:663–76
   PubMed Web of Science ®Google Scholar
• Fang J, Chen T, Chadwick B, et al. Ring1b-mediated H2A ubiquitination associates with inactive X chromosomes and is involved in initiation of X inactivation. J Biol Chem 2004;279:52812–15
   PubMedGoogle Scholar
• Plath K, Fang J, Mlynarczyk-Evans SK, et al. Role of histone H3 lysine 27 methylation in X inactivation. Science 2003;300:131–5
   PubMed Web of Science ®Google Scholar
• Lee JT, Davidow LS, Warshawsky D. Tsix, a gene antisense to Xist at the X-inactivation centre. Nat Genet 1999;21:400–4
   PubMed Web of Science ®Google Scholar
• Zhao J, Sun BK, Erwin JA, et al. Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome. Science 2008;322:750–6
   PubMed Web of Science ®Google Scholar
• Sado T, Hoki Y, Sasaki H. Tsix silences Xist through modification of chromatin structure. Dev Cell 2005;9:159–65
   PubMed Web of Science ®Google Scholar
• Sun BK, Deaton AM, Lee JT. A transient heterochromatic state in Xist preempts X inactivation choice without RNA stabilization. Mol Cell 2006;21:617–28
   PubMed Web of Science ®Google Scholar
• Ohhata T, Hoki Y, Sasaki H, Sado T. Crucial role of antisense transcription across the Xist promoter in Tsix-mediated Xist chromatin modification. Development 2008;135:227–35
   PubMed Web of Science ®Google Scholar
• Ogawa Y, Sun BK, Lee JT. Intersection of the RNA interference and X-inactivation pathways. Science 2008;320:1336–41
   PubMed Web of Science ®Google Scholar
• Donohoe ME, Silva SS, Pinter SF, et al. The pluripotency factor Oct4 interacts with Ctcf and also controls X-chromosome pairing and counting. Nature 2009;460:128–32
   PubMed Web of Science ®Google Scholar
• Tian D, Sun S, Lee JT. The long noncoding RNA, Jpx, is a molecular switch for X chromosome inactivation. Cell 2010;143:390–403
   PubMed Web of Science ®Google Scholar
• Jonkers I, Barakat TS, Achame EM, et al. RNF12 is an X-Encoded dose-dependent activator of X chromosome inactivation. Cell 2009;139:999–1011
   PubMed Web of Science ®Google Scholar
• Carpenter S, Aiello D, Atianand MK, et al. A long noncoding RNA mediates both activation and repression of immune response genes. Science 2013;341:789–92
   PubMed Web of Science ®Google Scholar
• Lewejohann L, Skryabin BV, Sachser N, et al. Role of a neuronal small non-messenger RNA: behavioural alterations in BC1 RNA-deleted mice. Behav Brain Res 2004;154:273–89
   PubMed Web of Science ®Google Scholar
• Pagani M, Rossetti G, Panzeri I, et al. Role of microRNAs and long-non-coding RNAs in CD4(+) T-cell differentiation. Immunol Rev 2013;253:82–96
   PubMed Web of Science ®Google Scholar
• Ng SY, Stanton LW. Long non-coding RNAs in stem cell pluripotency. Wiley Interdiscip Rev RNA 2013;4:121–8
   PubMed Web of Science ®Google Scholar
• Kunej T, Godnic I, Horvat S, et al. Cross talk between microRNA and coding cancer genes. Cancer J 2012;18:223–31
   PubMed Web of Science ®Google Scholar
• Huarte M, Rinn JL. Large non-coding RNAs: missing links in cancer? Hum Mol Genet 2010;19:R152–61
   PubMed Web of Science ®Google Scholar
• Calin GA, Liu CG, Ferracin M, et al. Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas. Cancer Cell 2007;12:215–29
   PubMed Web of Science ®Google Scholar
• Tsai MC, Spitale RC, Chang HY. Long intergenic noncoding RNAs: new links in cancer progression. Cancer Res 2011;71:3–7
   PubMed Web of Science ®Google Scholar
• Zhang H, Chen Z, Wang X, et al. Long non-coding RNA: a new player in cancer. J Hematol Oncol 2013;6:37 . doi: 10.1186/1756-8722-6-37
   PubMed Web of Science ®Google Scholar
• Hanahan D, Weinberg RA. Hallmarks of cancer: the next generation. Cell 2011;144:646–74
   PubMed Web of Science ®Google Scholar
• Prensner JR, Iyer MK, Balbin OA, et al. Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nat Biotechnol 2011;29:742–9
   PubMed Web of Science ®Google Scholar
• Mourtada-Maarabouni M, Pickard MR, Hedge VL, et al. GAS5, a non-protein-coding RNA, controls apoptosis and is downregulated in breast cancer. Oncogene 2009;28:195–208
   PubMed Web of Science ®Google Scholar
• Yap KL, Li S, Muñoz-Cabello AM, et al. Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a. Mol Cell 2010;38:662–74
   PubMed Web of Science ®Google Scholar
• Phatak P, Burger AM. Telomerase and its potential for therapeutic intervention. Br J Pharmacol 2007;152:1003–11
   PubMed Web of Science ®Google Scholar
• Tano K, Mizuno R, Okada T, et al. MALAT-1 enhances cell motility of lung adenocarcinoma cells by influencing the expression of motility-related genes. FEBS Lett 2010;584:4575–80
   PubMed Web of Science ®Google Scholar
• Yang Z, Zhou L, Wu LM, et al. Overexpression of long non-coding RNA HOTAIR predicts tumor recurrence in hepatocellular carcinoma patients following liver transplantation. Ann Surg Oncol 2011;18:1243–50
   PubMed Web of Science ®Google Scholar
• Thrash-Bingham CA, Tartof KD. aHIF: a natural antisense transcript overexpressed in human renal cancer and during hypoxia. J Natl Cancer Inst 1999;91:143–51
   PubMedGoogle Scholar
• Cayre A, Rossignol F, Clottes E, Penault-Llorca F. aHIF but not HIF-1alpha transcript is a poor prognostic marker in human breast cancer. Breast Cancer Res 2003;5:R223–30
   Google Scholar
• Petrovics G, Zhang W, Makarem M, et al. Elevated expression of PCGEM1, a prostate-specific gene with cell growth-promoting function, is associated with high-risk prostate cancer patients. Oncogene 2004;23:605–11
   PubMed Web of Science ®Google Scholar
• Hung T, Wang Y, Lin MF, et al. Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters. Nat Genet 2011;43:621–9
   PubMed Web of Science ®Google Scholar
• Koppenol WH, Bounds PL, Dang CV. Otto Warburg's contributions to current concepts of cancer metabolism. Nat Rev Cancer 2011;11:325–37
   PubMed Web of Science ®Google Scholar
• Yang F, Zhang H, Mei Y, Wu M. Reciprocal regulation of HIF-1α and lincRNA-p21 modulates the Warburg effect. Mol Cell 2014;53:88–100
   PubMed Web of Science ®Google Scholar
• Hao Y, Crenshaw T, Moulton T, et al. Tumour-suppressor activity of H19 RNA. Nature 1993;365:764–7
   PubMed Web of Science ®Google Scholar
• Matouk IJ, DeGroot N, Mezan S, et al. The H19 non-coding RNA is essential for human tumor growth. PLoS One 2007;2:e845
   PubMed Web of Science ®Google Scholar
• Nie L, Wu HJ, Hsu JM, et al. Long non-coding RNAs: versatile master regulators of gene expression and crucial players in cancer. Am J Transl Res 2012;4:127–50
   PubMed Web of Science ®Google Scholar
• Fu X, Ravindranath L, Tran N, et al. Regulation of apoptosis by a prostate-specific and prostate cancer-associated noncoding gene, PCGEM1. DNA Cell Biol 2006;25:135–41
   PubMed Web of Science ®Google Scholar
• Srikantan V, Zou Z, Petrovics G, et al. PCGEM1, a prostate-specific gene, is overexpressed in prostate cancer. Proc Natl Acad Sci USA 2000;97:12216–21
   PubMed Web of Science ®Google Scholar
• Gupta RA, Shah N, Wang KC, et al. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature 2010;464:1071–6
   PubMed Web of Science ®Google Scholar
• Li L, Feng T, Lian Y, et al. Role of human noncoding RNAs in the control of tumorigenesis. Proc Natl Acad Sci USA 2009;106:12956–61
   PubMed Web of Science ®Google Scholar
• Ji P, Diederichs S, Wang W, et al. MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer. Oncogene 2003;22:8031–41
   PubMed Web of Science ®Google Scholar
• Lin R, Maeda S, Liu C, et al. A large noncoding RNA is a marker for murine hepatocellular carcinomas and a spectrum of human carcinomas. Oncogene 2007;26:851–8
   PubMed Web of Science ®Google Scholar
• Kino T, Hurt DE, Ichijo T, et al. Noncoding RNA gas5 is a growth arrest- and starvation-associated repressor of the glucocorticoid receptor. Sci Signal 2010;3:ra8 . doi: 10.1126/scisignal.2000568
   PubMed Web of Science ®Google Scholar
• Redon S, Reichenbach P, Lingner J. The non-coding RNA TERRA is a natural ligand and direct inhibitor of human telomerase. Nucleic Acids Res 2010;38:5797–806
   PubMed Web of Science ®Google Scholar
• Caslini C. Transcriptional regulation of telomeric non-coding RNA: implications on telomere biology, replicative senescence and cancer. RNA Biol 2010;7:18–22
   Web of Science ®Google Scholar
• Deng Z, Norseen J, Wiedmer A, et al. TERRA RNA binding to TRF2 facilitates heterochromatin formation and ORC recruitment at telomeres. Mol Cell 2009;35:403–13
   PubMed Web of Science ®Google Scholar
• Deng Z, Wang Z, Xiang C, et al. Formation of telomeric repeat-containing RNA (TERRA) foci in highly proliferating mouse cerebellar neuronal progenitors and medulloblastoma. J Cell Sci 2012;125:4383–94
   PubMed Web of Science ®Google Scholar
• Kim JK, Diehl JA. Nuclear cyclin D1: an oncogenic driver in human cancer. J Cell Physiol 2009;220:292–6
   PubMed Web of Science ®Google Scholar
• Ferdin J, Nishida N, Wu X, et al. HINCUTs in cancer: hypoxia-induced noncoding ultraconserved transcripts. Cell Death Differ 2013;20:1675–87
   PubMed Web of Science ®Google Scholar
• Jin G, Sun J, Isaacs SD, et al. Human polymorphisms at long non-coding RNAs (lncRNAs) and association with prostate cancer risk. Carcinogenesis 2011;32:1655–9
   PubMed Web of Science ®Google Scholar
• Xiao GG, Recker RR, Deng HW. Recent advances in proteomics and cancer biomarker discovery. Clin Med Oncol 2008;2:63–72
   PubMedGoogle Scholar
• Setoyama T, Ling H, Natsugoe S, Calin GA. Non-coding RNAs for medical practice in oncology. Keio J Med 2011;60:106–13
   PubMedGoogle Scholar
• Manoharan H, Babcock K, Willi J, Pitot HC. Biallelic expression of the H19 gene during spontaneous hepatocarcinogenesis in the albumin SV40 T antigen transgenic rat. Mol Carcinog 2003;38:40–7
   PubMed Web of Science ®Google Scholar
• Hauptman N, Glavač D. Long non-coding RNA in cancer. Int J Mol Sci 2013;14:4655–69
   PubMed Web of Science ®Google Scholar
• Du Z, Fei T, Verhaak RG, et al. Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer. Nat Struct Mol Biol 2013;20:908–13
   PubMed Web of Science ®Google Scholar
• Weber DG, Johnen G, Casjens S, et al. Evaluation of long noncoding RNA MALAT1 as a candidate blood-based biomarker for the diagnosis of non-small cell lung cancer. BMC Res Notes 2013;6:518
   PubMedGoogle Scholar
• Reis EM, Verjovski-Almeida S. Perspectives of long non-coding RNAs in cancer diagnostics. Front Genet 2012;3:32 . doi: 10.3389/fgene.2012.00032
   PubMedGoogle Scholar
• Orozco AF, Lewis DE. Flow cytometric analysis of circulating microparticles in plasma. Cytometry A 2010;77:502–14
   PubMed Web of Science ®Google Scholar
• Clark MB, Mattick JS. Long noncoding RNAs in cell biology. Semin Cell Dev Biol 2011;22:366–76
   PubMed Web of Science ®Google Scholar
• Crawford ED, Rove KO, Trabulsi EJ, et al. Diagnostic performance of PCA3 to detect prostate cancer in men with increased prostate specific antigen: a prospective study of 1962 cases. J Urol 2012;188:1726–31
   PubMed Web of Science ®Google Scholar
• Panzitt K, Tschernatsch MM, Guelly C, et al. Characterization of HULC, a novel gene with striking up-regulation in hepatocellular carcinoma, as noncoding RNA. Gastroenterology 2007;132:330–42
   PubMed Web of Science ®Google Scholar
• de Kok JB, Verhaegh GW, Roelofs RW, et al. DD3(PCA3), a very sensitive and specific marker to detect prostate tumors. Cancer Res 2002;62:2695–8
   PubMed Web of Science ®Google Scholar
• Durand X, Moutereau S, Xylinas E, de la Taille A. Progensa™ PCA3 test for prostate cancer. Expert Rev Mol Diagn 2011;11:137–44
   PubMed Web of Science ®Google Scholar
• Li CH, Chen Y. Targeting long non-coding RNAs in cancers: progress and prospects. Int J Biochem Cell Biol 2013;45:1895–910
   PubMed Web of Science ®Google Scholar
• Jadhav VM, Scaria V, Maiti S. Antagomirzymes: oligonucleotide enzymes that specifically silence microRNA function. Angew Chem Int Ed Engl 2009;48:2557–60
   Google Scholar
• Costanzi J, Sidransky D, Navon A, Goldsweig H. Ribonucleases as a novel pro-apoptotic anticancer strategy: review of the preclinical and clinical data for ranpirnase. Cancer Invest 2005;23:643–50
   PubMed Web of Science ®Google Scholar
• Mizrahi A, Czerniak A, Levy T, et al. Development of targeted therapy for ovarian cancer mediated by a plasmid expressing diphtheria toxin under the control of H19 regulatory sequences. J Transl Med 2009;7:69 . doi: 10.1186/1479-5876-7-69
   PubMed Web of Science ®Google Scholar
• Bourdoumis A, Papatsoris AG, Chrisofos M, et al. The novel prostate cancer antigen 3 (PCA3) biomarker. Int Braz J Urol 2010;36:665–8; discussion 669
   PubMed Web of Science ®Google Scholar
• Vlaeminck-Guillem V, Ruffion A, André J, et al. Urinary prostate cancer 3 test: toward the age of reason? Urology 2010;75:447–53
   PubMed Web of Science ®Google Scholar
• Smaldone MC, Davies BJ. BC-819, a plasmid comprising the H19 gene regulatory sequences and diphtheria toxin A, for the potential targeted therapy of cancers. Curr Opin Mol Ther 2010;12:607–16
   PubMedGoogle Scholar
• Breitman ML, Clapoff S, Rossant J, et al. Genetic ablation: targeted expression of a toxin gene causes microphthalmia in transgenic mice. Science 1987;238:1563–5
   PubMed Web of Science ®Google Scholar