Robert Tibshirani
Publications
- Classification of patients from time-course gene expression. Biostatistics. 2013; (1): 87-98
- Autoantibody epitope spreading in the pre-clinical phase predicts progression to rheumatoid arthritis. PLoS One. 2012; (5): e35296
- Genome-wide measurement of RNA folding energies. Mol Cell. 2012; (2): 169-81
- In situ vaccination against mycosis fungoides by intratumoral injection of a TLR9 agonist combined with radiation: a phase 1/2 study. Blood. 2012; (2): 355-63
- Normalization, testing, and false discovery rate estimation for RNA-sequencing data. Biostatistics. 2012; (3): 523-38
- Strong rules for discarding predictors in lasso-type problems J. Royal stat. Assoc B. 2012: 245-266
- Adaptive index models for marker-based risk stratification. Biostatistics. 2011; (1): 68-86
- Finding consistent patterns: A nonparametric approach for identifying differential expression in RNA-Seq data. Stat Methods Med Res. 2011
- MicroRNAs are independent predictors of outcome in diffuse large B-cell lymphoma patients treated with R-CHOP. Clin Cancer Res. 2011; (12): 4125-35
- Prediction of survival in diffuse large B-cell lymphoma based on the expression of 2 genes reflecting tumor and microenvironment. Blood. 2011; (5): 1350-8
- Sparse estimation of a covariance matrix. Biometrika. 2011; (4): 807-820
- 3'-end sequencing for expression quantification (3SEQ) from archival tumor samples. PLoS One. 2010; (1): e8768
- Analysis of factorial time-course microarrays with application to a clinical study of burn injury. Proc Natl Acad Sci U S A. 2010; (22): 9923-8
- C-C chemokine receptor 1 expression in human hematolymphoid neoplasia. Am J Clin Pathol. 2010; (3): 473-83
- CD81 protein is expressed at high levels in normal germinal center B cells and in subtypes of human lymphomas. Hum Pathol. 2010; (2): 271-80
- Cell type-specific gene expression differences in complex tissues. Nat Methods. 2010; (4): 287-9
- DR-Integrator: a new analytic tool for integrating DNA copy number and gene expression data. Bioinformatics. 2010; (3): 414-6
- Discovery of molecular subtypes in leiomyosarcoma through integrative molecular profiling. Oncogene. 2010; (6): 845-54
- In situ vaccination with a TLR9 agonist induces systemic lymphoma regression: a phase I/II study. J Clin Oncol. 2010; (28): 4324-32
- Lymphoma cell VEGFR2 expression detected by immunohistochemistry predicts poor overall survival in diffuse large B cell lymphoma treated with immunochemotherapy (R-CHOP). Br J Haematol. 2010; (2): 235-44
- Predicting patient survival from longitudinal gene expression. Stat Appl Genet Mol Biol. 2010: Article41
- Regularization Paths for Generalized Linear Models via Coordinate Descent. J Stat Softw. 2010; (1): 1-22
- Spectral Regularization Algorithms for Learning Large Incomplete Matrices. J Mach Learn Res. 2010: 2287-2322
- Survival analysis with high-dimensional covariates. Stat Methods Med Res. 2010; (1): 29-51
- 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: 58
- A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis. Biostatistics. 2009; (3): 515-34
- Alteration of gene expression signatures of cortical differentiation and wound response in lethal clear cell renal cell carcinomas. PLoS One. 2009; (6): e6039
- Blood autoantibody and cytokine profiles predict response to anti-tumor necrosis factor therapy in rheumatoid arthritis. Arthritis Res Ther. 2009; (3): R76
- Covariance-regularized regression and classification for high-dimensional problems. J R Stat Soc Series B Stat Methodol. 2009; (3): 615-636
- Disease signatures are robust across tissues and experiments. Mol Syst Biol. 2009: 307
- Estimation of Sparse Binary Pairwise Markov Networks using Pseudo-likelihoods. J Mach Learn Res. 2009: 883-906
- Extensions of sparse canonical correlation analysis with applications to genomic data. Stat Appl Genet Mol Biol. 2009: Article28
- Local false discovery rate facilitates comparison of different microarray experiments. Nucleic Acids Res. 2009; (22): 7483-97
- Relationship of differential gene expression profiles in CD34+ myelodysplastic syndrome marrow cells to disease subtype and progression. Blood. 2009; (23): 4847-58
- Temporal changes in gene expression induced by sulforaphane in human prostate cancer cells. Prostate. 2009; (2): 181-90
- Univariate shrinkage in the cox model for high dimensional data. Stat Appl Genet Mol Biol. 2009: Article21
- Boolean implication networks derived from large scale, whole genome microarray datasets. Genome Biol. 2008; (10): R157
- Complementary hierarchical clustering. Biostatistics. 2008; (3): 467-83
- IRF9 and STAT1 are required for IgG autoantibody production and B cell expression of TLR7 in mice. J Clin Invest. 2008; (4): 1417-26
- 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. 2008; (3): 447-54
- Multiplexed proximity ligation assays to profile putative plasma biomarkers relevant to pancreatic and ovarian cancer. Clin Chem. 2008; (3): 582-9
- Prognostic significance of VEGF, VEGF receptors, and microvessel density in diffuse large B cell lymphoma treated with anthracycline-based chemotherapy. Lab Invest. 2008; (1): 38-47
- Sparse inverse covariance estimation with the graphical lasso. Biostatistics. 2008; (3): 432-41
- Spatial smoothing and hot spot detection for CGH data using the fused lasso. Biostatistics. 2008; (1): 18-29
- TESTING SIGNIFICANCE OF FEATURES BY LASSOED PRINCIPAL COMPONENTS. Ann Appl Stat. 2008; (3): 986-1012
- hCAP-D3 expression marks a prostate cancer subtype with favorable clinical behavior and androgen signaling signature. Am J Surg Pathol. 2008; (2): 205-9
- Are clusters found in one dataset present in another dataset? Biostatistics. 2007; (1): 9-31
- Averaged gene expressions for regression. Biostatistics. 2007; (2): 212-27
- Disease-specific genomic analysis: identifying the signature of pathologic biology. Bioinformatics. 2007; (8): 957-65
- 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): 167-75
- Extracting binary signals from microarray time-course data. Nucleic Acids Res. 2007; (11): 3705-12
- Microvessel density and expression of vascular endothelial growth factor and its receptors in diffuse large B-cell lymphoma subtypes. Am J Pathol. 2007; (4): 1362-9
- Notch signals positively regulate activity of the mTOR pathway in T-cell acute lymphoblastic leukemia. Blood. 2007; (1): 278-86
- Oncogenic regulators and substrates of the anaphase promoting complex/cyclosome are frequently overexpressed in malignant tumors. Am J Pathol. 2007; (5): 1793-805
- Outlier sums for differential gene expression analysis. Biostatistics. 2007; (1): 2-8
- Polymorphisms in hypoxia inducible factor 1 and the initial clinical presentation of coronary disease. Am Heart J. 2007; (6): 1035-42
- Regularized linear discriminant analysis and its application in microarrays. Biostatistics. 2007; (1): 86-100
- A simple method for assessing sample sizes in microarray experiments. BMC Bioinformatics. 2006: 106
- A tail strength measure for assessing the overall univariate significance in a dataset. Biostatistics. 2006; (2): 167-81
- An evaluation of tumor oxygenation and gene expression in patients with early stage non-small cell lung cancers. Clin Cancer Res. 2006; (5): 1507-14
- Changes of gene expression in gastric preneoplasia following Helicobacter pylori eradication therapy. Cancer Epidemiol Biomarkers Prev. 2006; (2): 272-80
- Combined microarray analysis of small cell lung cancer reveals altered apoptotic balance and distinct expression signatures of MYC family gene amplification. Oncogene. 2006; (1): 130-8
- Discovery and validation of breast cancer subtypes. BMC Genomics. 2006: 231
- Gene expression profiling predicts survival in conventional renal cell carcinoma. PLoS Med. 2006; (1): e13
- Global transcriptional response to interferon is a determinant of HCV treatment outcome and is modified by race. Hepatology. 2006; (2): 352-9
- A method for calling gains and losses in array CGH data. Biostatistics. 2005; (1): 45-58
- Array-based comparative genomic hybridization identifies localized DNA amplifications and homozygous deletions in pancreatic cancer. Neoplasia. 2005; (6): 556-62
- Gene expression profiling differentiates germ cell tumors from other cancers and defines subtype-specific signatures. Proc Natl Acad Sci U S A. 2005; (49): 17763-8
- Genome-wide characterization of gene expression variations and DNA copy number changes in prostate cancer cell lines. Prostate. 2005; (2): 187-97
- Mouse strain-specific differences in vascular wall gene expression and their relationship to vascular disease. Arterioscler Thromb Vasc Biol. 2005; (2): 302-8
- 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): 3738-43
- Signature patterns of gene expression in mouse atherosclerosis and their correlation to human coronary disease. Physiol Genomics. 2005; (2): 213-26
- The 'miss rate' for the analysis of gene expression data. Biostatistics. 2005; (1): 111-7
- Cancer characterization and feature set extraction by discriminative margin clustering. BMC Bioinformatics. 2004: 21
- Developmental response to hypoxia. FASEB J. 2004; (12): 1348-65
- Different gene expression patterns in invasive lobular and ductal carcinomas of the breast. Mol Biol Cell. 2004; (6): 2523-36
- Efficient quadratic regularization for expression arrays. Biostatistics. 2004; (3): 329-40
- Gene expression profiles at diagnosis in de novo childhood AML patients identify FLT3 mutations with good clinical outcomes. Blood. 2004; (9): 2646-54
- Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc Natl Acad Sci U S A. 2004; (3): 811-6
- Prediction of survival in diffuse large-B-cell lymphoma based on the expression of six genes. N Engl J Med. 2004; (18): 1828-37
- Sample classification from protein mass spectrometry, by 'peak probability contrasts'. Bioinformatics. 2004; (17): 3034-44
- Semi-supervised methods to predict patient survival from gene expression data. PLoS Biol. 2004; (4): E108
- 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; (14): 4806-12
- Toxicity from radiation therapy associated with abnormal transcriptional responses to DNA damage. Proc Natl Acad Sci U S A. 2004; (17): 6635-40
- Use of gene-expression profiling to identify prognostic subclasses in adult acute myeloid leukemia. N Engl J Med. 2004; (16): 1605-16
- Characterization of variant patterns of nodular lymphocyte predominant hodgkin lymphoma with immunohistologic and clinical correlation. Am J Surg Pathol. 2003; (10): 1346-56
- Gene expression patterns in ovarian carcinomas. Mol Biol Cell. 2003; (11): 4376-86
- HGAL is a novel interleukin-4-inducible gene that strongly predicts survival in diffuse large B-cell lymphoma. Blood. 2003; (2): 433-40
- Note on "Comparison of model selection for regression" by Vladimir Cherkassky and Yunqian Ma. Neural Comput. 2003; (7): 1477-80
- Repeated observation of breast tumor subtypes in independent gene expression data sets. Proc Natl Acad Sci U S A. 2003; (14): 8418-23
- Statistical methods for identifying differentially expressed genes in DNA microarrays. Methods Mol Biol. 2003: 149-57
- Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc Natl Acad Sci U S A. 2002; (10): 6567-72
- Empirical bayes methods and false discovery rates for microarrays. Genet Epidemiol. 2002; (1): 70-86
- Expression of cytokeratins 17 and 5 identifies a group of breast carcinomas with poor clinical outcome. Am J Pathol. 2002; (6): 1991-6
- 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; (20): 12963-8
- Pre-validation and inference in microarrays. Stat Appl Genet Mol Biol. 2002: Article1
- Precision and functional specificity in mRNA decay. Proc Natl Acad Sci U S A. 2002; (9): 5860-5
- Transcriptional programs activated by exposure of human prostate cancer cells to androgen. Genome Biol. 2002; (7): RESEARCH0032
- Expression of a single gene, BCL-6, strongly predicts survival in patients with diffuse large B-cell lymphoma. Blood. 2001; (4): 945-51
- Missing value estimation methods for DNA microarrays. Bioinformatics. 2001; (6): 520-5
- Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci U S A. 2001; (9): 5116-21
- Supervised harvesting of expression trees. Genome Biol. 2001; (1): RESEARCH0003
- 'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns. Genome Biol. 2000; (2): RESEARCH0003
- Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature. 2000; (6769): 503-11
- Molecular analysis of immunoglobulin genes in diffuse large B-cell lymphomas. Blood. 2000; (5): 1797-803
- The inference of antigen selection on Ig genes. J Immunol. 2000; (9): 5122-6
- Association between cellular phones and car collisions {\it New. Engl. J. Med}. 1997
- The lasso method for variable selection in the Cox model. Stat Med. 1997; (4): 385-95
- Generalized additive models for medical research. Stat Methods Med Res. 1995; (3): 187-96
- Flexible discriminant analysis {\it J. Amer. Statist. Assoc. }. 1994
- An Introduction to the Bootstrap Chapman and Hall, New York and London.. 1993
- {\it Generalized additive models}, Chapman and Hall, London. 1990
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