|
1
|
Torre LA, Bray F, Siegel RL, Ferlay J,
Lortet-Tieulent J and Jemal A: Global cancer statistics, 2012. CA
Cancer J Clin. 65:87–108. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
2
|
Marley AR and Nan H: Epidemiology of
colorectal cancer. Int J Mol Epidemiol Genet. 7:105–114.
2016.PubMed/NCBI
|
|
3
|
Bretthauer M: Colorectal cancer screening.
J Intern Med. 270:87–98. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
4
|
Itzel T, Scholz P, Maass T, Krupp M,
Marquardt JU, Strand S, Becker D, Staib F, Binder H, Roessler S, et
al: Translating bioinformatics in oncology: Guilt-by-profiling
analysis and identification of KIF18B and CDCA3 as novel driver
genes in carcinogenesis. Bioinformatics. 31:216–224. 2015.
View Article : Google Scholar : PubMed/NCBI
|
|
5
|
Fortney K and Jurisica I: Integrative
computational biology for cancer research. Hum Genet. 130:465–481.
2011. View Article : Google Scholar : PubMed/NCBI
|
|
6
|
Hao L, Leng J, Xiao R, Kingsley T, Li X,
Tu Z, Yang X, Deng X, Xiong M, Xiong J, et al: Bioinformatics
analysis of the prognostic value of Tripartite Motif 28 in breast
cancer. Oncol Lett. 13:2670–2678. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
7
|
Fritah S, Niclou SP and Azuaje F:
Databases for lncRNAs: A comparative evaluation of emerging tools.
RNA. 20:1655–1665. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
8
|
Nagano T and Fraser P: No-nonsense
functions for long noncoding RNAs. Cell. 145:178–181. 2011.
View Article : Google Scholar : PubMed/NCBI
|
|
9
|
Dong Y, Huo X, Sun R, Liu Z, Huang M and
Yang S: LncRNA Gm15290 promotes cell proliferation and invasion in
non-small cell lung cancer through directly interacting with and
suppressing the tumor suppressor miR-615-5p. Oncol Res. May
5–2017.(Epub ahead of print). View Article : Google Scholar
|
|
10
|
Wen Q, Liu Y, Lyu H, Xu X, Wu Q, Liu N,
Yin Q, Li J and Sheng X: Long noncoding RNA GAS5, which acts as a
tumor suppressor via microRNA 21, regulates cisplatin resistance
expression in cervical cancer. Int J Gynecol Cancer. 27:1096–1108.
2017. View Article : Google Scholar : PubMed/NCBI
|
|
11
|
Hou Z, Xu X, Fu X, Tao S, Zhou J, Liu S
and Tan D: HBx-related long non-coding RNA MALAT1 promotes cell
metastasis via up-regulating LTBP3 in hepatocellular carcinoma. Am
J Cancer Res. 7:845–856. 2017.PubMed/NCBI
|
|
12
|
Huan J, Xing L, Lin Q, Xui H and Qin X:
Long noncoding RNA CRNDE activates Wnt/β-catenin signaling pathway
through acting as a molecular sponge of microRNA-136 in human
breast cancer. Am J Transl Res. 9:1977–1989. 2017.PubMed/NCBI
|
|
13
|
Ebert MS and Sharp PA: Emerging roles for
natural microRNA sponges. Curr Biol. 20:R858–R861. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
14
|
Cesana M, Cacchiarelli D, Legnini I,
Santini T, Sthandier O, Chinappi M, Tramontano A and Bozzoni I: A
long noncoding RNA controls muscle differentiation by functioning
as a competing endogenous RNA. Cell. 147:358–369. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
15
|
Sumazin P, Yang X, Chiu HS, Chung WJ, Iyer
A, Llobet-Navas D, Rajbhandari P, Bansal M, Guarnieri P, Silva J,
et al: An extensive microRNA-mediated network of RNA-RNA
interactions regulates established oncogenic pathways in
glioblastoma. Cell. 147:370–381. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
16
|
Wang H, Niu L, Jiang S, Zhai J, Wang P,
Kong F and Jin X: Comprehensive analysis of aberrantly expressed
profiles of lncRNAs and miRNAs with associated ceRNA network in
muscle-invasive bladder cancer. Oncotarget. 7:86174–86185. 2016.
View Article : Google Scholar : PubMed/NCBI
|
|
17
|
Loo LW, Cheng I, Tiirikainen M, Lum-Jones
A, Seifried A, Dunklee LM, Church JM, Gryfe R, Weisenberger DJ,
Haile RW, et al: cis-Expression QTL analysis of established
colorectal cancer risk variants in colon tumors and adjacent normal
tissue. PLoS One. 7:e304772012. View Article : Google Scholar : PubMed/NCBI
|
|
18
|
Li JH, Liu S, Zhou H, Qu LH and Yang JH:
starBase v2.0: Decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA
interaction networks from large-scale CLIP-Seq data. Nucleic Acids
Res. 42((D1)): D92–D97. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
19
|
Mukaka MM: Statistics corner: A guide to
appropriate use of correlation coefficient in medical research.
Malawi Med J. 24:69–71. 2012.PubMed/NCBI
|
|
20
|
Ravasz E, Somera AL, Mongru DA, Oltvai ZN
and Barabási AL: Hierarchical organization of modularity in
metabolic networks. Science. 297:1551–1555. 2002. View Article : Google Scholar : PubMed/NCBI
|
|
21
|
Chen X: Prediction of optimal gene
functions for osteosarcoma using network-based-guilt by association
method based on gene oncology and microarray profile. J Bone Oncol.
7:18–22. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
22
|
Peña-Castillo L, Tasan M, Myers CL, Lee H,
Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WK, et al: A
critical assessment of Mus musculus gene function prediction using
integrated genomic evidence. Genome Biol. 9 Suppl 1:S22008.
View Article : Google Scholar
|
|
23
|
Pavlidis P and Gillis J: Progress and
challenges in the computational prediction of gene function using
networks: 2012–2013 update. F1000Res. 2:2302013. View Article : Google Scholar : PubMed/NCBI
|
|
24
|
Kominakis A, Hager-Theodorides AL, Zoidis
E, Saridaki A, Antonakos G and Tsiamis G: Combined GWAS and ‘guilt
by association’-based prioritization analysis identifies functional
candidate genes for body size in sheep. Genet Sel Evol. 49:412017.
View Article : Google Scholar : PubMed/NCBI
|
|
25
|
Huntley RP, Sawford T, Mutowo-Meullenet P,
Shypitsyna A, Bonilla C, Martin MJ and O'Donovan C: The GOA
database: Gene Ontology annotation updates for 2015. Nucleic Acids
Res. 43((D1)): D1057–D1063. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
26
|
Haw R and Stein L: Using the reactome
database. Curr Protoc Bioinform. 38:1–23. 2012.
|
|
27
|
Zou T, Jaladanki SK, Liu L, Xiao L, Chung
HK and Wang JY, Xu Y, Gorospe M and Wang JY: H19 long noncoding RNA
regulates intestinal epithelial barrier function via microRNA 675
by interacting with RNA-binding protein HuR. Mol Cell Biol.
36:1332–1341. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
28
|
Dey BK, Pfeifer K and Dutta A: The H19
long noncoding RNA gives rise to microRNAs miR-675-3p and
miR-675-5p to promote skeletal muscle differentiation and
regeneration. Genes Dev. 28:491–501. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
29
|
Wang P, Ning S, Zhang Y, Li R, Ye J, Zhao
Z, Zhi H, Wang T, Guo Z and Li X: Identification of
lncRNA-associated competing triplets reveals global patterns and
prognostic markers for cancer. Nucleic Acids Res. 43:3478–3489.
2015. View Article : Google Scholar : PubMed/NCBI
|
|
30
|
Misawa A, Takayama K, Urano T and Inoue S:
Androgen-induced long noncoding RNA (lncRNA) SOCS2-AS1 promotes
cell growth and inhibits apoptosis in prostate cancer cells. J Biol
Chem. 291:17861–17880. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
31
|
Shi Q and Yang X: Circulating microRNA and
long noncoding RNA as biomarkers of cardiovascular diseases. J Cell
Physiol. 231:751–755. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
32
|
Su S, Liu J, He K, Zhang M, Feng C, Peng
F, Li B and Xia X: Overexpression of the long noncoding RNA TUG1
protects against cold-induced injury of mouse livers by inhibiting
apoptosis and inflammation. FEBS J. 283:1261–1274. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
33
|
Wu GC, Pan HF, Leng RX, Wang DG, Li XP, Li
XM and Ye DQ: Emerging role of long noncoding RNAs in autoimmune
diseases. Autoimmun Rev. 14:798–805. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
34
|
Zhang Y, Xu Y, Feng L, Li F, Sun Z, Wu T,
Shi X, Li J and Li X: Comprehensive characterization of lncRNA-mRNA
related ceRNA network across 12 major cancers. Oncotarget.
7:64148–64167. 2016.PubMed/NCBI
|
|
35
|
Chiu YC, Wang LJ, Lu TP, Hsiao TH, Chuang
EY and Chen Y: Differential correlation analysis of glioblastoma
reveals immune ceRNA interactions predictive of patient survival.
BMC Bioinformatics. 18:1322017. View Article : Google Scholar : PubMed/NCBI
|
|
36
|
Rider AK, Milenković T, Siwo GH, Pinapati
RS, Emrich SJ, Ferdig MT and Chawla NV: Networks' characteristics
matter for systems biology. Netw Sci (Camb Univ Press). 2:139–161.
2014.PubMed/NCBI
|
|
37
|
Wang P, Lü J and Yu X: Identification of
important nodes in directed biological networks: A network motif
approach. PLoS One. 9:e1061322014. View Article : Google Scholar : PubMed/NCBI
|
|
38
|
Xing Z, Lin A, Li C, Liang K, Wang S, Liu
Y, Park PK, Qin L, Wei Y, Hawke DH, et al: lncRNA directs
cooperative epigenetic regulation downstream of chemokine signals.
Cell. 159:1110–1125. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
39
|
Roberts TC, Morris KV and Weinberg MS:
Perspectives on the mechanism of transcriptional regulation by long
non-coding RNAs. Epigenetics. 9:13–20. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
40
|
Shi X, Sun M, Wu Y, Yao Y, Liu H, Wu G,
Yuan D and Song Y: Post-transcriptional regulation of long
noncoding RNAs in cancer. Tumour Biol. 36:503–513. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
41
|
Wang JZ, Xu CL, Wu H and Shen SJ: LncRNA
SNHG12 promotes cell growth and inhibits cell apoptosis in
colorectal cancer cells. Braz J Med Biol Res. 50:e60792017.
View Article : Google Scholar : PubMed/NCBI
|
|
42
|
Wang O, Yang F, Liu Y, Lv L, Ma R, Chen C,
Wang J, Tan Q, Cheng Y, Xia E, et al: C-MYC-induced upregulation of
lncRNA SNHG12 regulates cell proliferation, apoptosis and migration
in triple-negative breast cancer. Am J Transl Res. 9:533–545.
2017.PubMed/NCBI
|
|
43
|
Lan T, Ma W, Hong Z, Wu L, Chen X and Yuan
Y: Long non-coding RNA small nucleolar RNA host gene 12 (SNHG12)
promotes tumorigenesis and metastasis by targeting miR-199a/b-5p in
hepatocellular carcinoma. J Exp Clin Cancer Res. 36:112017.
View Article : Google Scholar : PubMed/NCBI
|
|
44
|
Ruan W, Wang P, Feng S, Xue Y and Li Y:
Long non-coding RNA small nucleolar RNA host gene 12 (SNHG12)
promotes cell proliferation and migration by upregulating
angiomotin gene expression in human osteosarcoma cells. Tumour
Biol. 37:4065–4073. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
45
|
Teng H, Wang P, Xue Y, Liu X, Ma J, Cai H,
Xi Z, Li Z and Liu Y: Role of HCP5-miR-139-RUNX1 feedback loop in
regulating malignant behavior of glioma cells. Mol Ther.
24:1806–1822. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
46
|
Lange CM, Bibert S, Dufour JF, Cellerai C,
Cerny A, Heim MH, Kaiser L, Malinverni R, Müllhaupt B, Negro F, et
al: Swiss Hepatitis C Cohort Study Group: Comparative genetic
analyses point to HCP5 as susceptibility locus for HCV-associated
hepatocellular carcinoma. J Hepatol. 59:504–509. 2013. View Article : Google Scholar : PubMed/NCBI
|
|
47
|
Zhou M, Wang X, Shi H, Cheng L, Wang Z,
Zhao H, Yang L and Sun J: Characterization of long non-coding
RNA-associated ceRNA network to reveal potential prognostic lncRNA
biomarkers in human ovarian cancer. Oncotarget. 7:12598–12611.
2016.PubMed/NCBI
|
|
48
|
Xiao H, Xiao W, Cao J, Li H, Guan W, Guo
X, Chen K, Zheng T, Ye Z, Wang J, et al: miR-206 functions as a
novel cell cycle regulator and tumor suppressor in clear-cell renal
cell carcinoma. Cancer Lett. 374:107–116. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
49
|
Chukkapalli S, Amessou M, Dekhil H, Dilly
AK, Liu Q, Bandyopadhyay S, Thomas RD, Bejna A, Batist G and
Kandouz M: Ehd3, a regulator of vesicular trafficking, is silenced
in gliomas and functions as a tumor suppressor by controlling cell
cycle arrest and apoptosis. Carcinogenesis. 35:877–885. 2014.
View Article : Google Scholar : PubMed/NCBI
|
|
50
|
Ouyang Q, Xu L, Cui H, Xu M and Yi L:
MicroRNAs and cell cycle of malignant glioma. Int J Neurosci.
126:1–9. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
51
|
Banerjee T and Chakravarti D: A peek into
the complex realm of histone phosphorylation. Mol Cell Biol.
31:4858–4873. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
52
|
Kelly AE, Ghenoiu C, Xue JZ, Zierhut C,
Kimura H and Funabiki H: Survivin reads phosphorylated histone H3
threonine 3 to activate the mitotic kinase Aurora B. Science.
330:235–239. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
53
|
Zegers MM and Friedl P: Rho GTPases in
collective cell migration. Small GTPases. 5:e289972014. View Article : Google Scholar : PubMed/NCBI
|
|
54
|
Lin Y and Zheng Y: Approaches of targeting
Rho GTPases in cancer drug discovery. Expert Opin Drug Discov.
10:991–1010. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
55
|
Makrodouli E, Oikonomou E, Koc M, Andera
L, Sasazuki T, Shirasawa S and Pintzas A: BRAF and RAS oncogenes
regulate Rho GTPase pathways to mediate migration and invasion
properties in human colon cancer cells: A comparative study. Mol
Cancer. 10:1182011. View Article : Google Scholar : PubMed/NCBI
|
|
56
|
Andermatt I, Wilson NH, Bergmann T, Mauti
O, Gesemann M, Sockanathan S and Stoeckli ET: Semaphorin 6B acts as
a receptor in post-crossing commissural axon guidance. Development.
141:3709–3720. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
57
|
Ge C, Li Q, Wang L and Xu X: The role of
axon guidance factor semaphorin 6B in the invasion and metastasis
of gastric cancer. J Int Med Res. 41:284–292. 2013. View Article : Google Scholar : PubMed/NCBI
|
|
58
|
Mumblat Y, Kessler O, Ilan N and Neufeld
G: Full-length semaphorin-3C is an inhibitor of tumor
lymphangiogenesis and metastasis. Cancer Res. 75:2177–2186. 2015.
View Article : Google Scholar : PubMed/NCBI
|
|
59
|
Gu C and Giraudo E: The role of
semaphorins and their receptors in vascular development and cancer.
Exp Cell Res. 319:1306–1316. 2013. View Article : Google Scholar : PubMed/NCBI
|
|
60
|
Bollard J, Massoma P, Vercherat C, Blanc
M, Lepinasse F, Gadot N, Couderc C, Poncet G, Walter T, Joly MO, et
al: The axon guidance molecule semaphorin 3F is a negative
regulator of tumor progression and proliferation in ileal
neuroendocrine tumors. Oncotarget. 6:36731–36745. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
61
|
Wang Z, Chen J, Zhang W, Zheng Y, Wang Z,
Liu L, Wu H, Ye J, Zhang W, Qi B, et al: Axon guidance molecule
semaphorin 3A is a novel tumor suppressor in head and neck squamous
cell carcinoma. Oncotarget. 7:6048–6062. 2016.PubMed/NCBI
|
