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Volumn 137, Issue 1, 2015, Pages 86-95

Comprehensive characterization of the genomic alterations in human gastric cancer

Author keywords

bioinformatics; cancer mutations; gastric cancer; genomic variations; next generation sequencing

Indexed keywords

BACTERIAL DNA; DNA FRAGMENT; MUCIN; MUCIN 12; MUCIN 3A; PROTEIN P53; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR ZNF595; TRANSCRIPTION FACTOR ZNF717; UNCLASSIFIED DRUG; VIRUS DNA;

EID: 84930418404     PISSN: 00207136     EISSN: 10970215     Source Type: Journal    
DOI: 10.1002/ijc.29352     Document Type: Article
Times cited : (58)

References (44)
  • 1
    • 84901677114 scopus 로고    scopus 로고
    • Recurrent gain-of-function mutations of RHOA in diffuse-type gastric carcinoma
    • Kakiuchi M, Nishizawa T, Ueda H, et al. Recurrent gain-of-function mutations of RHOA in diffuse-type gastric carcinoma. Nat Genet 2014; 46: 583-7.
    • (2014) Nat Genet , vol.46 , pp. 583-587
    • Kakiuchi, M.1    Nishizawa, T.2    Ueda, H.3
  • 2
    • 84901680089 scopus 로고    scopus 로고
    • Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer
    • Wang K, Yuen ST, Xu J, et al. Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer. Nat Genet 2014; 46: 573-82.
    • (2014) Nat Genet , vol.46 , pp. 573-582
    • Wang, K.1    Yuen, S.T.2    Xu, J.3
  • 3
    • 82255183148 scopus 로고    scopus 로고
    • Exome sequencing identifies frequent mutation of ARID1A in molecular subtypes of gastric cancer
    • Wang K, Kan J, Yuen ST, et al. Exome sequencing identifies frequent mutation of ARID1A in molecular subtypes of gastric cancer. Nat Genet 2011; 43: 1219-23.
    • (2011) Nat Genet , vol.43 , pp. 1219-1223
    • Wang, K.1    Kan, J.2    Yuen, S.T.3
  • 4
    • 82255192291 scopus 로고    scopus 로고
    • A genome-wide association study identifies new susceptibility loci for non-cardia gastric cancer at 3q13.31 and 5p13.1
    • Shi Y, Hu Z, Wu C, et al. A genome-wide association study identifies new susceptibility loci for non-cardia gastric cancer at 3q13.31 and 5p13.1. Nat Genet 2011; 43: 1215-8.
    • (2011) Nat Genet , vol.43 , pp. 1215-1218
    • Shi, Y.1    Hu, Z.2    Wu, C.3
  • 5
    • 84860327480 scopus 로고    scopus 로고
    • Exome sequencing of gastric adenocarcinoma identifies recurrent somatic mutations in cell adhesion and chromatin remodeling genes
    • Zang ZJ, Cutcutache I, Poon SL, et al. Exome sequencing of gastric adenocarcinoma identifies recurrent somatic mutations in cell adhesion and chromatin remodeling genes. Nat Genet 2012.
    • (2012) Nat Genet
    • Zang, Z.J.1    Cutcutache, I.2    Poon, S.L.3
  • 6
    • 84870875221 scopus 로고    scopus 로고
    • Whole-genome reconstruction and mutational signatures in gastric cancer
    • Nagarajan N, Bertrand D, Hillmer AM, et al. Whole-genome reconstruction and mutational signatures in gastric cancer. Genome Biol 2012; 13: R115.
    • (2012) Genome Biol , vol.13 , pp. R115
    • Nagarajan, N.1    Bertrand, D.2    Hillmer, A.M.3
  • 7
    • 79955555195 scopus 로고    scopus 로고
    • Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes
    • Hillmer AM, Yao F, Inaki K, et al. Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes. Genome Res 2011; 21: 665-75.
    • (2011) Genome Res , vol.21 , pp. 665-675
    • Hillmer, A.M.1    Yao, F.2    Inaki, K.3
  • 8
    • 74949138753 scopus 로고    scopus 로고
    • Human genome sequencing using unchained base reads on self-assembling DNA nanoarrays
    • Drmanac R, Sparks AB, Callow MJ, et al. Human genome sequencing using unchained base reads on self-assembling DNA nanoarrays. Science 2010; 327: 78-81.
    • (2010) Science , vol.327 , pp. 78-81
    • Drmanac, R.1    Sparks, A.B.2    Callow, M.J.3
  • 9
    • 77955405475 scopus 로고    scopus 로고
    • Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor
    • McLaren W, Pritchard B, Rios D, et al. Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor. Bioinformatics 2010; 26: 2069-70.
    • (2010) Bioinformatics , vol.26 , pp. 2069-2070
    • McLaren, W.1    Pritchard, B.2    Rios, D.3
  • 10
    • 84930416067 scopus 로고    scopus 로고
    • UCSC
    • UCSC. http://hgdownload.cse.ucsc.edu/goldenPath/hg19/gc5Base/hg19.gc5Base.txt.gz.
  • 11
    • 34147104969 scopus 로고    scopus 로고
    • A faster circular binary segmentation algorithm for the analysis of array CGH data
    • Venkatraman ES, Olshen AB,. A faster circular binary segmentation algorithm for the analysis of array CGH data. Bioinformatics 2007; 23: 657-63.
    • (2007) Bioinformatics , vol.23 , pp. 657-663
    • Venkatraman, E.S.1    Olshen, A.B.2
  • 12
    • 79952356464 scopus 로고    scopus 로고
    • An integrated transcriptomic and computational analysis for biomarker identification in gastric cancer
    • Cui J, Chen Y, Chou WC, et al. An integrated transcriptomic and computational analysis for biomarker identification in gastric cancer. Nucleic Acids Res 2011; 39: 1197-207.
    • (2011) Nucleic Acids Res , vol.39 , pp. 1197-1207
    • Cui, J.1    Chen, Y.2    Chou, W.C.3
  • 13
    • 79951497419 scopus 로고    scopus 로고
    • The genomic complexity of primary human prostate cancer
    • Berger MF, Lawrence MS, Demichelis F, et al. The genomic complexity of primary human prostate cancer. Nature 2011; 470: 214-20.
    • (2011) Nature , vol.470 , pp. 214-220
    • Berger, M.F.1    Lawrence, M.S.2    Demichelis, F.3
  • 14
    • 77955660663 scopus 로고    scopus 로고
    • Diverse somatic mutation patterns and pathway alterations in human cancers
    • Kan Z, Jaiswal BS, Stinson J, et al. Diverse somatic mutation patterns and pathway alterations in human cancers. Nature 2010; 466: 869-73.
    • (2010) Nature , vol.466 , pp. 869-873
    • Kan, Z.1    Jaiswal, B.S.2    Stinson, J.3
  • 15
    • 74449085934 scopus 로고    scopus 로고
    • A small-cell lung cancer genome with complex signatures of tobacco exposure
    • Pleasance ED, Stephens PJ, O'Meara S, et al. A small-cell lung cancer genome with complex signatures of tobacco exposure. Nature 2010; 463: 184-90.
    • (2010) Nature , vol.463 , pp. 184-190
    • Pleasance, E.D.1    Stephens, P.J.2    O'Meara, S.3
  • 16
    • 74449093973 scopus 로고    scopus 로고
    • A comprehensive catalogue of somatic mutations from a human cancer genome
    • Pleasance ED, Cheetham RK, Stephens PJ, et al. A comprehensive catalogue of somatic mutations from a human cancer genome. Nature 2010; 463: 191-6.
    • (2010) Nature , vol.463 , pp. 191-196
    • Pleasance, E.D.1    Cheetham, R.K.2    Stephens, P.J.3
  • 17
    • 33947101019 scopus 로고    scopus 로고
    • Patterns of somatic mutation in human cancer genomes
    • Greenman C, Stephens P, Smith R, et al. Patterns of somatic mutation in human cancer genomes. Nature 2007; 446: 153-8.
    • (2007) Nature , vol.446 , pp. 153-158
    • Greenman, C.1    Stephens, P.2    Smith, R.3
  • 18
    • 3843084078 scopus 로고    scopus 로고
    • The COSMIC (Catalogue of Somatic Mutations in Cancer) database and website
    • Bamford S, Dawson E, Forbes S, et al. The COSMIC (Catalogue of Somatic Mutations in Cancer) database and website. Br J Cancer 2004; 91: 355-8.
    • (2004) Br J Cancer , vol.91 , pp. 355-358
    • Bamford, S.1    Dawson, E.2    Forbes, S.3
  • 19
    • 0037474527 scopus 로고    scopus 로고
    • A novel zinc finger protein, ZZaPK, interacts with ZAK and stimulates the ZAK-expressing cells re-entering the cell cycle
    • Yang JJ,. A novel zinc finger protein, ZZaPK, interacts with ZAK and stimulates the ZAK-expressing cells re-entering the cell cycle. Biochem Biophys Res Commun 2003; 301: 71-7.
    • (2003) Biochem Biophys Res Commun , vol.301 , pp. 71-77
    • Yang, J.J.1
  • 20
    • 77954156988 scopus 로고    scopus 로고
    • ZAK inhibits human lung cancer cell growth via ERK and JNK activation in an AP-1-dependent manner
    • Yang JJ, Lee YJ, Hung HH, et al. ZAK inhibits human lung cancer cell growth via ERK and JNK activation in an AP-1-dependent manner. Cancer Sci 2010; 101: 1374-81.
    • (2010) Cancer Sci , vol.101 , pp. 1374-1381
    • Yang, J.J.1    Lee, Y.J.2    Hung, H.H.3
  • 21
    • 77950551052 scopus 로고    scopus 로고
    • Quantifying EGFR alterations in the lung cancer genome with nanofluidic digital PCR arrays
    • Wang J, Ramakrishnan R, Tang Z, et al. Quantifying EGFR alterations in the lung cancer genome with nanofluidic digital PCR arrays. Clin Chem 2010; 56: 623-32.
    • (2010) Clin Chem , vol.56 , pp. 623-632
    • Wang, J.1    Ramakrishnan, R.2    Tang, Z.3
  • 22
    • 0032542697 scopus 로고    scopus 로고
    • Abnormalities of fragile histidine triad genomic and complementary DNAs in cervical cancer: Association with human papillomavirus type
    • Muller CY, O'Boyle JD, Fong KM, et al. Abnormalities of fragile histidine triad genomic and complementary DNAs in cervical cancer: association with human papillomavirus type. J Natl Cancer Inst 1998; 90: 433-9.
    • (1998) J Natl Cancer Inst , vol.90 , pp. 433-439
    • Muller, C.Y.1    O'Boyle, J.D.2    Fong, K.M.3
  • 24
    • 59249105978 scopus 로고    scopus 로고
    • A microhomology-mediated break-induced replication model for the origin of human copy number variation
    • Hastings PJ, Ira G, Lupski JR,. A microhomology-mediated break-induced replication model for the origin of human copy number variation. PLoS Genet 2009; 5: e1000327.
    • (2009) PLoS Genet , vol.5 , pp. e1000327
    • Hastings, P.J.1    Ira, G.2    Lupski, J.R.3
  • 25
    • 72949119310 scopus 로고    scopus 로고
    • Complex landscapes of somatic rearrangement in human breast cancer genomes
    • Stephens PJ, McBride DJ, Lin ML, et al. Complex landscapes of somatic rearrangement in human breast cancer genomes. Nature 2009; 462: 1005-10.
    • (2009) Nature , vol.462 , pp. 1005-1010
    • Stephens, P.J.1    McBride, D.J.2    Lin, M.L.3
  • 26
    • 70349873824 scopus 로고    scopus 로고
    • Comprehensive mapping of long-range interactions reveals folding principles of the human genome
    • Lieberman-Aiden E, van Berkum NL, Williams L, et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 2009; 326: 289-93.
    • (2009) Science , vol.326 , pp. 289-293
    • Lieberman-Aiden, E.1    Van Berkum, N.L.2    Williams, L.3
  • 27
    • 84861095603 scopus 로고    scopus 로고
    • Topological domains in mammalian genomes identified by analysis of chromatin interactions
    • Dixon JR, Selvaraj S, Yue F, et al. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 2012; 485: 376-80.
    • (2012) Nature , vol.485 , pp. 376-380
    • Dixon, J.R.1    Selvaraj, S.2    Yue, F.3
  • 28
    • 83255174075 scopus 로고    scopus 로고
    • Genomic rearrangement in three dimensions
    • Hastings PJ, Rosenberg SM,. Genomic rearrangement in three dimensions. Nat Biotechnol 2011; 29: 1096-8.
    • (2011) Nat Biotechnol , vol.29 , pp. 1096-1098
    • Hastings, P.J.1    Rosenberg, S.M.2
  • 30
    • 30144439370 scopus 로고    scopus 로고
    • Common fragile sites
    • Glover TW,. Common fragile sites. Cancer Lett 2006; 232: 4-12.
    • (2006) Cancer Lett , vol.232 , pp. 4-12
    • Glover, T.W.1
  • 31
    • 80052607184 scopus 로고    scopus 로고
    • Carcinogenic bacterial pathogen Helicobacter pylori triggers DNA double-strand breaks and a DNA damage response in its host cells
    • Toller IM, Neelsen KJ, Steger M, et al. Carcinogenic bacterial pathogen Helicobacter pylori triggers DNA double-strand breaks and a DNA damage response in its host cells. Proc Natl Acad Sci USA 2011; 108: 14944-9.
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 14944-14949
    • Toller, I.M.1    Neelsen, K.J.2    Steger, M.3
  • 32
    • 69949170092 scopus 로고    scopus 로고
    • Activation of the PI3K pathway in cancer through inhibition of PTEN by exchange factor P-REX2a
    • Fine B, Hodakoski C, Koujak S, et al. Activation of the PI3K pathway in cancer through inhibition of PTEN by exchange factor P-REX2a. Science 2009; 325: 1261-5.
    • (2009) Science , vol.325 , pp. 1261-1265
    • Fine, B.1    Hodakoski, C.2    Koujak, S.3
  • 33
    • 84861427327 scopus 로고    scopus 로고
    • Melanoma genome sequencing reveals frequent PREX2 mutations
    • Berger MF, Hodis E, Heffernan TP, et al. Melanoma genome sequencing reveals frequent PREX2 mutations. Nature 2012; 485: 502-6.
    • (2012) Nature , vol.485 , pp. 502-506
    • Berger, M.F.1    Hodis, E.2    Heffernan, T.P.3
  • 35
    • 0038322051 scopus 로고    scopus 로고
    • JNK1 physically interacts with WW domain-containing oxidoreductase (WOX1) and inhibits WOX1-mediated apoptosis
    • Chang NS, Doherty J, Ensign A,. JNK1 physically interacts with WW domain-containing oxidoreductase (WOX1) and inhibits WOX1-mediated apoptosis. J Biol Chem 2003; 278: 9195-202.
    • (2003) J Biol Chem , vol.278 , pp. 9195-9202
    • Chang, N.S.1    Doherty, J.2    Ensign, A.3
  • 36
    • 79953231260 scopus 로고    scopus 로고
    • Phosphorylation of the anaphase-promoting complex/Cdc27 is involved in TGF-beta signaling
    • Zhang L, Fujita T, Wu G, et al. Phosphorylation of the anaphase-promoting complex/Cdc27 is involved in TGF-beta signaling. J Biol Chem 2011; 286: 10041-50.
    • (2011) J Biol Chem , vol.286 , pp. 10041-10050
    • Zhang, L.1    Fujita, T.2    Wu, G.3
  • 37
    • 77952718207 scopus 로고    scopus 로고
    • C/EBP{delta} targets cyclin D1 for proteasome-mediated degradation via induction of CDC27/APC3 expression
    • Pawar SA, Sarkar TR, Balamurugan K, et al. C/EBP{delta} targets cyclin D1 for proteasome-mediated degradation via induction of CDC27/APC3 expression. Proc Natl Acad Sci USA 2010; 107: 9210-5.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 9210-9215
    • Pawar, S.A.1    Sarkar, T.R.2    Balamurugan, K.3
  • 39
    • 77955819117 scopus 로고    scopus 로고
    • Significance of mucin expression in pancreatobiliary neoplasms
    • Yonezawa S, Higashi M, Yamada N, et al. Significance of mucin expression in pancreatobiliary neoplasms. J Hepatobiliary Pancreat Sci 2010; 17: 108-24.
    • (2010) J Hepatobiliary Pancreat Sci , vol.17 , pp. 108-124
    • Yonezawa, S.1    Higashi, M.2    Yamada, N.3
  • 40
    • 10644274393 scopus 로고    scopus 로고
    • Effects of pH on Helicobacter pylori binding to human gastric mucins: Identification of binding to non-MUC5AC mucins
    • Linden S, Mahdavi J, Hedenbro J, et al. Effects of pH on Helicobacter pylori binding to human gastric mucins: identification of binding to non-MUC5AC mucins. Biochem J 2004; 384: 263-70.
    • (2004) Biochem J , vol.384 , pp. 263-270
    • Linden, S.1    Mahdavi, J.2    Hedenbro, J.3
  • 41
    • 0034614637 scopus 로고    scopus 로고
    • The hallmarks of cancer
    • Hanahan D, Weinberg RA,. The hallmarks of cancer. Cell 2000; 100: 57-70.
    • (2000) Cell , vol.100 , pp. 57-70
    • Hanahan, D.1    Weinberg, R.A.2
  • 42
    • 84907270779 scopus 로고    scopus 로고
    • Comprehensive molecular characterization of gastric adenocarcinoma
    • Cancer Genome Atlas Research N.
    • Cancer Genome Atlas Research N,. Comprehensive molecular characterization of gastric adenocarcinoma. Nature 2014; 513: 202-9.
    • (2014) Nature , vol.513 , pp. 202-209
  • 43
    • 0034051262 scopus 로고    scopus 로고
    • Helicobacter pylori causes DNA damage in gastric epithelial cells
    • Obst B, Wagner S, Sewing KF, Beil W,. Helicobacter pylori causes DNA damage in gastric epithelial cells. Carcinogenesis 2000; 21: 1111-5.
    • (2000) Carcinogenesis , vol.21 , pp. 1111-1115
    • Obst, B.1    Wagner, S.2    Sewing, K.F.3    Beil, W.4
  • 44
    • 84861902303 scopus 로고    scopus 로고
    • Hypoxia and miscoupling between reduced energy efficiency and signaling to cell proliferation drive cancer to grow increasingly faster
    • Cui J, Mao X, Olman V, et al. Hypoxia and miscoupling between reduced energy efficiency and signaling to cell proliferation drive cancer to grow increasingly faster. J Mol Cell Biol 2012; 4: 174-6.
    • (2012) J Mol Cell Biol , vol.4 , pp. 174-176
    • Cui, J.1    Mao, X.2    Olman, V.3


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