메뉴 건너뛰기




Volumn 31, Issue 2, 2015, Pages 216-224

Translating bioinformatics in oncology: Guilt-by-profiling analysis and identification of KIF18B and CDCA3 as novel driver genes in carcinogenesis

Author keywords

[No Author keywords available]

Indexed keywords

CDCA3 PROTEIN, HUMAN; CELL CYCLE PROTEIN; KIF18B PROTEIN, HUMAN; KINESIN; TUMOR MARKER;

EID: 84928986825     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btu586     Document Type: Article
Times cited : (56)

References (40)
  • 1
    • 77950616980 scopus 로고    scopus 로고
    • Progenitor-derived hepatocellular carcinoma model in the rat
    • Andersen, J.B. et al. (2009) Progenitor-derived hepatocellular carcinoma model in the rat. Hepatology, 51, 1401-1409.
    • (2009) Hepatology , vol.51 , pp. 1401-1409
    • Andersen, J.B.1
  • 2
    • 79953845002 scopus 로고    scopus 로고
    • Genomic signatures of cancer: Basis for individualized risk assessment, selective staging and therapy
    • Baehner, F.L. et al. (2011) Genomic signatures of cancer: basis for individualized risk assessment, selective staging and therapy. J. Surg. Oncol., 103, 563-573.
    • (2011) J. Surg. Oncol. , vol.103 , pp. 563-573
    • Baehner, F.L.1
  • 3
    • 84874271270 scopus 로고    scopus 로고
    • NCBI GEO: Archive for functional genomics data sets-update
    • Barrett, T. et al. (2013) NCBI GEO: archive for functional genomics data sets-update. Nucleic Acids Res., 41, D991-D995.
    • (2013) Nucleic Acids Res. , vol.41 , pp. D991-D995
    • Barrett, T.1
  • 4
    • 2942511670 scopus 로고    scopus 로고
    • PubMatrix: A tool for multiplex literature mining
    • Becker, K.G. et al. (2003) PubMatrix: a tool for multiplex literature mining. BMC Bioinformatics, 4, 61.
    • (2003) BMC Bioinformatics , vol.4 , pp. 61
    • Becker, K.G.1
  • 5
    • 38949147038 scopus 로고    scopus 로고
    • G2 checkpoint abrogation and checkpoint kinase-1 targeting in the treatment of cancer
    • Bucher, N. and Britten, C.D. (2008) G2 checkpoint abrogation and checkpoint kinase-1 targeting in the treatment of cancer. Br. J. Cancer, 98, 523-528.
    • (2008) Br. J. Cancer , vol.98 , pp. 523-528
    • Bucher, N.1    Britten, C.D.2
  • 6
    • 34548499539 scopus 로고    scopus 로고
    • Meta-Analysis of microarray results: Challenges, opportunities, and recommendations for standardization
    • Cahanm, P. et al. (2007) Meta-Analysis of microarray results: challenges, opportunities, and recommendations for standardization. Gene, 401, 12-18.
    • (2007) Gene , vol.401 , pp. 12-18
    • Cahanm, P.1
  • 8
    • 0038365368 scopus 로고    scopus 로고
    • Analysis of microarray data using Z score transformation
    • Cheadle, C. et al. (2003) Analysis of microarray data using Z score transformation. J. Mol. Diagn., 5, 73-81.
    • (2003) J. Mol. Diagn. , vol.5 , pp. 73-81
    • Cheadle, C.1
  • 9
    • 0041358614 scopus 로고    scopus 로고
    • Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages
    • Date, S.V. et al. (2003) Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages. Nat. Biotechnol., 21, 1055-1062.
    • (2003) Nat. Biotechnol. , vol.21 , pp. 1055-1062
    • Date, S.V.1
  • 10
    • 34547871639 scopus 로고    scopus 로고
    • GEOquery: A bridge between the Gene Expression Omnibus (GEO) and BioConductor
    • Davis, S. et al. (2007) GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor. Bioinformatics, 23, 1846-1847.
    • (2007) Bioinformatics , vol.23 , pp. 1846-1847
    • Davis, S.1
  • 11
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genome-wide expression patterns
    • Eisen, M.B. et al. (1998) Cluster analysis and display of genome-wide expression patterns. Proc. Natl Acad. Sci. USA, 95, 14863-14868.
    • (1998) Proc. Natl Acad. Sci. USA , vol.95 , pp. 14863-14868
    • Eisen, M.B.1
  • 12
    • 80155151895 scopus 로고    scopus 로고
    • Combined loss of p21(waf1/cip1) and p27(kip1) enhances tumorigenesis in mice
    • Garcia-Fernandez, R.A. et al. (2011) Combined loss of p21(waf1/cip1) and p27(kip1) enhances tumorigenesis in mice. Lab. Invest., 91, 1634-1642.
    • (2011) Lab. Invest. , vol.91 , pp. 1634-1642
    • Garcia-Fernandez, R.A.1
  • 13
    • 80052849822 scopus 로고    scopus 로고
    • Delayed cell cycle progression from SEPW1 depletion is p53-And p21-dependent in MCF-7 breast cancer cells
    • Hawkes, W.C. and Alkan, Z. (2011) Delayed cell cycle progression from SEPW1 depletion is p53-And p21-dependent in MCF-7 breast cancer cells. Biochem. Biophys. Res. Commun., 413, 36-40.
    • (2011) Biochem. Biophys. Res. Commun. , vol.413 , pp. 36-40
    • Hawkes, W.C.1    Alkan, Z.2
  • 14
    • 0034616930 scopus 로고    scopus 로고
    • Functional discovery via a compendium of expression profiles
    • Hughes, T.R. et al. (2000) Functional discovery via a compendium of expression profiles. Cell, 102, 109-126.
    • (2000) Cell , vol.102 , pp. 109-126
    • Hughes, T.R.1
  • 15
    • 77955657343 scopus 로고    scopus 로고
    • Expectations, validity, and reality in omics
    • Ioannidis, J.P. (2010) Expectations, validity, and reality in omics. J. Clin. Epidemiol., 63, 945-949.
    • (2010) J. Clin. Epidemiol. , vol.63 , pp. 945-949
    • Ioannidis, J.P.1
  • 16
    • 67650874081 scopus 로고    scopus 로고
    • Cancer statistics
    • Jemal, A. et al. (2009) Cancer statistics. CA Cancer J. Clin., 59, 225-249.
    • (2009) CA Cancer J. Clin. , vol.59 , pp. 225-249
    • Jemal, A.1
  • 17
    • 67449143478 scopus 로고    scopus 로고
    • ROC1/RBX1 E3 ubiquitin ligase silencing suppresses tumor cell growth via sequential induction of G2-M arrest, apoptosis, and senescence
    • Jia, L. et al. (2009) ROC1/RBX1 E3 ubiquitin ligase silencing suppresses tumor cell growth via sequential induction of G2-M arrest, apoptosis, and senescence. Cancer Res., 69, 4974-4982.
    • (2009) Cancer Res. , vol.69 , pp. 4974-4982
    • Jia, L.1
  • 18
    • 79959676586 scopus 로고    scopus 로고
    • The functional cancer map: A systems-level synopsis of genetic deregulation in cancer
    • Krupp, M. et al. (2011) The functional cancer map: a systems-level synopsis of genetic deregulation in cancer. BMC Med. Genomics, 4, 53.
    • (2011) BMC Med. Genomics , vol.4 , pp. 53
    • Krupp, M.1
  • 19
    • 0141993691 scopus 로고    scopus 로고
    • Cell cycle control, DNA damage checkpoints and cancer
    • Laiho, M. and Latonen, L. (2003) Cell cycle control, DNA damage checkpoints and cancer. Ann. Med., 35, 391-397.
    • (2003) Ann. Med. , vol.35 , pp. 391-397
    • Laiho, M.1    Latonen, L.2
  • 21
    • 3042514191 scopus 로고    scopus 로고
    • Coexpression analysis of human genes across many micro-Array data sets
    • Lee, H.K. et al. (2004) Coexpression analysis of human genes across many micro-Array data sets. Genome Res., 14, 1085-1094.
    • (2004) Genome Res. , vol.14 , pp. 1085-1094
    • Lee, H.K.1
  • 22
    • 0035044077 scopus 로고    scopus 로고
    • Assessment of prediction accuracy of protein function from protein-protein interaction data
    • Hishigaki, H. et al. (2001) Assessment of prediction accuracy of protein function from protein-protein interaction data. Yeast, 18, 523-531.
    • (2001) Yeast , vol.18 , pp. 523-531
    • Hishigaki, H.1
  • 23
    • 73949092126 scopus 로고    scopus 로고
    • Targeted disruption of S100P suppresses tumor cell growth by down-regulation of cyclin D1 and CDK2 in human hepatocellular carcinoma
    • Kim, J.K. et al. (2009) Targeted disruption of S100P suppresses tumor cell growth by down-regulation of cyclin D1 and CDK2 in human hepatocellular carcinoma. Int. J. Oncol., 35, 1257-1264.
    • (2009) Int. J. Oncol. , vol.35 , pp. 1257-1264
    • Kim, J.K.1
  • 24
    • 83555162579 scopus 로고    scopus 로고
    • Molecular diagnosis and therapy of hepatocellular carcinoma (HCC): An emerging field for advanced technologies
    • Marquardt, J.U. et al. (2012) Molecular diagnosis and therapy of hepatocellular carcinoma (HCC): an emerging field for advanced technologies. J. Hepatol., 56, 267-275.
    • (2012) J. Hepatol. , vol.56 , pp. 267-275
    • Marquardt, J.U.1
  • 25
    • 0034628487 scopus 로고    scopus 로고
    • Guilt-by-Association goes global
    • Oliver, S. (2000) Guilt-by-Association goes global. Nature, 403, 601-603.
    • (2000) Nature , vol.403 , pp. 601-603
    • Oliver, S.1
  • 26
    • 78651284406 scopus 로고    scopus 로고
    • ArrayExpress update-An archive of microarray and high-throughput sequencing-based functional genomics experiments
    • Parkinson, H. et al. (2011) ArrayExpress update-An archive of microarray and high-throughput sequencing-based functional genomics experiments. Nucleic Acids Res., 39, D1002-D1004.
    • (2011) Nucleic Acids Res. , vol.39 , pp. D1002-D1004
    • Parkinson, H.1
  • 27
    • 47549116997 scopus 로고    scopus 로고
    • A critical assessment of Mus musculus gene function prediction using integrated genomic evidence
    • Pena-Castillo, L. et al. (2008) A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biol., 9 (Suppl. 1), S2.
    • (2008) Genome Biol. , vol.9 , pp. S2
    • Pena-Castillo, L.1
  • 28
    • 42949167771 scopus 로고    scopus 로고
    • The GTPase Ran: Regulation of cell life and potential roles in cell transformation
    • Rensen, W.M. et al. (2008) The GTPase Ran: regulation of cell life and potential roles in cell transformation. Front. Biosci., 13, 4097-4121.
    • (2008) Front. Biosci. , vol.13 , pp. 4097-4121
    • Rensen, W.M.1
  • 29
    • 77951679998 scopus 로고    scopus 로고
    • Proliferative suppression by CDK4/6 inhibition: Complex function of the retinoblastoma pathway in liver tissue and hepatoma cells
    • Rivadeneira, D.B. et al. (2010) Proliferative suppression by CDK4/6 inhibition: complex function of the retinoblastoma pathway in liver tissue and hepatoma cells. Gastroenterology, 138, 1920-1930.
    • (2010) Gastroenterology , vol.138 , pp. 1920-1930
    • Rivadeneira, D.B.1
  • 30
    • 78650361904 scopus 로고    scopus 로고
    • A unique metastasis gene signature enables prediction of tumor relapse in early-stage hepatocellular carcinoma patients
    • Roessler, S. et al. (2010) A unique metastasis gene signature enables prediction of tumor relapse in early-stage hepatocellular carcinoma patients. Cancer Res., 70, 10202-10212.
    • (2010) Cancer Res. , vol.70 , pp. 10202-10212
    • Roessler, S.1
  • 31
    • 0035175010 scopus 로고    scopus 로고
    • The Stanford microarray database
    • Sherlock, G. et al. (2001) The Stanford microarray database. Nucleic Acids Res., 29, 152-155.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 152-155
    • Sherlock, G.1
  • 32
    • 84857745267 scopus 로고    scopus 로고
    • Database resources of the National Center for Biotechnology Information
    • Sayers, E.W. et al. (2012) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 40, D13-D25.
    • (2012) Nucleic Acids Res. , vol.40 , pp. D13-D25
    • Sayers, E.W.1
  • 33
    • 0029849620 scopus 로고    scopus 로고
    • Cancer cell cycles
    • Sherr, C.J. (1996) Cancer cell cycles. Science, 274, 1672-1677.
    • (1996) Science , vol.274 , pp. 1672-1677
    • Sherr, C.J.1
  • 34
    • 78649801861 scopus 로고    scopus 로고
    • ICOD: An integrated clinical omics database based on the systems-pathology view of disease
    • Shimokawa, K. et al. (2010) iCOD: an integrated clinical omics database based on the systems-pathology view of disease. BMC Genomics, 11 (Suppl. 4), S19.
    • (2010) BMC Genomics , vol.11 , pp. S19
    • Shimokawa, K.1
  • 35
    • 0037494667 scopus 로고    scopus 로고
    • Gene selection in microarray data: The elephant, the blind men and our algorithms
    • Stolovitzky, G. (2003) Gene selection in microarray data: the elephant, the blind men and our algorithms. Curr. Opin. Struct. Biol., 13, 370-376.
    • (2003) Curr. Opin. Struct. Biol. , vol.13 , pp. 370-376
    • Stolovitzky, G.1
  • 36
    • 0029786304 scopus 로고    scopus 로고
    • Anatomy of TRAF2. Distinct domains for nuclear factor-kappaB activation and association with tumor necrosis factor signaling proteins
    • Takeuchi, M. et al. (1996) Anatomy of TRAF2. Distinct domains for nuclear factor-kappaB activation and association with tumor necrosis factor signaling proteins. J. Biol. Chem., 271, 19935-19942.
    • (1996) J. Biol. Chem. , vol.271 , pp. 19935-19942
    • Takeuchi, M.1
  • 37
    • 83555162577 scopus 로고    scopus 로고
    • Novel insights in the genetics of HCC recurrence and advances in transcriptomic data integration
    • Teufel, A. et al. (2012) Novel insights in the genetics of HCC recurrence and advances in transcriptomic data integration. J. Hepatol., 56, 279-281.
    • (2012) J. Hepatol. , vol.56 , pp. 279-281
    • Teufel, A.1
  • 38
    • 27544435126 scopus 로고    scopus 로고
    • Fast protein classification with multiple networks
    • Tsuda, K. et al. (2005) Fast protein classification with multiple networks. Bioinformatics, 21 (Suppl. 2), ii59-ii65.
    • (2005) Bioinformatics , vol.21 , pp. ii59-ii65
    • Tsuda, K.1
  • 39
    • 25444476441 scopus 로고    scopus 로고
    • Systematic survey reveals general applicability of "guilt-by-Association" within gene coexpression networks
    • Wolfe, C.J. (2005) Systematic survey reveals general applicability of "guilt-by-Association" within gene coexpression networks. BMC Bioinformatics, 6, 227.
    • (2005) BMC Bioinformatics , vol.6 , pp. 227
    • Wolfe, C.J.1
  • 40
    • 0036649020 scopus 로고    scopus 로고
    • Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters
    • Wu, L.F. et al. (2002) Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters. Nat. Genet., 31, 255-265.
    • (2002) Nat. Genet. , vol.31 , pp. 255-265
    • Wu, L.F.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.