Published in Biostatistics on December 18, 2007
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Biclustering microarray data by Gibbs sampling. Bioinformatics (2003) 1.82
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Repeated observation of breast tumor subtypes in independent gene expression data sets. Proc Natl Acad Sci U S A (2003) 34.68
Sparse inverse covariance estimation with the graphical lasso. Biostatistics (2007) 24.38
Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors. Proc Natl Acad Sci U S A (2002) 12.68
Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc Natl Acad Sci U S A (2004) 10.99
Robustness, scalability, and integration of a wound-response gene expression signature in predicting breast cancer survival. Proc Natl Acad Sci U S A (2005) 10.85
Empirical bayes methods and false discovery rates for microarrays. Genet Epidemiol (2002) 10.56
Use of gene-expression profiling to identify prognostic subclasses in adult acute myeloid leukemia. N Engl J Med (2004) 9.81
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Semi-supervised methods to predict patient survival from gene expression data. PLoS Biol (2004) 7.68
Classification and prediction of clinical Alzheimer's diagnosis based on plasma signaling proteins. Nat Med (2007) 6.80
Comment on "The consensus coding sequences of human breast and colorectal cancers". Science (2007) 5.88
Distinct patterns of DNA copy number alteration are associated with different clinicopathological features and gene-expression subtypes of breast cancer. Genes Chromosomes Cancer (2006) 5.39
Cell type-specific gene expression differences in complex tissues. Nat Methods (2010) 4.75
Statistical methods for identifying differentially expressed genes in DNA microarrays. Methods Mol Biol (2003) 4.28
Regularized linear discriminant analysis and its application in microarrays. Biostatistics (2006) 3.66
A framework for feature selection in clustering. J Am Stat Assoc (2010) 3.46
Finding consistent patterns: a nonparametric approach for identifying differential expression in RNA-Seq data. Stat Methods Med Res (2011) 3.44
Covariance-regularized regression and classification for high-dimensional problems. J R Stat Soc Series B Stat Methodol (2009) 3.31
Transcriptional programs activated by exposure of human prostate cancer cells to androgen. Genome Biol (2002) 2.87
A network model of a cooperative genetic landscape in brain tumors. JAMA (2009) 2.86
A method for calling gains and losses in array CGH data. Biostatistics (2005) 2.86
Genome-wide measurement of RNA folding energies. Mol Cell (2012) 2.85
Gene expression profiling predicts survival in conventional renal cell carcinoma. PLoS Med (2005) 2.56
Gene expression patterns in ovarian carcinomas. Mol Biol Cell (2003) 2.55
Spectral Regularization Algorithms for Learning Large Incomplete Matrices. J Mach Learn Res (2010) 2.45
Normalization, testing, and false discovery rate estimation for RNA-sequencing data. Biostatistics (2011) 2.36
Differentiation stage-specific expression of microRNAs in B lymphocytes and diffuse large B-cell lymphomas. Blood (2008) 2.36
Array-based comparative genomic hybridization identifies localized DNA amplifications and homozygous deletions in pancreatic cancer. Neoplasia (2005) 2.35
Are clusters found in one dataset present in another dataset? Biostatistics (2006) 2.33
Notch signals positively regulate activity of the mTOR pathway in T-cell acute lymphoblastic leukemia. Blood (2007) 2.29
Transcriptional profiling of long non-coding RNAs and novel transcribed regions across a diverse panel of archived human cancers. Genome Biol (2012) 2.12
Averaged gene expressions for regression. Biostatistics (2006) 2.03
Global transcriptional response to interferon is a determinant of HCV treatment outcome and is modified by race. Hepatology (2006) 2.03
Early detection of breast cancer based on gene-expression patterns in peripheral blood cells. Breast Cancer Res (2005) 2.00
Disease signatures are robust across tissues and experiments. Mol Syst Biol (2009) 1.93
3'-end sequencing for expression quantification (3SEQ) from archival tumor samples. PLoS One (2010) 1.91
Boolean implication networks derived from large scale, whole genome microarray datasets. Genome Biol (2008) 1.91
A tail strength measure for assessing the overall univariate significance in a dataset. Biostatistics (2005) 1.90
LMO2 protein expression predicts survival in patients with diffuse large B-cell lymphoma treated with anthracycline-based chemotherapy with and without rituximab. J Clin Oncol (2007) 1.88
Discovery and validation of breast cancer subtypes. BMC Genomics (2006) 1.83
Ultra-high throughput sequencing-based small RNA discovery and discrete statistical biomarker analysis in a collection of cervical tumours and matched controls. BMC Biol (2010) 1.80
The 'miss rate' for the analysis of gene expression data. Biostatistics (2005) 1.71
An evaluation of tumor oxygenation and gene expression in patients with early stage non-small cell lung cancers. Clin Cancer Res (2006) 1.71
Estimation of Sparse Binary Pairwise Markov Networks using Pseudo-likelihoods. J Mach Learn Res (2009) 1.70
Penalized classification using Fisher's linear discriminant. J R Stat Soc Series B Stat Methodol (2011) 1.69
Hybrid hierarchical clustering with applications to microarray data. Biostatistics (2005) 1.56
IRF9 and STAT1 are required for IgG autoantibody production and B cell expression of TLR7 in mice. J Clin Invest (2008) 1.55
An FLT3 gene-expression signature predicts clinical outcome in normal karyotype AML. Blood (2008) 1.51
Efficient quadratic regularization for expression arrays. Biostatistics (2004) 1.50
Survival analysis with high-dimensional covariates. Stat Methods Med Res (2009) 1.50
Genomics of childhood leukemias: the virtue of complexity. J Clin Oncol (2008) 1.48
HGAL is a novel interleukin-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma. Blood (2003) 1.47
Gene expression profiles at diagnosis in de novo childhood AML patients identify FLT3 mutations with good clinical outcomes. Blood (2004) 1.41
Toxicity from radiation therapy associated with abnormal transcriptional responses to DNA damage. Proc Natl Acad Sci U S A (2004) 1.39
Expression and prognostic significance of a panel of tissue hypoxia markers in head-and-neck squamous cell carcinomas. Int J Radiat Oncol Biol Phys (2007) 1.36
Signature patterns of gene expression in mouse atherosclerosis and their correlation to human coronary disease. Physiol Genomics (2005) 1.22
Immune signatures in follicular lymphoma. N Engl J Med (2005) 1.18
Characterization of variant patterns of nodular lymphocyte predominant hodgkin lymphoma with immunohistologic and clinical correlation. Am J Surg Pathol (2003) 1.16
Flawed analysis, implausible results--move on. CMAJ (2004) 1.14
Disease-specific genomic analysis: identifying the signature of pathologic biology. Bioinformatics (2007) 1.12
Relationship of differential gene expression profiles in CD34+ myelodysplastic syndrome marrow cells to disease subtype and progression. Blood (2009) 1.11
Anti-idiotype antibody response after vaccination correlates with better overall survival in follicular lymphoma. Blood (2009) 1.08
Adaptive index models for marker-based risk stratification. Biostatistics (2010) 1.07
DR-Integrator: a new analytic tool for integrating DNA copy number and gene expression data. Bioinformatics (2009) 1.05
Temporal changes in gene expression induced by sulforaphane in human prostate cancer cells. Prostate (2009) 1.04
Mouse strain-specific differences in vascular wall gene expression and their relationship to vascular disease. Arterioscler Thromb Vasc Biol (2004) 0.99
The use of plasma surface-enhanced laser desorption/ionization time-of-flight mass spectrometry proteomic patterns for detection of head and neck squamous cell cancers. Clin Cancer Res (2004) 0.99
hCAP-D3 expression marks a prostate cancer subtype with favorable clinical behavior and androgen signaling signature. Am J Surg Pathol (2008) 0.98
Gene expression profiling differentiates germ cell tumors from other cancers and defines subtype-specific signatures. Proc Natl Acad Sci U S A (2005) 0.95
A fused lasso latent feature model for analyzing multi-sample aCGH data. Biostatistics (2011) 0.94
Cancer characterization and feature set extraction by discriminative margin clustering. BMC Bioinformatics (2004) 0.94
Scientific research in the age of omics: the good, the bad, and the sloppy. J Am Med Inform Assoc (2012) 0.91
A shared transcriptional program in early breast neoplasias despite genetic and clinical distinctions. Genome Biol (2014) 0.91
TESTING SIGNIFICANCE OF FEATURES BY LASSOED PRINCIPAL COMPONENTS. Ann Appl Stat (2008) 0.87
A multicentre study of primary breast diffuse large B-cell lymphoma in the rituximab era. Br J Haematol (2014) 0.86
Alteration of gene expression signatures of cortical differentiation and wound response in lethal clear cell renal cell carcinomas. PLoS One (2009) 0.86
Bayesian gene set analysis for identifying significant biological pathways. J R Stat Soc Ser C Appl Stat (2011) 0.84
CD81 protein is expressed at high levels in normal germinal center B cells and in subtypes of human lymphomas. Hum Pathol (2009) 0.83
Local false discovery rate facilitates comparison of different microarray experiments. Nucleic Acids Res (2009) 0.81
Molecular subtyping for clinically defined breast cancer subgroups. Breast Cancer Res (2015) 0.80
Classification of patients from time-course gene expression. Biostatistics (2012) 0.79
C-C chemokine receptor 1 expression in human hematolymphoid neoplasia. Am J Clin Pathol (2010) 0.78
QnAs with Robert Tibshirani. Proc Natl Acad Sci U S A (2015) 0.75
Corrigendum: Landscape of monoallelic DNA accessibility in mouse embryonic stem cells and neural progenitor cells. Nat Genet (2017) 0.75
SARS-CoV-2 Antibody Responses Correlate with Resolution of RNAemia But Are Short-Lived in Patients with Mild Illness. medRxiv (2020) 0.75