|
1
|
Siegel RL, Miller KD, Fedewa SA, Ahnen DJ,
Meester RGS, Barzi A and Jemal A: Colorectal cancer statistics,
2017. CA Cancer J Clin. 67:177–193. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
2
|
Chen W, Zheng R, Baade PD, Zhang S, Zeng
H, Bray F, Jemal A, Yu XQ and He J: Cancer statistics in China,
2015. CA Cancer J Clin. 66:115–132. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
3
|
Popat S, Hubner R and Houlston RS:
Systematic review of microsatellite instability and colorectal
cancer prognosis. J Clin Oncol. 23:609–618. 2005. View Article : Google Scholar : PubMed/NCBI
|
|
4
|
Markowitz SD and Bertagnolli MM: Molecular
origins of cancer: Molecular basis of colorectal cancer. N Engl J
Med. 361:2449–2460. 2009. View Article : Google Scholar : PubMed/NCBI
|
|
5
|
Budinska E, Popovici V, Tejpar S, D'Ario
G, Lapique N, Sikora KO, Di Narzo AF, Yan P, Hodgson JG, Weinrich
S, et al: Gene expression patterns unveil a new level of molecular
heterogeneity in colorectal cancer. J Pathol. 231:63–76. 2013.
View Article : Google Scholar : PubMed/NCBI
|
|
6
|
De Roock W, De Vriendt V, Normanno N,
Ciardiello F and Tejpar S: KRAS, BRAF, PIK3CA, and PTEN mutations:
Implications for targeted therapies in metastatic colorectal
cancer. Lancet Oncol. 12:594–603. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
7
|
Diaz LA Jr and Le DT: PD-1 blockade in
tumors with mismatch-repair deficiency. N Engl J Med. 373:19792015.
View Article : Google Scholar : PubMed/NCBI
|
|
8
|
Benson AB Jr, Venook AP, Cederquist L,
Chan E, Chen YJ, Cooper HS, Deming D, Engstrom PF, Enzinger PC,
Fichera A, et al: Colon cancer, version 1.2017, NCCN clinical
practice guidelines in oncology. J Natl Compr Canc Netw.
15:370–398. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
9
|
Peltomaki P: Role of DNA mismatch repair
defects in the pathogenesis of human cancer. J Clin Oncol.
21:1174–1179. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
10
|
Cottrell S, Bodmer WF, Bicknell D and
Kaklamanis L: Molecular analysis of APC mutations in familial
adenomatous polyposis and sporadic colon carcinomas. Lancet.
340:626–630. 1992. View Article : Google Scholar : PubMed/NCBI
|
|
11
|
Cancer Genome Atlas Network: Comprehensive
molecular characterization of human colon and rectal cancer.
Nature. 487:330–337. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
12
|
de la Chapelle A and Hampel H: Clinical
relevance of microsatellite instability in colorectal cancer. J
Clin Oncol. 28:3380–3087. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
13
|
Aaltonen LA, Salovaara R, Kristo P,
Canzian F, Hemminki A, Peltomäki P, Chadwick RB, Kääriäinen H,
Eskelinen M, Järvinen H, et al: Incidence of hereditary
nonpolyposis colorectal cancer and the feasibility of molecular
screening for the disease. N Engl J Med. 338:1481–1487. 1998.
View Article : Google Scholar : PubMed/NCBI
|
|
14
|
Pinol V, Castells A, Andreu M,
Castellví-Bel S, Alenda C, Llor X, Xicola RM, Rodríguez-Moranta F,
Payá A, Jover R, et al: Accuracy of revised Bethesda guidelines,
microsatellite instability, and immunohistochemistry for the
identification of patients with hereditary nonpolyposis colorectal
cancer. JAMA. 293:1986–1994. 2005. View Article : Google Scholar : PubMed/NCBI
|
|
15
|
Walther A, Houlston R and Tomlinson I:
Association between chromosomal instability and prognosis in
colorectal cancer: A meta-analysis. Gut. 57:941–950. 2008.
View Article : Google Scholar : PubMed/NCBI
|
|
16
|
Ribic CM, Sargent DJ, Moore MJ, Thibodeau
SN, French AJ, Goldberg RM, Hamilton SR, Laurent-Puig P, Gryfe R,
Shepherd LE, et al: Tumor microsatellite-instability status as a
predictor of benefit from fluorouracil-based adjuvant chemotherapy
for colon cancer. N Engl J Med. 349:247–257. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
17
|
Ågesen TH, Berg M, Clancy T, Thiis-Evensen
E, Cekaite L, Lind GE, Nesland JM, Bakka A, Mala T, Hauss HJ, et
al: CLC and IFNAR1 are differentially expressed and a global
immunity score is distinct between early-and late-onset colorectal
cancer. Genes Immun. 12:653–662. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
18
|
Edgar R, Domrachev M and Lash AE: Gene
expression omnibus: NCBI gene expression and hybridization array
data repository. Nucleic Acids Res. 30:207–210. 2002. View Article : Google Scholar : PubMed/NCBI
|
|
19
|
Gröne J, Lenze D, Jurinovic V, Hummel M,
Seidel H, Leder G, Beckmann G, Sommer A, Grützmann R, Pilarsky C,
et al: Molecular profiles and clinical outcome of stage UICC II
colon cancer patients. Int J Colorectal Dis. 26:847–858. 2011.
View Article : Google Scholar : PubMed/NCBI
|
|
20
|
Jorissen RN, Lipton L, Gibbs P, Chapman M,
Desai J, Jones IT, Yeatman TJ, East P, Tomlinson IP, Verspaget HW,
et al: DNA copy-number alterations underlie gene expression
differences between microsatellite stable and unstable colorectal
cancers. Clin Cancer Res. 14:8061–8069. 2008. View Article : Google Scholar : PubMed/NCBI
|
|
21
|
Hugo W, Zaretsky JM, Sun L, Song C, Moreno
BH, Hu-Lieskovan S, Berent-Maoz B, Pang J, Chmielowski B, Cherry G,
et al: Genomic and transcriptomic features of response to anti-PD-1
therapy in metastatic melanoma. Cell. 165:35–44. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
22
|
Davis S and Meltzer PS: GEOquery: A bridge
between the gene expression omnibus (GEO) and BioConductor.
Bioinformatics. 23:1846–1847. 2007. View Article : Google Scholar : PubMed/NCBI
|
|
23
|
Pathan M, Keerthikumar S, Ang CS, Gangoda
L, Quek CY, Williamson NA, Mouradov D, Sieber OM, Simpson RJ, Salim
A, et al: FunRich: An open access standalone functional enrichment
and interaction network analysis tool. Proteomics. 15:2597–2601.
2015. View Article : Google Scholar : PubMed/NCBI
|
|
24
|
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
|
|
25
|
Ashburner M, Ball CA, Blake JA, Botstein
D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT,
et al: Gene ontology: Tool for the unification of biology. Nat
Genet. 25:25–29. 2000. View
Article : Google Scholar : PubMed/NCBI
|
|
26
|
Kanehisa M and Goto S: KEGG: Kyoto
encyclopedia of genes and genomes. Nucleic Acids Res. 28:27–30.
2000. View Article : Google Scholar : PubMed/NCBI
|
|
27
|
Warde-Farley D, Donaldson SL, Comes O,
Zuberi K, Badrawi R, Chao P, Franz M, Grouios C, Kazi F, Lopes CT,
et al: The GeneMANIA prediction server: Biological network
integration for gene prioritization and predicting gene function.
Nucleic Acids Res. 38 Suppl_2:W214–W220. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
28
|
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
|
|
29
|
Bader GD and Hogue CW: An automated method
for finding molecular complexes in large protein interaction
networks. BMC Bioinform. 4:22003. View Article : Google Scholar
|
|
30
|
Szklarczyk D, Franceschini A, Wyder S,
Forslund K, Heller D, Huerta-Cepas J, Simonovic M, Roth A, Santos
A, Tsafou KP, et al: STRING v10: Protein–protein interaction
networks, integrated over the tree of life. Nucleic Acids Res.
43:D447–D452. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
31
|
Subramanian A, Tamayo P, Mootha VK,
Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub
TR, Lander ES, et al: Gene set enrichment analysis: A
knowledge-based approach for interpreting genome-wide expression
profiles. Proc Natl Acad Sci USA. 102:15545–15550. 2005. View Article : Google Scholar : PubMed/NCBI
|
|
32
|
Langfelder P and Horvath S: WGCNA: An R
package for weighted correlation network analysis. BMC
Bioinformatics. 9:5592008. View Article : Google Scholar : PubMed/NCBI
|
|
33
|
Zhang B and Horvath S: A general framework
for weighted gene co-expression network analysis. Stat Appl Genet
Mol Boil. Aug 12–2005.(Epub ahead of print). View Article : Google Scholar
|
|
34
|
Mizuno H, Kitada K, Nakai K and Sarai A:
PrognoScan: A new database for meta-analysis of the prognostic
value of genes. BMC Med Genomics. 2:182009. View Article : Google Scholar : PubMed/NCBI
|
|
35
|
Abraham RT and Gibbons JJ: The mammalian
target of rapamycin signaling pathway: Twists and turns in the road
to cancer therapy. Clin Cancer Res. 13:3109–3114. 2007. View Article : Google Scholar : PubMed/NCBI
|
|
36
|
Han JM, Jeong SJ, Park MC, Kim G, Kwon NH,
Kim HK, Ha SH, Ryu SH and Kim S: Leucyl-tRNA synthetase is an
intracellular leucine sensor for the mTORC1-signaling pathway.
Cell. 149:410–424. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
37
|
Fingar DC and Blenis J: Target of
rapamycin (TOR): An integrator of nutrient and growth factor
signals and coordinator of cell growth and cell cycle progression.
Oncogene. 23:3151–3171. 2004. View Article : Google Scholar : PubMed/NCBI
|
|
38
|
Choi MR, Yoo NJ, An CH and Lee SH:
Frameshift mutations in mammalian target of rapamycin pathway genes
and their regional heterogeneity in sporadic colorectal cancers.
Hum Pathol. 46:753–760. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
39
|
Lin EI, Tseng LH, Gocke CD, Reil S, Le DT,
Azad NS and Eshleman JR: Mutational profiling of colorectal cancers
with microsatellite instability. Oncotarget. 6:42334–42344. 2015.
View Article : Google Scholar : PubMed/NCBI
|
|
40
|
Laity JH, Lee BM and Wright PE: Zinc
finger proteins: New insights into structural and functional
diversity. Curr Opin Struct Boil. 11:39–46. 2001. View Article : Google Scholar
|
|
41
|
Kothe U: Recent progress on understanding
ribosomal protein synthesis. Comprehensive Natural Products II
Chemistry and Biology, Section Amino Acids, Peptides and Proteins
(Oxford). Elsevier. 2010.
|
|
42
|
Nieminen TT, O'Donohue MF, Wu Y, Lohi H,
Scherer SW, Paterson AD, Ellonen P, Abdel-Rahman WM, Valo S,
Mecklin JP, et al: Germline mutation of RPS20, encoding a ribosomal
protein, causes predisposition to hereditary nonpolyposis
colorectal carcinoma without DNA mismatch repair deficiency.
Gastroenterology. 147:595–598.e5. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
43
|
Longley DB, Harkin DP and Johnston PG:
5-fluorouracil: Mechanisms of action and clinical strategies. Nat
Rev Cancer. 3:330–338. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
44
|
Kurland CG and Maaløe O: Regulation of
ribosomal and transfer RNA synthesis. J Mol Boil. 4:193–210. 1962.
View Article : Google Scholar
|
|
45
|
Timmermann B, Kerick M, Roehr C, Fischer
A, Isau M, Boerno ST, Wunderlich A, Barmeyer C, Seemann P, Koenig
J, et al: Somatic mutation profiles of MSI and MSS colorectal
cancer identified by whole exome next generation sequencing and
bioinformatics analysis. PLoS One. 5:e156612010. View Article : Google Scholar : PubMed/NCBI
|
|
46
|
De Sousa E, Melo F, Wang X, Jansen M,
Fessler E, Trinh A, de Rooij LP, de Jong JH, de Boer OJ, van
Leersum R, Bijlsma MF, et al: Poor-prognosis colon cancer is
defined by a molecularly distinct subtype and develops from
serrated precursor lesions. Nat Med. 19:614–618. 2013. View Article : Google Scholar : PubMed/NCBI
|
