Erratum: A statistical method to detect chromosomal regions with DNA copy number alterations using SNP-array-based CGH data (Computational Biology and Chemisty (2005) 29 (47-54) DOI: 10.1016/j.compbiolchem.2004.12.004);A statistical method to detect chromosomal regions with DNA copy number alterations using SNP-array-based CGH data

Computational Biology and Chemistry

Volumn 29, Issue 1, 2005, Pages 47-54

  Lai, Yinglei ^a   Zhao, Hongyu ^b  

^a GEORGE WASHINGTON UNIVERSITY   (United States)

^b YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Comparative genomic hybridization (CGH); Single nucleotide polymorphism (SNP) array; Statistical method

Indexed keywords

DISEASE CONTROL; DISEASES; DNA; GENETIC ENGINEERING; HUMAN ENGINEERING; MARKOV PROCESSES; ONCOLOGY; SIGNAL TO NOISE RATIO; STATISTICAL METHODS;

COMPARATIVE GENOMIC HYBRIDIZATION (CGH); DISEASE ETIOLOGY; FALSE DISCOVERY RATE (FDR); SINGLE NUCLEOTIDE POLYMORPHISM (SNP) ARRAY;

GENES;

EID: 12444275662     PISSN: 14769271     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1476-9271(05)00056-3     Document Type: Erratum

References (25)

1. H.X. An, A. Claas, L. Savelyeva, S. Seitz, P. Schlag, S. Scherneck, and M. Schwab Two regions of deletion in 9p23-24 in sporadic breast cancer Cancer Res. 59 1999 3941 3943
2. R. Autio, S. Hautaniemi, P. Kauraniemi, O. Yli-Harja, J. Astola, M. Wolf, and A. Kallioniemi CGH-plotter: MATLAB toolbox for CGH-data analysis Bioinformatics 19 2003 1714 1715
3. Y. Benjamini, and Y. Hochberg Controlling the false discovery rate: a practical and powerful approach to multiple testing J. Roy. Stat. Soc. Ser. B 57 1995 289 300
4. G.R. Bignell, J. Huang, J. Greshock, S. Watt, A. Butler, S. West, M. Grigorova, K.W. Jones, W. Wei, M.R. Stratton, P.A. Futreal, B. Weber, M.H. Shapero, and R. Wooster High-resolution analysis of DNA copy number using oligonucleotide microarrays Genome Res. 14 2004 287 295
5. L.C. Chen, K. Matsumura, G. Deng, W. Kurisu, B.M. Ljung, M.I. Lerman, F.M. Waldman, and H.S. Smith Deletion of two separate regions on chromosome 3p in breast cancers Cancer Res. 54 1994 3021 3024
6. J. Fridlyand, A.M. Snijders, D. Pinkel, D.G. Albertson, and A.N. Jain Hidden Markov models approach to the analysis of array CGH data J. Multivariate Anal. 90 2004 132 153
7. W.C. Hahn, and R.A. Weinberg Modelling the molecular circuitry of cancer Nat. Rev. Cancer 2 2002 331 341
8. P. Hall, and S.R. Wilson Two guidelines for bootstrap hypothesis testing Biometrics 47 1991 757 762
9. P. Hupé, N. Stransky, J.-P. Thiery, F. Radvanyi, and E. Barillot Analysis of array CGH data: from signal ratio to gain and loss of DNA regions Bioinformatics 20 2004 3413 3422
10. A.S. Ishkanian, C.A. Malloff, S.K. Watson, R.J. deLeeuw, B. Chi, B.P. Coe, A. Snijders, D.G. Albertson, D. Pinkel, and M.A. Marra A tiling resolution DNA microarray with complete coverage of the human genome Nat. Genet. 36 2004 299 303
11. K. Jong, E. Marchiori, G. Meijer, A. van der Vaart, and B. Ylstra Breakpoint identification and smoothing of array comparative genomic hybridization data Bioinformatics 1 2004 1 2
12. A. Kallioniemi, O.-P. Kallioniemi, D. Sudar, D. Rutovitz, J.W. Gray, F. Waldman, and D. Pinkel Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors Science 258 1992 818 821
13. A. Kallioniemi, O.-P. Kallioniemi, J. Piper, M. Tanner, T. Stokke, L. Chen, H.S. Smith, D. Pinkel, J.W. Gray, and F.M. Waldman Detection and mapping of amplified DNA sequences in breast cancer by comparative genomic hybridization Proc. Natl. Acad. Sci. U.S.A. 91 1994 2156 2160
14. L. Kruglyak, and D.A. Nickerson Variation is the spice of life Nat. Genet. 27 2001 234 236
15. C. Li, and W.H. Wong Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection Proc. Natl. Acad. Sci. U.S.A. 98 2001 31 36
16. J. Li, C. Yen, D. Liaw, K. Podsypanina, S. Bose, S.I. Wang, J. Puc, C. Miliaresis, L. Rodgers, and R. McCombie PTEN, a putative protein tyrosine phosphatase gene mutated in human brain, breast, and prostate cancer Science 275 1997 1943 1947
17. C.D. Little, M.M. Nau, D.N. Carney, A.F. Gazdar, and J.D. Minna Amplification and expression of the c-myc oncogene in human lung cancer cell lines Nature 306 1983 194 196
18. S. Matsumoto, F. Kasumi, G. Sakamoto, M. Onda, Y. Nakamura, and M. Emi Detailed deletion mapping of chromosome arm 3p in breast cancers: a 2-cM region on 3p14.3-21.1 and a 5-cM region on 3p24.3-25.1 commonly deleted in tumors Gen. Chromosomes Cancer 20 1997 268 274
19. K. Minobe, M. Onda, A. Iida, F. Kasumi, G. Sakamoto, Y. Nakamura, and M. Emi Allelic loss on chromosome 9q is associated with lymph node metastasis of primary breast cancer Jpn. J. Cancer Res. 89 1998 916 922
20. A.B. Olshen, E.S. Venkatraman, R. Lucito, and M. Wigler Circular binary segmentation for the analysis of array-based DNA copy number data Biostatistics 5 2004 557 572
21. W.A. Palmisano, K.P. Crume, M.J. Grimes, S.A. Winters, M. Toyota, M. Esteller, N. Joste, S.B. Baylin, and S.A. Belinsky Aberrant promoter methylation of the transcription factor genes PAX5 alpha and beta in human cancers Cancer Res. 63 2003 4620 4625
22. J. Wang, L.A. Meza-Zepeda, S.H. Kresse, and O. Myklebost M-CGH: analysing microarray-based CGH experiments BMC Bioinformatics 5 2004 74
23. P. Wang, Y. Kim, J. Pollack, B. Narasimhan, and R. Tibshirani A method for calling gains and losses in array CGH data Biostatistics 6 2005 45 58
24. Q. Yang, G. Yoshimura, I. Mori, T. Sakurai, and K. Kakudo Chromosome 3p and breast cancer J. Hum. Genet. 47 2002 453 459
25. X. Zhao, C. Li, J.G. Paez, K. Chin, P.A. Jänne, T.H. Chen, L. Girard, J. Minna, D. Christiani, and C. Leo An integrated view of copy number and allelic alterations in the cancer genome using single nucleotide polymorphism arrays Cancer Res. 64 2004 3060 3071