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The Stability of Gene Selection in Microarray Experiments


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Aerts, S., Lambrechts, D., Maity, S., Van Loo, P., Coessens, B., De Smet, F., Tranchevent, L. C., De Moor, B., Marynen, P., Hassan, B., Carmeliet, P., & Moreau, Y. (2006). Gene prioritization through genomic data fusion. Nat Biotechnol, 24, 537-544.10.1038/nbt1203Search in Google Scholar

Boulesteix, A. L., & Slawski, M. (2009). Stability and aggregation of ranked gene lists. Brief Bioinformatics, 10, 556-568.10.1093/bib/bbp034Search in Google Scholar

Boulesteix, A. L., Strobl, C., Augustin, T., & Daumer, M. (2008). Evaluating Microarray-based Classifiers: An Overview. Cancer Informatics, 6, 77-97.10.4137/CIN.S408Search in Google Scholar

Chen, C., Mendez, E., Houck, J., Fan,W., Lohavanichbutr, P., Doody, D., Yueh, B., Futran, N. D., Upton, M., Farwell, D. G., Schwartz, S. M., & Zhao, L. P. (2008). Gene expression profiling identifies genes predictive of oral squamous cell carcinoma. Cancer Epidemiol Biomarkers Prev, 17(8), 2152-2162.10.1158/1055-9965.EPI-07-2893Search in Google Scholar

Efron, B., & Tibshirani, R. (2002). Empirical bayes methods and false discovery rates for microarrays. Genet Epidemiol, 23, 70-86.10.1002/gepi.1124Search in Google Scholar

Irizarry, R. A.,Warren, D., Spencer, F., Kim, I. F., Biswal, S., Frank, B. C., Gabrielson, E., Garcia, J. G., Geoghegan, J., Germino, G., Griffin, C., Hilmer, S. C., Hoffman, E., Jedlicka, A. E., Kawasaki, E., Martinez-Murillo, F., Morsberger, L., Lee, H., Petersen, D., Quackenbush, J., Scott, A., Wilson, M., Yang, Y., Ye, S. Q., & Yu, W. (2005). Multiple-laboratory comparison of microarray platforms. Nat Methods, 2, 345-350.10.1038/nmeth756Search in Google Scholar

Mas, V. R., Maluf, D. G., Archer, K. J., Yanek, K., Kong, X., Kulik, L., Freise, C. E., Olthoff, K. M., Ghobrial, R. M., McIver, P., & Fisher, R. A. (2009). Genes involved in viral carcinogenesis and tumor initiation in hepatitis C virus-induced hepatocellular carcinoma. Mol Med, 15(3-4), 85-94.10.2119/molmed.2008.00110Search in Google Scholar

Public Repository ArrayExpress. (2013). Transcription profiling by array of whole blood samples from colorectal cancer patients and healthy individuals, accession number E-MTAB-1532. Retrieved from http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1532/.Search in Google Scholar

Public Repository Gene Expression Omnibus. (2009). RMA expression data for liver samples from subjects with HCV, HCV-HCC, or normal liver, accession number GSE1423. Retrieved from http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14323.Search in Google Scholar

Public Repository Gene Expression Omnibus. (2011). Gene expression profiling of oral squamous cell carcinoma (OSCC), accession number GSE30784. Retrieved from http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30784.Search in Google Scholar

Smyth, G. K. (2004). Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol, 3(1). DOI: 10.2202/1544-6115.1027.10.2202/1544-6115.1027Search in Google Scholar

Tusher, V. G., Tibshirani, R., & Chu, G. (2001). Significance analysis of microarrays applied to the ionizing radiation response. PNAS, 98(9), 5116-5121.10.1073/pnas.091062498Search in Google Scholar

Van Sanden, S., Lin, D., & Burzykowski, T. (2008). Performance of gene selection and classification methods in a microarray setting: A simulation study. Communications in Statistics - Simulation and Computation, 37(2), 409-424.10.1080/03610910701792554Search in Google Scholar

Xu, Y., Xu, Q., Yang, L., Ye, X., Liu, F., Wu, F., Ni, S., Tan, C., Cai, G., Meng, X., Cai, S., & Du, X. (2013). Identification and Validation of a Blood-Based 18- Gene Expression Signature in Colorectal Cancer. Clin Cancer Res, 19(11), 3039-3049.10.1158/1078-0432.CCR-12-3851Search in Google Scholar

Zhang, M., Zhang, L., Zou, J., Yao, Ch., Xiao, H., Liu, Q., Wang, J., Wang, D., Wang, Ch., & Guo, Z. (2009). Evaluating reproducibility of differential expression discoveries in microarray studies by considering correlatedmolecular changes. Bioinformatics, 25(13), 1662-1668. 10.1093/bioinformatics/btp295Search in Google Scholar

eISSN:
0860-150X
Język:
Angielski
Częstotliwość wydawania:
4 razy w roku
Dziedziny czasopisma:
Philosophy, other