|
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
|
Ferlay J, Soerjomataram I, Dikshit R, Eser
S, Mathers C, Rebelo M, Parkin DM, Forman D and Bray F: Cancer
incidence and mortality worldwide: Sources, methods and major
patterns in GLOBOCAN 2012. Int J Cancer. 136:E359–E386. 2015.
View Article : Google Scholar : PubMed/NCBI
|
|
3
|
Karimi P, Islami F, Anandasabapathy S,
Freedman ND and Kamangar F: Gastric cancer: Descriptive
epidemiology, risk factors, screening, and prevention. Cancer
Epidemiol Biomarkers Prev. 23:700–713. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
4
|
Yook SH, Oltvai ZN and Barabási AL:
Functional and topological characterization of protein interaction
networks. Proteomics. 4:928–942. 2004. View Article : Google Scholar : PubMed/NCBI
|
|
5
|
Barabási AL and Oltvai ZN: Network
biology: Understanding the cell's functional organization. Nat Rev
Genet. 5:101–113. 2004. View
Article : Google Scholar : PubMed/NCBI
|
|
6
|
Røsok Ø and Sioud M: Discovery of
differentially expressed genes: Technical considerations. Methods
Mol Biol. 360:115–129. 2007.PubMed/NCBI
|
|
7
|
Zhang B and Horvath S: A general framework
for weighted gene co-expression network analysis. Stat Appl Genet
Mol Biol. 4:Article172005. View Article : Google Scholar : PubMed/NCBI
|
|
8
|
Tian F, Zhao J, Fan X and Kang Z: Weighted
gene co-expression network analysis in identification of
metastasis-related genes of lung squamous cell carcinoma based on
the Cancer Genome Atlas database. J Thorac Dis. 9:42–53. 2017.
View Article : Google Scholar : PubMed/NCBI
|
|
9
|
Sun Q, Zhao H, Zhang C, Hu T, Wu J, Lin X,
Luo D, Wang C, Meng L, Xi L, et al: Gene co-expression network
reveals shared modules predictive of stage and grade in serous
ovarian cancers. Oncotarget. 8:42983–42996. 2017.PubMed/NCBI
|
|
10
|
Oldham MC, Horvath S and Geschwind DH:
Conservation and evolution of gene coexpression networks in human
and chimpanzee brains. Proc Natl Acad Sci USA. 103:17973–17978.
2006. View Article : Google Scholar : PubMed/NCBI
|
|
11
|
Miller JA, Horvath S and Geschwind DH:
Divergence of human and mouse brain transcriptome highlights
Alzheimer disease pathways. Proc Natl Acad Sci USA.
107:12698–12703. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
12
|
Ritchie ME, Phipson B, Wu D, Hu Y, Law CW,
Shi W and Smyth GK: limma powers differential expression analyses
for RNA-sequencing and microarray studies. Nucleic Acids Res.
43:e472015. View Article : Google Scholar : PubMed/NCBI
|
|
13
|
Langfelder P and Horvath S: WGC NA An R
package for weighted correlation network analysis. BMC
Bioinformatics. 9:5592008. View Article : Google Scholar : PubMed/NCBI
|
|
14
|
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
|
|
15
|
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
|
|
16
|
Bindea G, Mlecnik B, Hackl H, Charoentong
P, Tosolini M, Kirilovsky A, Fridman WH, Pagès F, Trajanoski Z and
Galon J: ClueGO: A Cytoscape plug-in to decipher functionally
grouped gene ontology and pathway annotation networks.
Bioinformatics. 25:1091–1093. 2009. View Article : Google Scholar : PubMed/NCBI
|
|
17
|
Szász AM, Lánczky A, Nagy Á, Förster S,
Hark K, Green JE, Boussioutas A, Busuttil R, Szabó A and Győrffy B:
Cross-validation of survival associated biomarkers in gastric
cancer using transcriptomic data of 1,065 patients. Oncotarget.
7:49322–49333. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
18
|
Han L, Diao L, Yu S, Xu X, Li J, Zhang R,
Yang Y, Werner HMJ, Eterovic AK, Yuan Y, et al: The genomic
landscape and clinical relevance of A-to-I RNA editing in human
cancers. Cancer Cell. 28:515–528. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
19
|
Chen Y, Zhu J, Lum PY, Yang X, Pinto S,
MacNeil DJ, Zhang C, Lamb J, Edwards S, Sieberts SK, et al:
Variations in DNA elucidate molecular networks that cause disease.
Nature. 452:429–435. 2008. View Article : Google Scholar : PubMed/NCBI
|
|
20
|
Eke I and Cordes N: Focal adhesion
signaling and therapy resistance in cancer. Semin Cancer Biol.
31:65–75. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
21
|
Cortesio CL, Boateng LR, Piazza TM, Bennin
DA and Huttenlocher A: Calpain-mediated proteolysis of paxillin
negatively regulates focal adhesion dynamics and cell migration. J
Biol Chem. 286:9998–10006. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
22
|
Cichon MA and Radisky DC: Extracellular
matrix as a contextual determinant of transforming growth factor-β
signaling in epithelial-mesenchymal transition and in cancer. Cell
Adh Migr. 8:588–594. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
23
|
Park J, Lee J, Kang W, Chang S, Shin EC
and Choi C: TG F-β1 and hypoxia-dependent expression of MKP-1 leads
tumor resistance to death receptor-mediated cell death. Cell Death
Dis. 4:e5212013. View Article : Google Scholar : PubMed/NCBI
|
|
24
|
Knappskog S and Lønning PE: P53 and its
molecular basis to chemoresistance in breast cancer. Expert Opin
Ther Targets. 16((Suppl 1)): S23–S30. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
25
|
Yang Y, Han L, Yuan Y, Li J, Hei N and
Liang H: Gene co-expression network analysis reveals common
system-level properties of prognostic genes across cancer types.
Nat Commun. 5:32312014. View Article : Google Scholar : PubMed/NCBI
|
|
26
|
Lichti-Kaiser K, ZeRuth G, Kang HS,
Vasanth S and Jetten AM: Gli-similar proteins: Their mechanisms of
action, physiological functions, and roles in disease. Vitam Horm.
88:141–171. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
27
|
Thirant C, Ignacimouttou C, Lopez CK, Diop
M, Le Mouël L, Thiollier C, Siret A, Dessen P, Aid Z, Rivière J, et
al: ETO2-GLIS2 hijacks transcriptional complexes to drive cellular
identity and self-renewal in pediatric acute megakaryoblastic
leukemia. Cancer Cell. 31:452–465. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
28
|
Thirant C, Lopez C, Malinge S and Mercher
T: Molecular pathways driven by ETO2-GLIS2 in aggressive pediatric
leukemia. Mol Cell Oncol. 4:e13453512017. View Article : Google Scholar : PubMed/NCBI
|
|
29
|
Guerra E, Trerotola M, Aloisi AL, Tripaldi
R, Vacca G, La Sorda R, Lattanzio R, Piantelli M and Alberti S: The
Trop-2 signalling network in cancer growth. Oncogene. 32:1594–1600.
2013. View Article : Google Scholar : PubMed/NCBI
|
|
30
|
Li F, Zhang J, Arfuso F, Chinnathambi A,
Zayed ME, Alharbi SA, Kumar AP, Ahn KS and Sethi G: NF-κB in cancer
therapy. Arch Toxicol. 89:711–731. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
31
|
Sewify EM, Afifi OA, Mosad E, Zaki AH and
El Gammal SA: Cyclin D1 amplification in multiple myeloma is
associated with multidrug resistance expression. Clin Lymphoma
Myeloma Leuk. 14:215–222. 2014. View Article : Google Scholar : PubMed/NCBI
|
