1
|
Humphrey PA, Moch H, Cubilla AL, Ulbright
TM and Reuter VE: The 2016 WHO classification of tumours of the
urinary system and male genital organs-part B: Prostate and bladder
tumours. Eur Urol. 70:106–119. 2016. View Article : Google Scholar : PubMed/NCBI
|
2
|
Delahunt B and Eble JN: Papillary renal
cell carcinoma: A clinicopathologic and immunohistochemical study
of 105 tumors. Mod Pathol. 10:537–544. 1997.PubMed/NCBI
|
3
|
Chevarie-Davis M, Riazalhosseini Y,
Arseneault M, Aprikian A, Kassouf W, Tanguay S, Latour M and Brimo
F: The morphologic and immunohistochemical spectrum of papillary
renal cell carcinoma: Study including 132 cases with pure type 1
and type 2 morphology as well as tumors with overlapping features.
Am J Surg Pathol. 38:887–894. 2014. View Article : Google Scholar : PubMed/NCBI
|
4
|
Ha YS, Chung JW, Choi SH, Lee JN, Kim HT,
Kim TH, Chung SK, Byun SS, Hwang EC, Kang SH, et al: Clinical
significance of subclassification of papillary renal cell
carcinoma: Comparison of clinicopathologic parameters and oncologic
outcomes between papillary histologic subtypes 1 and 2 using the
Korean renal cell carcinoma database. Clin Genitourin Cancer.
15:e181–e186. 2017. View Article : Google Scholar : PubMed/NCBI
|
5
|
Tsimafeyeu I, Khasanova A, Stepanova E,
Gordiev M, Khochenkov D, Naumova A, Varlamov I, Snegovoy A and
Demidov L: FGFR2 overexpression predicts survival outcome in
patients with metastatic papillary renal cell carcinoma. Clin
Transl Oncol. 19:265–268. 2017. View Article : Google Scholar : PubMed/NCBI
|
6
|
Motzer RJ, Bacik J, Mariani T, Russo P,
Mazumdar M and Reuter V: Treatment outcome and survival associated
with metastatic renal cell carcinoma of non-clear-cell histology. J
Clin Oncol. 20:2376–2381. 2002. View Article : Google Scholar : PubMed/NCBI
|
7
|
Durinck S, Stawiski EW, Pavía-Jiménez A,
Modrusan Z, Kapur P, Jaiswal BS, Zhang N, Toffessi-Tcheuyap V,
Nguyen TT, Pahuja KB, et al: Spectrum of diverse genomic
alterations define non-clear cell renal carcinoma subtypes. Nat
Genet. 47:13–21. 2015. View
Article : Google Scholar : PubMed/NCBI
|
8
|
Cancer Genome Atlas Research Network, ;
Linehan WM, Spellman PT, Ricketts CJ, Creighton CJ, Fei SS, Davis
C, Wheeler DA, Murray BA, Schmidt L, et al: Comprehensive molecular
characterization of papillary renal-cell carcinoma. N Engl J Med.
374:135–145. 2016. View Article : Google Scholar : PubMed/NCBI
|
9
|
Yang XJ, Tan MH, Kim HL, Ditlev JA, Betten
MW, Png CE, Kort EJ, Futami K, Furge KA, Takahashi M, et al: A
molecular classification of papillary renal cell carcinoma. Cancer
Res. 65:5628–5637. 2005. View Article : Google Scholar : PubMed/NCBI
|
10
|
Lan H, Zeng J, Chen G and Huang H:
Survival prediction of kidney renal papillary cell carcinoma by
comprehensive LncRNA characterization. Oncotarget. 8:110811–110829.
2017. View Article : Google Scholar : PubMed/NCBI
|
11
|
Salmena L, Poliseno L, Tay Y, Kats L and
Pandolfi PP: A ceRNA hypothesis: The rosetta stone of a hidden RNA
language? Cell. 146:353–358. 2011. View Article : Google Scholar : PubMed/NCBI
|
12
|
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
|
13
|
Hou P, Zhao Y, Li Z, Yao R, Ma M, Gao Y,
Zhao L, Zhang Y, Huang B and Lu J: LincRNA-ROR induces
epithelial-to-mesenchymal transition and contributes to breast
cancer tumorigenesis and metastasis. Cell Death Dis. 5:e12872014.
View Article : Google Scholar : PubMed/NCBI
|
14
|
Chen P, Fang X, Xia B, Zhao Y, Li Q and Wu
X: Long noncoding RNA LINC00152 promotes cell proliferation through
competitively binding endogenous miR-125b with MCL-1 by regulating
mitochondrial apoptosis pathways in ovarian cancer. Cancer Med.
7:4530–4541. 2018. View Article : Google Scholar : PubMed/NCBI
|
15
|
Liu K, Yao H, Wen Y, Zhao H, Zhou N, Lei S
and Xiong L: Functional role of a long non-coding RNA
LIFR-AS1/miR-29a/TNFAIP3 axis in colorectal cancer resistance to
pohotodynamic therapy. Biochim Biophys Acta Mol Basis Dis.
1864:2871–2880. 2018. View Article : Google Scholar : PubMed/NCBI
|
16
|
Qu Y, Xiao H, Xiao W, Xiong Z, Hu W, Gao
Y, Ru Z, Wang C, Bao L, Wang K, et al: Upregulation of MIAT
regulates LOXL2 expression by competitively binding MiR-29c in
clear cell renal cell carcinoma. Cell Physiol Biochem.
48:1075–1087. 2018. View Article : Google Scholar : PubMed/NCBI
|
17
|
Bai N, Peng E, Qiu X, Lyu N, Zhang Z, Tao
Y, Li X and Wang Z: circFBLIM1 act as a ceRNA to promote
hepatocellular cancer progression by sponging miR-346. J Exp Clin
Cancer Res. 37:1722018. View Article : Google Scholar : PubMed/NCBI
|
18
|
Derrien T, Johnson R, Bussotti G, Tanzer
A, Djebali S, Tilgner H, Guernec G, Martin D, Merkel A, Knowles DG,
et al: The GENCODE v7 catalog of human long noncoding RNAs:
Analysis of their gene structure, evolution, and expression. Genome
Res. 22:1775–1789. 2012. View Article : Google Scholar : PubMed/NCBI
|
19
|
Frankish A, Diekhans M, Ferreira AM,
Johnson R, Jungreis I, Loveland J, Mudge JM, Sisu C, Wright J,
Armstrong J, et al: GENCODE reference annotation for the human and
mouse genomes. Nucleic Acids Res. 47:D766–D773. 2019. View Article : Google Scholar : PubMed/NCBI
|
20
|
Robinson MD, McCarthy DJ and Smyth GK:
edgeR: A bioconductor package for differential expression analysis
of digital gene expression data. Bioinformatics. 26:139–140. 2010.
View Article : Google Scholar : PubMed/NCBI
|
21
|
Benjamini Y and Hochberg Y: Controlling
the false discovery rate: A practical and powerful approach to
multiple testing. J R Statisti Soc Series B: Methodol. 57:289–300.
1995.
|
22
|
Gene Ontology Consortium: The gene
ontology (GO) project in 2006. Nucleic Acids Res 34 (Database
Issue). D322–D326. 2006. View Article : Google Scholar
|
23
|
Huang da W, Sherman BT and Lempicki RA:
Systematic and integrative analysis of large gene lists using DAVID
bioinformatics resources. Nat Protoc. 4:44–57. 2009. View Article : Google Scholar : PubMed/NCBI
|
24
|
Huang da W, Sherman BT and Lempicki RA:
Bioinformatics enrichment tools: Paths toward the comprehensive
functional analysis of large gene lists. Nucleic Acids Res.
37:1–13. 2009. View Article : Google Scholar : PubMed/NCBI
|
25
|
Kanehisa M, Sato Y, Furumichi M, Morishima
K and Tanabe M: New approach for understanding genome variations in
KEGG. Nucleic Acids Res. 47(D1): D590–D595. 2019. View Article : Google Scholar : PubMed/NCBI
|
26
|
Kanehisa M, Furumichi M, Tanabe M, Sato Y
and Morishima K: KEGG: New perspectives on genomes, pathways,
diseases and drugs. Nucleic Acids Res 45(D1). D353–D361. 2017.
View Article : Google Scholar
|
27
|
Kanehisa M, Araki M, Goto S, Hattori M,
Hirakawa M, Itoh M, Katayama T, Kawashima S, Okuda S, Tokimatsu T
and Yamanishi Y: KEGG for linking genomes to life and the
environment. Nucleic Acids Res 36 (Database Issue). D480–D484.
2008.
|
28
|
Xie C, Mao X, Huang J, Ding Y, Wu J, Dong
S, Kong L, Gao G, Li CY and Wei L: KOBAS 2.0: A web server for
annotation and identification of enriched pathways and diseases.
Nucleic Acids Res. 39:W316–W322. 2011. View Article : Google Scholar : PubMed/NCBI
|
29
|
Szklarczyk D, Morris JH, Cook H, Kuhn M,
Wyder S, Simonovic M, Santos A, Doncheva NT, Roth A, Bork P, et al:
The STRING database in 2017: Quality-controlled protein-protein
association networks, made broadly accessible. Nucleic Acids Res.
45(D1): D362–D368. 2017. View Article : Google Scholar : PubMed/NCBI
|
30
|
Jensen LJ, Kuhn M, Stark M, Chaffron S,
Creevey C, Muller J, Doerks T, Julien P, Roth A, Simonovic M, et
al: STRING 8-a global view on proteins and their functional
interactions in 630 organisms. Nucleic Acids Res 37 (Database
Issue). D412–D416. 2009. View Article : Google Scholar
|
31
|
Shannon P, Markiel A, Ozier O, Baliga NS,
Wang JT, Ramage D, Amin N, Schwikowski B and Ideker T: Cytoscape: A
software environment for integrated models of biomolecular
interaction networks. Genome Res. 13:2498–2504. 2003. View Article : Google Scholar : PubMed/NCBI
|
32
|
Chin CH, Chen SH, Wu HH, Ho CW, Ko MT and
Lin CY: cytoHubba: Identifying hub objects and sub-networks from
complex interactome. BMC Syst Biol. 8 (Suppl 4):S112014. View Article : Google Scholar : PubMed/NCBI
|
33
|
Jeggari A, Marks DS and Larsson E:
miRcode: A map of putative microRNA target sites in the long
non-coding transcriptome. Bioinformatics. 28:2062–2063. 2012.
View Article : Google Scholar : PubMed/NCBI
|
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 42 (Database
Issue). D78–D85. 2014. View Article : Google Scholar
|
35
|
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
|
36
|
Agarwal V, Bell GW, Nam JW and Bartel DP:
Predicting effective microRNA target sites in mammalian mRNAs.
Elife. 42015.(doi: 10.7554/eLife.05005).
|
37
|
Bader GD and Hogue CW: An automated method
for finding molecular complexes in large protein interaction
networks. BMC Bioinformatics. 4:22003. View Article : Google Scholar : PubMed/NCBI
|
38
|
Livak KJ and Schmittgen TD: Analysis of
relative gene expression data using real-time quantitative PCR and
the 2(-Delta Delta C(T)) method. Methods. 25:402–408. 2001.
View Article : Google Scholar : PubMed/NCBI
|
39
|
Boehning D, Patterson RL, Sedaghat L,
Glebova NO, Kurosaki T and Snyder SH: Cytochrome c binds to
inositol (1,4,5) trisphosphate receptors, amplifying
calcium-dependent apoptosis. Nat Cell Biol. 5:1051–1061. 2003.
View Article : Google Scholar : PubMed/NCBI
|
40
|
Pinton P, Giorgi C, Siviero R, Zecchini E
and Rizzuto R: Calcium and apoptosis: ER-mitochondria Ca2+ transfer
in the control of apoptosis. Oncogene. 27:6407–6418. 2008.
View Article : Google Scholar : PubMed/NCBI
|
41
|
Kim KY, Cho HJ, Yu SN, Kim SH, Yu HS, Park
YM, Mirkheshti N, Kim SY, Song CS, Chatterjee B and Ahn SC:
Interplay of reactive oxygen species, intracellular Ca2+ and
mitochondrial homeostasis in the apoptosis of prostate cancer cells
by deoxypodophyllotoxin. J Cell Biochem. 114:1124–1134. 2013.
View Article : Google Scholar : PubMed/NCBI
|
42
|
Xue J, Li R, Zhao X, Ma C, Lv X, Liu L and
Liu P: Morusin induces paraptosis-like cell death through
mitochondrial calcium overload and dysfunction in epithelial
ovarian cancer. Chem Biol Interact. 283:59–74. 2018. View Article : Google Scholar : PubMed/NCBI
|
43
|
Raynal NJ, Lee JT, Wang Y, Beaudry A,
Madireddi P, Garriga J, Malouf GG, Dumont S, Dettman EJ, Gharibyan
V, et al: Targeting calcium signaling induces epigenetic
reactivation of tumor suppressor genes in cancer. Cancer Res.
76:1494–1505. 2016. View Article : Google Scholar : PubMed/NCBI
|
44
|
Massari F, Ciccarese C, Santoni M,
Brunelli M, Piva F, Modena A, Bimbatti D, Fantinel E, Santini D,
Cheng L, et al: Metabolic alterations in renal cell carcinoma.
Cancer Treat Rev. 41:767–776. 2015. View Article : Google Scholar : PubMed/NCBI
|
45
|
Wettersten HI, Aboud OA, Lara PN Jr and
Weiss RH: Metabolic reprogramming in clear cell renal cell
carcinoma. Nat Rev Nephrol. 13:410–419. 2017. View Article : Google Scholar : PubMed/NCBI
|
46
|
Lucarelli G, Galleggiante V, Rutigliano M,
Sanguedolce F, Cagiano S, Bufo P, Lastilla G, Maiorano E, Ribatti
D, Giglio A, et al: Metabolomic profile of glycolysis and the
pentose phosphate pathway identifies the central role of
glucose-6-phosphate dehydrogenase in clear cell-renal cell
carcinoma. Oncotarget. 6:13371–13386. 2015. View Article : Google Scholar : PubMed/NCBI
|
47
|
White NM, Newsted DW, Masui O, Romaschin
AD, Siu KW and Yousef GM: Identification and validation of
dysregulated metabolic pathways in metastatic renal cell carcinoma.
Tumour Biol. 35:1833–1846. 2014. View Article : Google Scholar : PubMed/NCBI
|
48
|
Renganathan A and Felley-Bosco E: Long
noncoding RNAs in cancer and therapeutic potential. Adv Exp Med
Biol. 1008:199–222. 2017. View Article : Google Scholar : PubMed/NCBI
|
49
|
Bhan A, Soleimani M and Mandal SS: Long
noncoding RNA and cancer: A new paradigm. Cancer Res. 77:3965–3981.
2017. View Article : Google Scholar : PubMed/NCBI
|
50
|
Huarte M: The emerging role of lncRNAs in
cancer. Nat Med. 21:1253–1261. 2015. View Article : Google Scholar : PubMed/NCBI
|
51
|
Dan J, Wang J, Wang Y, Zhu M, Yang X, Peng
Z, Jiang H and Chen L: LncRNA-MEG3 inhibits proliferation and
metastasis by regulating miRNA-21 in gastric cancer. Biomed
Pharmacother. 99:931–938. 2018. View Article : Google Scholar : PubMed/NCBI
|
52
|
Feng SQ, Zhang XY, Fan HT, Sun QJ and
Zhang M: Up-regulation of LncRNA MEG3 inhibits cell migration and
invasion and enhances cisplatin chemosensitivity in bladder cancer
cells. Neoplasma. 65:925–932. 2018. View Article : Google Scholar : PubMed/NCBI
|
53
|
Li Z, Yang L, Liu X, Nie Z and Luo J: Long
noncoding RNA MEG3 inhibits proliferation of chronic myeloid
leukemia cells by sponging microRNA21. Biomed Pharmacother.
104:181–192. 2018. View Article : Google Scholar : PubMed/NCBI
|
54
|
Long J and Pi X: lncRNA-MEG3 suppresses
the proliferation and invasion of melanoma by regulating CYLD
expression mediated by sponging miR-499-5p. Biomed Res Int.
2018:20865642018. View Article : Google Scholar : PubMed/NCBI
|
55
|
Sun KX, Wu DD, Chen S, Zhao Y and Zong ZH:
LncRNA MEG3 inhibit endometrial carcinoma tumorigenesis and
progression through PI3K pathway. Apoptosis. 22:1543–1552. 2017.
View Article : Google Scholar : PubMed/NCBI
|
56
|
Zhang SZ, Cai L and Li B: MEG3 long
non-coding RNA prevents cell growth and metastasis of osteosarcoma.
Bratisl Lek Listy. 118:632–636. 2017.PubMed/NCBI
|
57
|
Wei GH and Wang X: lncRNA MEG3 inhibit
proliferation and metastasis of gastric cancer via p53 signaling
pathway. Eur Rev Med Pharmacol Sci. 21:3850–3856. 2017.PubMed/NCBI
|
58
|
Pang Y, Mao H, Shen L, Zhao Z, Liu R and
Liu P: MiR-519d represses ovarian cancer cell proliferation and
enhances cisplatin-mediated cytotoxicity in vitro by targeting
XIAP. Onco Targets Ther. 7:587–597. 2014. View Article : Google Scholar : PubMed/NCBI
|
59
|
Ye X and Lv H: MicroRNA-519d-3p inhibits
cell proliferation and migration by targeting TROAP in colorectal
cancer. Biomed Pharmacother. 105:879–886. 2018. View Article : Google Scholar : PubMed/NCBI
|
60
|
Yue H, Tang B, Zhao Y, Niu Y, Yin P, Yang
W, Zhang Z and Yu P: MIR-519d suppresses the gastric cancer
epithelial-mesenchymal transition via Twist1 and inhibits
Wnt/β-catenin signaling pathway. Am J Transl Res. 9:3654–3664.
2017.PubMed/NCBI
|
61
|
Chen Z, Ju H, Yu S, Zhao T, Jing X, Li P,
Jia J, Li N, Tan B and Li Y: Prader-Willi region non-protein coding
RNA 1 suppressed gastric cancer growth as a competing endogenous
RNA of miR-425-5p. Clin Sci (Lond). 132:1003–1019. 2018. View Article : Google Scholar : PubMed/NCBI
|
62
|
Hong L, Wang Y, Chen W and Yang S:
MicroRNA-508 suppresses epithelial-mesenchymal transition,
migration, and invasion of ovarian cancer cells through the
MAPK1/ERK signaling pathway. J Cell Biochem. 119:7431–7440. 2018.
View Article : Google Scholar : PubMed/NCBI
|
63
|
Zhou B, Wang D, Sun G, Mei F, Cui Y and Xu
H: Effect of miR-21 on apoptosis in lung cancer cell through
inhibiting the PI3K/Akt/NF-κB signaling pathway in vitro and in
vivo. Cell Physiol Biochem. 46:999–1008. 2018. View Article : Google Scholar : PubMed/NCBI
|
64
|
Zhao MY, Wang LM, Liu J, Huang X, Liu J
and Zhang YF: MiR-21 suppresses anoikis through targeting PDCD4 and
PTEN in human esophageal adenocarcinoma. Curr Med Sci. 38:245–251.
2018. View Article : Google Scholar : PubMed/NCBI
|
65
|
Naro Y, Ankenbruck N, Thomas M, Tivon Y,
Connelly CM, Gardner L and Deiters A: Small molecule inhibition of
MicroRNA miR-21 rescues chemosensitivity of renal-cell carcinoma to
topotecan. J Med Chem. 11–Jul;2018.(Epub ahead of print).
View Article : Google Scholar : PubMed/NCBI
|
66
|
Zhang R and Xia T: Long non-coding RNA
XIST regulates PDCD4 expression by interacting with miR-21-5p and
inhibits osteosarcoma cell growth and metastasis. Int J Oncol.
51:1460–1470. 2017. View Article : Google Scholar : PubMed/NCBI
|
67
|
He H, Dai J, Zhuo R, Zhao J, Wang H, Sun
F, Zhu Y and Xu D: Study on the mechanism behind lncRNA MEG3
affecting clear cell renal cell carcinoma by regulating
miR-7/RASL11B signaling. J Cell Physiol. 233:9503–9515. 2018.
View Article : Google Scholar : PubMed/NCBI
|
68
|
Wang L, Meng L, Wang XW, Ma GY and Chen
JH: Expression of RRM1 and RRM2 as a novel prognostic marker in
advanced non-small cell lung cancer receiving chemotherapy. Tumour
Biol. 35:1899–1906. 2014. View Article : Google Scholar : PubMed/NCBI
|
69
|
Zhang C, Liu Z, Wang L, Qiao B, Du E, Li
L, Xu Y and Zhang Z: Prognostic significance of GPC5 expression in
patients with prostate cancer. Tumour Biol. 37:6413–6418. 2016.
View Article : Google Scholar : PubMed/NCBI
|
70
|
Yuan S, Yu Z, Liu Q, Zhang M, Xiang Y, Wu
N, Wu L, Hu Z, Xu B, Cai T, et al: GPC5, a novel epigenetically
silenced tumor suppressor, inhibits tumor growth by suppressing
Wnt/β-catenin signaling in lung adenocarcinoma. Oncogene.
35:6120–6131. 2016. View Article : Google Scholar : PubMed/NCBI
|
71
|
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
|