|
1
|
Esteller M: Non-coding RNAs in human
disease. Nat Rev Genet. 12:861–874. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
2
|
Filipowicz W, Bhattacharyya SN and
Sonenberg N: Mechanisms of post-transcriptional regulation by
microRNAs: Are the answers in sight? Nat Rev Genet. 9:102–114.
2008. View Article : Google Scholar : PubMed/NCBI
|
|
3
|
Ilott NE and Ponting CP: Predicting long
non-coding RNAs using RNA sequencing. Methods. 63:50–59. 2013.
View Article : Google Scholar : PubMed/NCBI
|
|
4
|
Wilusz JE, Sunwoo H and Spector DL: Long
noncoding RNAs: Functional surprises from the RNA world. Genes Dev.
23:1494–1504. 2009. View Article : Google Scholar : PubMed/NCBI
|
|
5
|
Mercer TR, Dinger ME and Mattick JS: Long
non-coding RNAs: Insights into functions. Nat Rev Genet.
10:155–159. 2009. View Article : Google Scholar : PubMed/NCBI
|
|
6
|
Kung JT, Colognori D and Lee JT: Long
noncoding RNAs: Past, present, and future. Genetics. 193:651–669.
2013. View Article : Google Scholar : PubMed/NCBI
|
|
7
|
Hung T and Chang HY: Long noncoding RNA in
genome regulation: Prospects and mechanisms. RNA Biol. 7:582–585.
2010. View Article : Google Scholar : PubMed/NCBI
|
|
8
|
He Y, Meng XM, Huang C, Wu BM, Zhang L, Lv
XW and Li J: Long noncoding RNAs: Novel insights into hepatocelluar
carcinoma. Cancer Lett. 344:20–27. 2014. View Article : Google Scholar
|
|
9
|
Tsai MC, Manor O, Wan Y, Mosammaparast N,
Wang JK, Lan F, Shi Y, Segal E and Chang HY: Long noncoding RNA as
modular scaffold of histone modification complexes. Science.
329:689–693. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
10
|
Chen W, Böcker W, Brosius J and Tiedge H:
Expression of neural BC200 RNA in human tumours. J Pathol.
183:345–351. 1997. View Article : Google Scholar
|
|
11
|
Iacoangeli A, Lin Y, Morley EJ, Muslimov
IA, Bianchi R, Reilly J, Weedon J, Diallo R, Böcker W and Tiedge H:
BC200 RNA in invasive and preinvasive breast cancer.
Carcinogenesis. 25:2125–2133. 2004. View Article : Google Scholar : PubMed/NCBI
|
|
12
|
Berteaux N, Lottin S, Adriaenssens E, Van
Coppenolle F, Leroy X, Coll J, Dugimont T and Curgy JJ: Hormonal
regulation of H19 gene expression in prostate epithelial cells. J
Endocrinol. 183:69–78. 2004. View Article : Google Scholar : PubMed/NCBI
|
|
13
|
Brannan CI, Dees EC, Ingram RS and
Tilghman SM: The product of the H19 gene may function as an RNA.
Mol Cell Biol. 10:28–36. 1990. View Article : Google Scholar : PubMed/NCBI
|
|
14
|
Gabory A, Jammes H and Dandolo L: The H19
locus: Role of an imprinted non-coding RNA in growth and
development. BioEssays. 32:473–480. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
15
|
Hibi K, Nakamura H, Hirai A, Fujikake Y,
Kasai Y, Akiyama S, Ito K and Takagi H: Loss of H19 imprinting in
esophageal cancer. Cancer Res. 56:480–482. 1996.PubMed/NCBI
|
|
16
|
Zhou W, Ye XL, Xu J, Cao MG, Fang ZY, Li
LY, Guan GH, Liu Q, Qian YH and Xie D: The lncRNA H19 mediates
breast cancer cell plasticity during EMT and MET plasticity by
differentially sponging miR-200b/c and let-7b. Sci Signal.
10:102017. View Article : Google Scholar
|
|
17
|
Guo F, Li Y, Liu Y, Wang J, Li Y and Li G:
Inhibition of metastasis-associated lung adenocarcinoma transcript
1 in CaSki human cervical cancer cells suppresses cell
proliferation and invasion. Acta Biochim Biophys Sin (Shanghai).
42:224–229. 2010. View Article : Google Scholar
|
|
18
|
Ji P, Diederichs S, Wang W, Böing S,
Metzger R, Schneider PM, Tidow N, Brandt B, Buerger H, Bulk E, et
al: MALAT-1, a novel noncoding RNA, and thymosin beta4 predict
metastasis and survival in early-stage non-small cell lung cancer.
Oncogene. 22:8031–8041. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
19
|
Lin R, Maeda S, Liu C, Karin M and
Edgington TS: A large noncoding RNA is a marker for murine
hepatocellular carcinomas and a spectrum of human carcinomas.
Oncogene. 26:851–858. 2007. View Article : Google Scholar
|
|
20
|
Krüger J and Rehmsmeier M: RNAhybrid:
microRNA target prediction easy, fast and flexible. Nucleic Acids
Res. 34(Web Server): W451–4. 2006. View Article : Google Scholar : PubMed/NCBI
|
|
21
|
Wang XS, Zhang Z, Wang HC, Cai JL, Xu QW,
Li MQ, Chen YC, Qian XP, Lu TJ, Yu LZ, et al: Rapid identification
of UCA1 as a very sensitive and specific unique marker for human
bladder carcinoma. Clin Cancer Res. 12:4851–4858. 2006. View Article : Google Scholar : PubMed/NCBI
|
|
22
|
Zuo ZK, Gong Y, Chen XH, Ye F, Yin ZM,
Gong QN and Huang JS: TGFβ1-induced lncRNA UCA1 upregulation
promotes gastric cancer invasion and migration. DNA Cell Biol.
36:159–167. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
23
|
Wang Y, Zhang H, Li X and Chen W:
Differential expression profile analysis of lncRNA UCA1α regulated
mRNAs in bladder cancer. J Cell Biochem. 119:1841–1854. 2018.
View Article : Google Scholar
|
|
24
|
Nakagawa T, Endo H, Yokoyama M, Abe J,
Tamai K, Tanaka N, Sato I, Takahashi S, Kondo T and Satoh K: Large
noncoding RNA HOTAIR enhances aggressive biological behavior and is
associated with short disease-free survival in human non-small cell
lung cancer. Biochem Biophys Res Commun. 436:319–324. 2013.
View Article : Google Scholar : PubMed/NCBI
|
|
25
|
Ülger Y, Dadaş E, Yalinbaş Kaya B, Sümbül
AT, Genç A and Bayram S: The analysis of lncRNA HOTAIR rs12826786
C>T polymorphism and gastric cancer susceptibility in a Turkish
population: Lack of any association in a hospital-based
case-control study. Ir J Med Sci. 186:859–865. 2017. View Article : Google Scholar
|
|
26
|
Wu X, Cao X and Chen F: LncRNA-HOTAIR
activates tumor cell proliferation and migration by suppressing
miR-326 in cervical cancer. Oncol Res. Aug 31–2017.Epub ahead of
print. View Article : Google Scholar
|
|
27
|
Han L, Kong R, Yin DD, Zhang EB, Xu TP, De
W and Shu YQ: Low expression of long noncoding RNA GAS6-AS1
predicts a poor prognosis in patients with NSCLC. Med Oncol.
30:6942013. View Article : Google Scholar : PubMed/NCBI
|
|
28
|
Poliseno L, Salmena L, Zhang J, Carver B,
Haveman WJ and Pandolfi PP: A coding-independent function of gene
and pseudogene mRNAs regulates tumour biology. Nature.
465:1033–1038. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
29
|
Chan WL, Yuo CY, Yang WK, Hung SY, Chang
YS, Chiu CC, Yeh KT, Huang HD and Chang JG: Transcribed pseudogene
ψPPM1K generates endogenous siRNA to suppress oncogenic cell growth
in hepatocellular carcinoma. Nucleic Acids Res. 41:3734–3747. 2013.
View Article : Google Scholar : PubMed/NCBI
|
|
30
|
Bu D, Yu K, Sun S, Xie C, Skogerbø G, Miao
R, Xiao H, Liao Q, Luo H, Zhao G, et al: NONCODE v3.0: Integrative
annotation of long noncoding RNAs. Nucleic Acids Res.
40D:D210–D215. 2012. View Article : Google Scholar
|
|
31
|
Kozomara A and Griffiths-Jones S: miRBase:
Integrating microRNA annotation and deep-sequencing data. Nucleic
Acids Res. 39(Database): D152–D157. 2011. View Article : Google Scholar :
|
|
32
|
Karolchik D, Barber GP, Casper J, Clawson
H, Cline MS, Diekhans M, Dreszer TR, Fujita PA, Guruvadoo L,
Haeussler M, et al: The UCSC Genome Browser database: 2014 update.
Nucleic Acids Res. 42D:D764–D770. 2014. View Article : Google Scholar
|
|
33
|
Hsu SD, Lin FM, Wu WY, Liang C, Huang WC,
Chan WL, Tsai WT, Chen GZ, Lee CJ, Chiu CM, et al: miRTarBase: A
database curates experimentally validated microRNA-target
interactions. Nucleic Acids Res. 39(Suppl 1): D163–D169. 2011.
View Article : Google Scholar
|
|
34
|
Hsu SD, Tseng YT, Shrestha S, Lin YL,
Khaleel A, Chou CH, Chu CF, Huang HY, Lin CM, Ho SY, et al:
miRTarBase update 2014: An information resource for experimentally
validated miRNA-target interactions. Nucleic Acids Res.
42D:D78–D85. 2014. View Article : Google Scholar
|
|
35
|
Friedman RC, Farh KK, Burge CB and Bartel
DP: Most mammalian mRNAs are conserved targets of microRNAs. Genome
Res. 19:92–105. 2009. View Article : Google Scholar :
|
|
36
|
Grimson A, Farh KK, Johnston WK,
Garrett-Engele P, Lim LP and Bartel DP: MicroRNA targeting
specificity in mammals: Determinants beyond seed pairing. Mol Cell.
27:91–105. 2007. View Article : Google Scholar : PubMed/NCBI
|
|
37
|
Lewis BP, Burge CB and Bartel DP:
Conserved seed pairing, often flanked by adenosines, indicates that
thousands of human genes are microRNA targets. Cell. 120:15–20.
2005. View Article : Google Scholar : PubMed/NCBI
|
|
38
|
John B, Enright AJ, Aravin A, Tuschl T,
Sander C and Marks DS: Human microRNA targets. PLoS Biol.
2:e3632004. View Article : Google Scholar : PubMed/NCBI
|
|
39
|
Livak KJ and Schmittgen TD: Analysis of
relative gene expression data using real-time quantitative PCR and
the 2(−Δ Δ C(T)) Method. Methods. 25:402–408. 2001. View Article : Google Scholar
|
|
40
|
Sherman BT, Huang da W, Tan Q, Sherman BT,
Huang W, Tan Q, Guo Y, Bour S, Liu D, Stephens R, Baseler MW, Lane
HC, Lempicki RA, et al: DAVID Knowledgebase: A gene-centered
database integrating heterogeneous gene annotation resources to
facilitate high-throughput gene functional analysis. BMC
Bioinformatics. 8:4262007. View Article : Google Scholar : PubMed/NCBI
|
|
41
|
Jeggo PA and Downs JA: Roles of chromatin
remodellers in DNA double strand break repair. Exp Cell Res.
329:69–77. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
42
|
Andrews NW, Corrotte M and Castro-Gomes T:
Above the fray: Surface remodeling by secreted lysosomal enzymes
leads to endocytosis-mediated plasma membrane repair. Semin Cell
Dev Biol. 45:10–17. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
43
|
Jemal A, Bray F, Center MM, Ferlay J, Ward
E and Forman D: Global cancer statistics. CA Cancer J Clin.
61:69–90. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
44
|
Kuersten S and Goodwin EB: The power of
the 3′ UTR: Translational control and development. Nat Rev Genet.
4:626–637. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
45
|
Seiler J, Breinig M, Caudron-Herger M,
Polycarpou-Schwarz M, Boutros M and Diederichs S: The lncRNA VELUCT
strongly regulates viability of lung cancer cells despite its
extremely low abundance. Nucleic Acids Res. 45:5458–5469. 2017.
View Article : Google Scholar : PubMed/NCBI
|
|
46
|
Xie L, Yang Z, Li G, Shen L, Xiang X, Liu
X, Xu D, Xu L, Chen Y, Tian Z, et al: Genome-wide identification of
bone metastasis- related microRNAs in lung adenocarcinoma by
high-throughput sequencing. PLoS One. 8:e612122013. View Article : Google Scholar
|
|
47
|
Chen T and Dent SY: Chromatin modifiers
and remodellers: Regulators of cellular differentiation. Nat Rev
Genet. 15:93–106. 2014. View Article : Google Scholar
|
|
48
|
Ho L and Crabtree GR: Chromatin
remodelling during development. Nature. 463:474–484. 2010.
View Article : Google Scholar : PubMed/NCBI
|
|
49
|
Delia D and Mizutani S: The DNA damage
response pathway in normal hematopoiesis and malignancies. Int J
Hematol. 106:328–334. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
50
|
Dinger ME, Pang KC, Mercer TR and Mattick
JS: Differentiating protein-coding and noncoding RNA: Challenges
and ambiguities. PLOS Comput Biol. 4:e10001762008. View Article : Google Scholar : PubMed/NCBI
|
|
51
|
Dinger ME, Amaral PP, Mercer TR and
Mattick JS: Pervasive transcription of the eukaryotic genome:
Functional indices and conceptual implications. Brief Funct
Genomics Proteomics. 8:407–423. 2009. View Article : Google Scholar
|
|
52
|
Gerstein MB, Bruce C, Rozowsky JS, Zheng
D, Du J, Korbel JO, Emanuelsson O, Zhang ZD, Weissman S and Snyder
M: What is a gene, post-ENCODE? History and updated definition.
Genome Res. 17:669–681. 2007. View Article : Google Scholar : PubMed/NCBI
|
