Leslie Cope

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affy - analysis of Affymetrix GeneChip data at the probe level

Benjamin M. Bolstad, Rafael A. Irizarry, Laurent Gautier, 2004, Bioinform..

Abstract LB-317: Interactive pipeline for reproducible genomics analyses

Michael F. Ochs, Yingying Wei, Michael Considine, 2014 .

Quality Assessment of Affymetrix GeneChip Data

Terence P. Speed, Benjamin M. Bolstad, Rafael A. Irizarry, 2005 .

A multi-omic analysis of human naïve CD4+ T cells

Min Sik Kim, Rafael A. Irizarry, Jean Thierry-Mieg, 2015, BMC Systems Biology.

A benchmark for Affymetrix GeneChip expression measures

Terence P. Speed, Rafael A. Irizarry, Zhijin Wu, 2004, Bioinform..

An R Package for Analyses of Affymetrix Oligonucleotide Arrays

Rafael A. Irizarry, Laurent Gautier, Leslie Cope, 2003 .

The ordering of expression among a few genes can provide simple cancer biomarkers and signal BRCA1 mutations

Daniel Q. Naiman, Donald Geman, Xue Lin, 2009, BMC Bioinformatics.

Integrated Radiological Informatics System with comparison to Oncotype DX gene array pdf

Vishwa S. Parekh, Michael A. Jacobs, Katarzyna J. Macura, 2018 .

Identifying differential correlation in gene/pathway combinations

Rosemary Braun, Giovanni Parmigiani, Leslie Cope, 2008, BMC Bioinformatics.

Pre-processing Agilent microarray data

Giovanni Parmigiani, David Berman, Leslie Cope, 2007, BMC Bioinformatics.

Additional file 19: Figure S10. of A multi-omic analysis of human naĂŻve CD4+ T cells

Rafael A. Irizarry, Jean Thierry-Mieg, Xinyan Wu, 2015 .

Integrative correlation: Properties and relation to canonical correlations

Daniel Q. Naiman, Giovanni Parmigiani, Leslie Cope, 2014, J. Multivar. Anal..

Statistical methods for identifying differentially expressed gene combinations.

Yen-Yi Ho, Giovanni Parmigiani, Marcel Dettling, 2007, Methods in molecular biology.

AGA: Interactive pipeline for reproducible gene expression and DNA methylation data analyses

Michael Considine, Yingying Wei, Leslie Cope, 2015, F1000Research.

Detection of Cancer DNA in Plasma of Patients with Early-Stage Breast Cancer

Antonio C. Wolff, Leslie Cope, Vered Stearns, 2014, Clinical Cancer Research.

Cross-study validation and combined analysis of gene expression microarray data.

Elizabeth Garrett-Mayer, Giovanni Parmigiani, Leslie Cope, 2007, Biostatistics.

Methylation of the Claudin 1 Promoter Is Associated with Loss of Expression in Estrogen Receptor Positive Breast Cancer

Wei Wang, Leslie Cope, Stephen B. Baylin, 2013, PloS one.

OPTIMIZED CROSS-STUDY ANALYSIS OF MICROARRAY-BASED PREDICTORS

Elizabeth Garrett-Mayer, Giovanni Parmigiani, Luigi Marchionni, 2007 .

Combination Epigenetic Therapy in Advanced Breast Cancer with 5-Azacitidine and Entinostat: A Phase II National Cancer Institute/Stand Up to Cancer Study

Leslie Cope, Nita Ahuja, Adam Brufsky, 2016, Clinical Cancer Research.

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Clement Adebamowo, Ritika Kundra, Steven J. M. Jones, 2018, Cell reports.

Detection of Tumor PIK3CA Status in Metastatic Breast Cancer Using Peripheral Blood

Ben H. Park, Frank Diehl, Joel Greshock, 2012, Clinical Cancer Research.

Optimizing the Use of Gene Expression Profiling in Early-Stage Breast Cancer.

Leslie Cope, Christopher B Umbricht, Vered Stearns, 2016, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

Novel methylated biomarkers and a robust assay to detect circulating tumor DNA in metastatic breast cancer.

Zhe Zhang, Leslie Cope, Christopher Umbricht, 2014, Cancer research.

Identification of Novel Phosphorylation Motifs Through an Integrative Computational and Experimental Analysis of the Human Phosphoproteome.

Kumaran Kandasamy, Akhilesh Pandey, Balamurugan Periaswamy, 2011, Journal of proteomics & bioinformatics.

AGA: Interactive pipeline for reproducible genomics analyses

Michael Considine, Yingying Wei, Leslie Cope, 2015, F1000Research.

Clinical validation of KRAS, BRAF, and EGFR mutation detection using next-generation sequencing.

Leslie Cope, Christopher D Gocke, Marija Debeljak, 2014, American journal of clinical pathology.

Convergence of Mutation and Epigenetic Alterations Identifies Common Genes in Cancer That Predict for Poor Prognosis

Leslie Cope, Nita Ahuja, L. Cope, 2008, PLoS medicine.

Comparing the DNA Hypermethylome with Gene Mutations in Human Colorectal Cancer

Wei Chen, Wim Van Criekinge, Leslie Cope, 2007, PLoS genetics.

The Integrative Correlation Coefficient: a Measure of Cross-study Reproducibility for Gene Expressionea Array Data

Giovanni Parmigiani, Leslie Cope, G. Parmigiani, 2007 .

chromatin conformations A novel 6 C assay uncovers Polycomb-mediated higher order Material Supplemental

Vijay K. Tiwari, Leslie Cope, Kelly M. McGarvey, 2008 .

Defining a chromatin pattern that characterizes DNA-hypermethylated genes in colon cancer cells.

Wim Van Criekinge, Leslie Cope, Kelly M. McGarvey, 2008, Cancer research.

Analysis of Affymetrix GeneChip data using amplified RNA.

Rafael A Irizarry, Leslie Cope, L. Cope, 2006, BioTechniques.

Identification of c-Src Tyrosine Kinase Substrates Using Mass Spectrometry and Peptide Microarrays

Akhilesh Pandey, Leslie Cope, Jos Joore, 2008, Journal of proteome research.

Gene expression profiles associated with advanced pancreatic cancer.

Christine A Iacobuzio-Donahue, Leslie Cope, L. Cope, 2008, International journal of clinical and experimental pathology.

HMGA1: A Master Regulator of Tumor Progression in Triple-Negative Breast Cancer Cells

Leslie Cope, Saraswati Sukumar, L. Cope, 2013, PloS one.