Inferring genomic loss and location of tumor suppressor genes from high density genotypes
Journal de la Société française de statistique, Tome 146 (2005) no. 1-2, pp. 153-171. 
@article{JSFS_2005__146_1-2_153_0,
     author = {Wang, Hui and Lee, Yohan and Nelson, Stanley and Sabatti, Chiara},
     title = {Inferring genomic loss and location of tumor suppressor genes from high density genotypes},
     journal = {Journal de la Soci\'et\'e fran\c{c}aise de statistique},
     pages = {153--171},
     publisher = {Soci\'et\'e fran\c{c}aise de statistique},
     volume = {146},
     number = {1-2},
     year = {2005},
     language = {en},
     url = {http://www.numdam.org/item/JSFS_2005__146_1-2_153_0/}
}
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Wang, Hui; Lee, Yohan; Nelson, Stanley; Sabatti, Chiara. Inferring genomic loss and location of tumor suppressor genes from high density genotypes. Journal de la Société française de statistique, Tome 146 (2005) no. 1-2, pp. 153-171. http://www.numdam.org/item/JSFS_2005__146_1-2_153_0/

Bignell G., Huang J., Greshock J., Watt S., Butler A., West S., Grigorova M., Jones Kw., Wei W., Stratton M., Futreal P., Weber B., Shapero M., Wooster R. (2004). " High-resolution analysis of DNA copy number using oligonucleotide microarrays," Genome Res. 14: 287-95.

Cox C., Bignell G., Greenman C. , Stabenau A., Warren W., Stephens P., Davies H., Watt S., Teague J., Edkins S., Birney E., Easton D., Wooster R., Futreal P., Stratton M. (2005). " A survey of homozygous deletions in human cancer genomes," PNAS 102: 4542-4547.

Durbin E., Eddy S., Krogh A., Mitchinson G. (1999). Biological sequence analysis, Cambridge University Press.

Fridlyand J., Snijders A., Pinkel D., Albertson D., Jain A. (2004). " Hidden Markov models approach to the analysis of array CGH data," Journal of Multivariate Analysis 90: 132-153. | MR | Zbl

Huang J., Wei W., Zhang J., Liu G., Bignell G., Stratton M., Futreal P., Wooster R., Jones K., Shapero M. (2004). " Whole genome DNA copy number changes identified by high density oligonucleotide arrays," Hum. Genomics 1: 287-99.

Iafrate A., Feuk L., Rivera M., Listewnik M., Donahoe P., Qi Y., Scherer Sw, Lee C. (2004). " Detection of large-scale variation in the human genome," Nature Genetics 36: 949-51.

Lai Y., Zhao H. (2005). " A statistical method to detect chromosomal regions with DNA copy number alterations using SNP-array-based CGH data," Comput. Biol Chem. 29: 47-54. | Zbl

Lander E., Kruglyak L. (1995). " Genetic dissection of complex traits: guidelines for interpreting and reporting linkage results," Nature Genetics 11: 241-247.

Leutenegger A., Prum B., Genin E., Verny C. , Lemainque A., Clerget-Darpoux , F., Thompson E. (2003). " Estimation of the inbreeding coefficient through use of genomic data," Am. J. Hum. Genet. 73:516-23.

Lin M., Wei L., Sellers W., Lieberfarb M., Wong W., Li C.(2004). " dChip-SNP: significance curve and clustering of SNP-array-based loss-of-heterozygosity data," Bioinformatics 20: 1233-40.

Lukas J., Parry D., Aagaard L., Mann D. J., Bartkova J., Strauss M., Peters G., Bartek J. (1995). " Retinoblastoma-protein-dependent cell-cycle inhibition by the tumour suppressor p16," Nature 375: 503-506.

Miller B., Wang D., Krahe R., Wright F. (2003). " Pooled analysis of loss of heterozygosity in breast cancer: a genome scan provides comparative evidence for multiple tumor suppressors and identifies novel candidate régions," Am. J. Hum. Genet. 73: 748-67.

Newton M., Lee Y. (2000). " Inferring the location and effect of tumor suppressor genes by instability-selection modeling of allelic-loss data," Biometrics 56: 1088-97. | MR | Zbl

Newton M., Gould M., Reznikoff C., Haag J. (1998). " On the statistical analysis of allelic-loss data," Stat. Med. 17: 1425-45.

Newton M.A. (2002). " Discovering combinations of genomic alterations associated with cancer," Journal of the American Statististical Association 97: 931-942. | MR | Zbl

Olshen A., Venkatraman E., Lucito R., Wigler M. (2004). " Circular binary segmentation for the analysis of array-based DNA copy number data," Biostatistics 5: 557-72. | Zbl

Pinkel D., Segraves R., Sudar D., Clark S., Poole I., Kowbel D., Collins C. , Kuo W., Chen C., Zhai Y., Dairkee S., Ljung B., Gray J., Albertson D. (1998). " High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays," Nature Genetics 20: 207-11.

Pollack J., Sorlie T., Perou C., Rees C. , Jeffrey S., Lonning P., Tibshirani R., Botstein D., Borresen-Dale A., Brown P. (2002). " Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors," Proceedings of the National Academy of Sciences 99: 12963-12968.

Rosenberg N., Calabrese P. (2004). " Polyploid and multilocus extensions of the Wahlund inequality," Theoretical Population Biology 66: 381-391. | Zbl

Sabatti C., Risch N. (2002). " Homozygosity and linkage disequilibrium," Genetics 160: 1707-1719.

Sebat J., Lakshmi B., Troge J., Alexander J., Young, J., Lundin P., Maner S., Massa H., Walker M., Chi M., Navin N., Lucito R., Healy J., Hicks J., Ye K., Reiner A., Gilliam T., Trask B., Patterson N., Zetterberg A., Wigler M. (2004). " Large-scale copy number polymorphism in the human genome," Science 305: 525-8.

Wang H., Service S., Freimer N., Sabatti C. (2005). " Detecting large scale genomic variation through high density SNP genotyping," manuscript in preparation.

Wang P., Kim Y., Pollack J., Narasimhan B., Tibshirani R. (2005). " A method for calling gains and losses in array CGH data," Biostatistics 6: 45-58. | Zbl