ICBP - Publications and Software/Materials - Stanford Medical School

ICBP-related publications and materials

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Novel IL-21 signaling pathway upregulates c-Myc and induces apoptosis of diffuse large B-cell lymphoma. Sarosiek A, Malumbres R, Nechushtan H, Gentles AJ, Avisar E, Lossos IS. Blood 2009. In press.

Molecular outcome prediction in diffuse large B-cell lymphoma. Alizadeh AA, Gentles AJ, Lossos IS, Levy R. New Engl J Med 2009. 360:2794.

A pluripotency signature predicts histological transformation and influences survival in follicular lymphoma patients. Gentles AJ, Alizadeh AA, Lee SI, Myklebust JH, Shachaf CM, Shahbaba B, Levy R, Koller D, Plevritis SK. Blood 2009, 114:3158-66.

A Bayesian nonparametric method for model evaluation: application to genetic studies. Shahbaba B, Gentles AJ, Beyen J, Plevritis SK, Greenwood CM. J Nonparam Stat 2009, 21(3): 379-396.

Timing of gene expression responses to environmental changes. Chechik G, Koller D. J Comp Biol 2009, 16(2):279-290.

Simultaneous Class Discovery and Classification of Microarray Data using Spectral Analysis. Qiu P, Plevritis SK. J Comp Biol 2009. 16:935-944.

Temporal changes in gene expression induced by sulforaphane in human prostate cancer cells. Bhamre S, Sahoo D, Tibshirani R, Dill DL, Brooks JD. Prostate 2009, 69(2):181-90.

Learning a prior on regulatory potential from eQTL data. Lee S-I, Dudley AM, Drubin D, Silver NJ, Krogan D, Pe'er D, Koller D. Plos Genet 2009, 5(1): e1000358.

Fast Calculation of Pairwise Mutual Information for Gene Regulatory Network Reconstruction. Peng Q, Gentles AJ, Plevritis SK. Comp Meth Prog Biomed 2009, 94(2):177-180.

Boolean implication networks derived from large scale, whole genome microarray datasets. Sahoo D, Dill DL, Gentles AJ, Tibshirani R, Plevritis SK. Genome Biol 2008. 9:R157.

Genomic and Proteomic Analysis Reveals a Threshold Level of MYC Required for Tumor Maintenance. Shachaf CM, Gentles AJ, Elchuri S, Sahoo D, Soen Y, Sharpe O, Perez OD, Chang M, Mitchel D, Robinson WH, Dill D, Nolan GP, Plevritis SK, Felsher DW. Cancer Res 2008, 68:5132-5142. doi: 10.1158/0008-5472.

Combined analysis of murine and human microarrays and ChIP analysis reveals genes associated with the ability of MYC to maintain tumorigenesis. Wu CH, Sahoo D, Arvanitis C, Bradon N, Dill DL, Felsher DW. PLoS Genet 2008, 4(6):e1000090. doi: 10.1158/0008-5472.

Extracting binary signals from microarray time-course data. Sahoo D, Dill DL, Tibshirani R, Plevritis SK. Nucleic Acids Res 2007, 35(11):3705-12.