|
1
|
Idaghdour Y and Hodgkinson A: Integrated
genomic analysis of mitochondrial RNA processing in human cancers.
Genome Med. 9:362017. View Article : Google Scholar : PubMed/NCBI
|
|
2
|
Wang Z, Choi S, Lee J, Huang YT, Chen F,
Zhao Y, Lin X, Neuberg D, Kim J and Christiani DC: Mitochondrial
variations in non-small cell lung cancer (NSCLC) survival. Cancer
Inform. 14 Suppl 1:S1–S9. 2015.
|
|
3
|
Lee JH, Hwang I, Kang YN, Choi IJ and Kim
DK: Genetic characteristics of mitochondrial DNA was associated
with colorectal carcinogenesis and its prognosis. PLoS One.
10:e01186122015. View Article : Google Scholar : PubMed/NCBI
|
|
4
|
Matsuyama W, Nakagawa M, Wakimoto J,
Hirotsu Y, Kawabata M and Osame M: Mitochondrial DNA mutation
correlates with stage progression and prognosis in non-small cell
lung cancer. Hum Mutat. 21:441–443. 2003. View Article : Google Scholar : PubMed/NCBI
|
|
5
|
Dasgupta S, Soudry E, Mukhopadhyay N, Shao
C, Yee J, Lam S, Lam W, Zhang W, Gazdar AF, Fisher PB and Sidransky
D: Mitochondrial DNA mutations in respiratory complex-I in
never-smoker lung cancer patients contribute to lung cancer
progression and associated with EGFR gene mutation. J Cell Physiol.
227:2451–2460. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
6
|
Hu L, Yao X and Shen Y: Altered
mitochondrial DNA copy number contributes to human cancer risk:
Evidence from an updated meta-analysis. Sci Rep. 6:358592016.
View Article : Google Scholar : PubMed/NCBI
|
|
7
|
Lin C and Lee M: Cancer AB001. Low
mitochondrial DNA copy number is associated with low mitochondrial
DNA integrity and advanced T-status in non- small cell lung cancer.
J Thorac Dis. 9:Suppl 14. 2017. View Article : Google Scholar
|
|
8
|
Yuan Y, Ju YS, Kim Y, et al: Comprehensive
molecular characterization of mitochondrial genomes in human
cancers. bioRxiv: 161356. 2017.
|
|
9
|
Magda D, Lecane P, Prescott J, Thiemann P,
Ma X, Dranchak PK, Toleno DM, Ramaswamy K, Siegmund KD and Hacia
JG: mtDNA depletion confers specific gene expression profiles in
human cells grown in culture and in xenograft. BMC Genomics.
9:5212008. View Article : Google Scholar : PubMed/NCBI
|
|
10
|
Reznik E, Miller ML, Şenbabaoğlu Y, Riaz
N, Sarungbam J, Tickoo SK, Al-Ahmadie HA, Lee W, Seshan VE, Hakimi
AA and Sander C: Mitochondrial DNA copy number variation across
human cancers. Elife. 5:e107692016. View Article : Google Scholar : PubMed/NCBI
|
|
11
|
Reznik E, Wang Q, La K, Schultz N and
Sander C: Mitochondrial respiratory gene expression is suppressed
in many cancers. Elife. 6:e215922017. View Article : Google Scholar : PubMed/NCBI
|
|
12
|
Cheung CHY and Juan HF: Quantitative
proteomics in lung cancer. J Biomed Sci. 24:372017. View Article : Google Scholar : PubMed/NCBI
|
|
13
|
Cancer Genome Atlas Research Network:
Comprehensive molecular profiling of lung adenocarcinoma. Nature.
511:543–550. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
14
|
Cancer Genome Atlas Research Network:
Comprehensive genomic characterization of squamous cell lung
cancers. Nature. 489:519–525. 2012. View Article : Google Scholar : PubMed/NCBI
|
|
15
|
Kandoth C, McLellan MD, Vandin F, Ye K,
Niu B, Lu C, Xie M, Zhang Q, McMichael JF, Wyczalkowski MA, et al:
Mutational landscape and significance across 12 major cancer types.
Nature. 502:333–339. 2013. View Article : Google Scholar : PubMed/NCBI
|
|
16
|
Peng X, Chen Z, Farshidfar F, Xu X,
Lorenzi PL, Wang Y, Cheng F, Tan L, Mojumdar K, Du D, et al:
Molecular characterization and clinical relevance of metabolic
expression subtypes in human cancers. Cell Rep. 23(255–269):
e42018.
|
|
17
|
Liu Z and Zhang S: Tumor characterization
and stratification by integrated molecular profiles reveals
essential pan-cancer features. BMC Genomics. 16:5032015. View Article : Google Scholar : PubMed/NCBI
|
|
18
|
Detterbeck FC, Boffa DJ and Tanoue LT: The
new lung cancer staging system. Chest. 136:260–271. 2009.
View Article : Google Scholar : PubMed/NCBI
|
|
19
|
Chen M, Liu X, Du J, Wang XJ and Xia L:
Differentiated regulation of immune-response related genes between
LUAD and LUSC subtypes of lung cancers. Oncotarget. 8:133–144.
2017.PubMed/NCBI
|
|
20
|
Liu B, Chen Y and Yang J: LncRNAs are
altered in lung squamous cell carcinoma and lung adenocarcinoma.
Oncotarget. 8:24275–24291. 2017.PubMed/NCBI
|
|
21
|
Grossman RL, Heath AP, Ferretti V, Varmus
HE, Lowy DR, Kibbe WA and Staudt LM: Toward a shared vision for
cancer genomic data. N Engl J Med. 375:1109–1112. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
22
|
Brierley JD, Gospodarowicz MK and
Wittekind C: TNM classification of malignant tumours 978. 8th
edition. Wiley-Blackwell; Chichester, West Sussex, UK: pp.
3241–3244. 2017
|
|
23
|
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
|
|
24
|
Rousseeuw PJ: Silhouettes: A graphical aid
to the interpretation and validation of cluster analysis. J Comput
Appl Math. 20:53–65. 1987. View Article : Google Scholar
|
|
25
|
Leng N, Dawson JA, Thomson JA, Ruotti V,
Rissman AI, Smits BM, Haag JD, Gould MN, Stewart RM and Kendziorski
C: EBSeq: An empirical Bayes hierarchical model for inference in
RNA-seq experiments. Bioinformatics. 29:1035–1043. 2013. View Article : Google Scholar : PubMed/NCBI
|
|
26
|
Subramanian A, Tamayo P, Mootha VK,
Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub
TR, Lander ES and Mesirov JP: 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
|
|
27
|
Kanehisa M, Furumichi M, Tanabe M, Sato Y
and Morishima K: KEGG: New perspectives on genomes, pathways,
diseases and drugs. Nucleic Acids Res. 45:D353–D361. 2017.
View Article : Google Scholar : PubMed/NCBI
|
|
28
|
Kanehisa M, Sato Y, Kawashima M, Furumichi
M and Tanabe M: KEGG as a reference resource for gene and protein
annotation. Nucleic Acids Res. 44:D457–D462. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
29
|
MacRae SL, Zhang Q, Lemetre C, Seim I,
Calder RB, Hoeijmakers J, Suh Y, Gladyshev VN, Seluanov A,
Gorbunova V, et al: Comparative analysis of genome maintenance
genes in naked mole rat, mouse, and human. Aging Cell. 14:288–291.
2015. View Article : Google Scholar : PubMed/NCBI
|
|
30
|
Latorre-Pellicer A, Moreno-Loshuertos R,
Lechuga-Vieco AV, Sánchez-Cabo F, Torroja C, Acín-Pérez R, Calvo E,
Aix E, González-Guerra A, Logan A, et al: Mitochondrial and nuclear
DNA matching shapes metabolism and healthy ageing. Nature.
535:561–565. 2016. View Article : Google Scholar : PubMed/NCBI
|
|
31
|
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. The gene
ontology consortium. Nat Genet. 25:25–29. 2000. View Article : Google Scholar : PubMed/NCBI
|
|
32
|
Carbon S, Dietze H, Lewis SE, et al:
Expansion of the gene ontology knowledgebase and resources: The
gene ontology consortium. Nucleic Acids Res. 45:331–338. 2017.
View Article : Google Scholar
|
|
33
|
Newman AM, Liu CL, Green MR, Gentles AJ,
Feng W, Xu Y, Hoang CD, Diehn M and Alizadeh AA: Robust enumeration
of cell subsets from tissue expression profiles. Nat Methods.
12:453–457. 2015. View Article : Google Scholar : PubMed/NCBI
|
|
34
|
Therneau T: A Package for Survival
Analysis in S. version 2.38. 2015. Reference Source. 2016.
|
|
35
|
Team, R. Core, . R: A language and
environment for statistical computing. 2013.
|
|
36
|
Lemarie A and Grimm S: Mitochondrial
respiratory chain complexes: Apoptosis sensors mutated in cancer?
Oncogene. 30:3985–4003. 2011. View Article : Google Scholar : PubMed/NCBI
|
|
37
|
Koshikawa N, Akimoto M, Hayashi JI, Nagase
H and Takenaga K: Association of predicted pathogenic mutations in
mitochondrial ND genes with distant metastasis in NSCLC and colon
cancer. Sci Rep. 7:155352017. View Article : Google Scholar : PubMed/NCBI
|
|
38
|
Singh RK, Saini S, Verma D, Kalaiarasan P
and Bamezai RNK: Mitochondrial ND5 mutation mediated elevated ROS
regulates apoptotic pathway epigenetically in a P53 dependent
manner for generating pro- cancerous phenotypes. Mitochondrion.
35:35–43. 2017. View Article : Google Scholar : PubMed/NCBI
|
|
39
|
DeHaan C, Habibi-Nazhad B, Yan E, Salloum
N, Parliament M and Allalunis-Turner J: Mutation in mitochondrial
complex I ND6 subunit is associated with defective response to
hypoxia in human glioma cells. Mol Cancer. 3:192004. View Article : Google Scholar : PubMed/NCBI
|
|
40
|
Djureinovic D, Hallström BM, Horie M,
Mattsson JS, La Fleur L, Fagerberg L, Brunnström H, Lindskog C,
Madjar K, Rahnenführer J, et al: Profiling cancer testis antigens
in non-small-cell lung cancer. JCI Insight. 1:e868372016.
View Article : Google Scholar : PubMed/NCBI
|
|
41
|
Han SW and Roman J: Targeting apoptotic
signaling pathways in human lung cancer. Curr Cancer Drug Targets.
10:566–574. 2010. View Article : Google Scholar : PubMed/NCBI
|
|
42
|
Viktorsson K and Lewensohn R: Apoptotic
signaling pathways in lung cancer. J Thorac Oncol. 2:175–179. 2007.
View Article : Google Scholar : PubMed/NCBI
|
|
43
|
Hiraoka K, Miyamoto M, Cho Y, Suzuoki M,
Oshikiri T, Nakakubo Y, Itoh T, Ohbuchi T, Kondo S and Katoh H:
Concurrent infiltration by CD8+ T cells and CD4+ T cells is a
favourable prognostic factor in non-small-cell lung carcinoma. Br J
Cancer. 94:275–280. 2006. View Article : Google Scholar : PubMed/NCBI
|
|
44
|
Kim EM, Park JK, Hwang SG, Kim WJ, Liu ZG,
Kang SW and Um HD: Nuclear and cytoplasmic p53 suppress cell
invasion by inhibiting respiratory complex-I activity via Bcl-2
family proteins. Oncotarget. 5:8452–8465. 2014. View Article : Google Scholar : PubMed/NCBI
|
|
45
|
Ishikawa K, Takenaga K, Akimoto M,
Koshikawa N, Yamaguchi A, Imanishi H, Nakada K, Honma Y and Hayashi
J: ROS-generating mitochondrial DNA mutations can regulate tumor
cell metastasis. Science. 320:661–664. 2008. View Article : Google Scholar : PubMed/NCBI
|
|
46
|
Yuan Y, Wang W, Li H, Yu Y, Tao J, Huang S
and Zeng Z: Nonsense and missense mutation of mitochondrial ND6
gene promotes cell migration and invasion in human lung
adenocarcinoma. BMC Cancer. 15:3462015. View Article : Google Scholar : PubMed/NCBI
|
|
47
|
DeNardo DG, Barreto JB, Andreu P, Vasquez
L, Tawfik D, Kolhatkar N and Coussens LM: CD4+T cells regulate
pulmonary metastasis of mammary carcinomas by enhancing protumor
properties of macrophages. Cancer Cell. 16:91–102. 2009. View Article : Google Scholar : PubMed/NCBI
|
|
48
|
Noy R and Pollard JW: Tumor-associated
macrophages: From mechanisms to therapy. Immunity. 41:49–61. 2014.
View Article : Google Scholar : PubMed/NCBI
|
|
49
|
Kataki A, Scheid P, Piet M, Marie B,
Martinet N, Martinet Y and Vignaud JM: Tumor infiltrating
lymphocytes and macrophages have a potential dual role in lung
cancer by supporting both host-defense and tumor progression. J Lab
Clin Med. 140:320–328. 2002. View Article : Google Scholar : PubMed/NCBI
|
|
50
|
Pearce SF, Rebelo-Guiomar P, D'Souza AR,
Powell CA, Van Haute L and Minczuk M: Regulation of mammalian
mitochondrial gene expression: Recent advances. Trends Biochem Sci.
42:625–639. 2017. View Article : Google Scholar : PubMed/NCBI
|
