Sparse Matrix References

• Special issue on "High Dimensional Inference and Random Matrices." Ann Statist 36(6). [Issue]
• Emmanuel Candes (see L1 Magic links to other people & papers)
• Systems Biology: Networks workshop information
• Yandell list of network pubs and software
• Yandell eQTL References
• Other Yandell Statistical Genomics References

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• Bickel PJ, Levina E (2008) Covariance regularization by thresholding. The Annals of Statistics 36: 2577-2604. [doi:10.1214/08-AOS600]
• Bühlmann P, Kalisch M, Maathuis MH (2009) Variable selection in high-dimensional linear models: partially faithful distributions and the PC-simple algorithm. [http://arxiv.org/abs/0906.3204]

• Candes EJ, Romberg J, Tao T (2006) Robust uncertainty principles: exact signal reconstruction from highly incomplete frequency information. IEEE Transactions on Information Theory 52: 489-509. [doi:10.1109/TIT.2005.862083]
• Candes EJ, Tao T (2006) Near-Optimal Signal Recovery From Random Projections: Universal Encoding Strategies? IEEE Transactions on Information Theory 52: 5406-5425. [doi:10.1109/TIT.2006.885507]
• Candes E, Tao T (2007) The Dantzig selector: Statistical estimation when p is much larger than n. The Annals of Statistics 35: 2313-2351. [doi:10.1214/009053606000001523 | http://projecteuclid.org/euclid.aos/1201012955]

• Dittrich MT, Klau GW, Rosenwald A, Dandekar T, Muller T (2008) Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics 24: i223-i231. [doi:10.1093/bioinformatics/btn161 | http://www.planet-lisa.net/]
• Donoho DL (2006) Compressed sensing. IEEE Transactions on Information Theory 52: 1289-1306. [doi:10.1109/TIT.2006.871582]

• Haupt J, Nowak R (2006) Signal Reconstruction From Noisy Random Projections. IEEE Transactions on Information Theory 52: 4036-4048. [doi:10.1109/TIT.2006.880031]

• James GM, Radchenko P, Lv J (2008) DASSO: connections between the Dantzig selector and lasso. Journal of the Royal Statistical Society: Series B (Statistical Methodology) 71: 127-142. [doi:10.1111/j.1467-9868.2008.00668.x]

• Le Cao KA, Rossouw D, Robert-Granie C, Besse P (2008) A sparse PLS for variable selection when integrating omics data. Statistical applications in genetics and molecular biology 7: Article 35. [doi:10.2202/1544-6115.1390]
• Ledoit O (2004) A well-conditioned estimator for large-dimensional covariance matrices. Journal of Multivariate Analysis 88: 365-411. [doi:10.1016/S0047-259X(03)00096-4]

• Maathuis MH, Kalisch M, Bühlmann P (2009) Estimating high-dimensional intervention effects from observational data. Annals of Statistics 37: 3133-3164. [doi:10.1214/09-AOS685]

• Parkhomenko E, Tritchler D, Beyene J (2009) Sparse Canonical Correlation Analysis with Application to Genomic Data Integration. Statistical applications in genetics and molecular biology 8: Article1. [doi:10.2202/1544-6115.1406]
• Pollard KS, van der Laan MJ (2008) Supervised distance matrices. Statistical applications in genetics and molecular biology 7: Article 33. [doi:10.2202/1544-6115.1404]

• Rockman MV (2008) Reverse engineering the genotype-phenotype map with natural genetic variation. Nature 456: 738-744. [doi:10.1038/nature07633]

• Sachs K, Perez O, Pe'er D, Lauffenburger DA, Nolan GP (2005) Causal protein-signaling networks derived from multiparameter single-cell data. Science 308: 523-529. [doi:10.1126/science.1105809]
• Seaton G (2002) QTL Express: mapping quantitative trait loci in simple and complex pedigrees. Bioinformatics 18: 339-340. [doi:10.1093/bioinformatics/18.2.339 | http://qtl.cap.ed.ac.uk]
• Shabalin AA, Weigman VJ, Perou CM, Nobel AB (2009) Finding large average submatrices in high dimensional matrices. Annals of Applied Statistics 00: 000. [http://www.unc.edu/~nobel/nobel/links/Papers/LASpaperP.pdf | https://genome.unc.edu/las/]

• Wu MC, Zhang L, Wang Z, Christiani DC, Lin X (2009) Sparse linear discriminant analysis for simultaneous testing for the significance of a gene set/pathway and gene selection. Bioinformatics 25: 1145-1151. [doi:10.1093/bioinformatics/btp019]

• Zhu J, Zhang B, Smith EN, Drees B, Brem RB, Kruglyak L, Bumgarner RE, Schadt EE (2008) Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nature Genetics 40: 854-861. [doi:10.1038/ng.167]

Last modified: Mon Jul 26 11:57:28 2010 by Brian S. Yandell