Rafael A. Irizarry

37 papers A 1B 2Journal 33Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
A New Family of Poisson Non-negative Matrix Factorization Methods Using the Shifted Log Link.
CoRR
Eric Weine, Peter Carbonetto, Rafael A. Irizarry, Matthew Stephens
2025 J jnl
Stacked SVD or SVD stacked? A Random Matrix Theory perspective on data integration.
CoRR
Tavor Z. Baharav, Phillip B. Nicol, Rafael A. Irizarry, Rong Ma
2016 J jnl
A Guide to Teaching Data Science.
CoRR
Stephanie C. Hicks, Rafael A. Irizarry
2015 J jnl
A multi-omic analysis of human naïve CD4+ T cells.
BMC Syst. Biol.
Christopher J. Mitchell, Derese Getnet, Min Sik Kim, Srinivas Manda Srikanth, Praveen Kumar, Tai-Chung Huang, Sneha M. Pinto, Nirujogi Raja Sekhar, Mio Iwasaki, Patrick G. Shaw, Xinyan Wu, Jun Zhong, Raghothama Chaerkady, Arivusudar Marimuthu, Babylakshmi Muthusamy, Nandini A. Sahasrabuddhe, Rajesh Raju, Caitlyn Bowman, Ludmila V. Danilova, Jevon Cutler, Dhanashree S. Kelkar, Charles G. Drake, T. S. Keshava Prasad, Luigi Marchionni, Peter N. Murakami, Alan F. Scott, Leming Shi, Jean Thierry-Mieg, Danielle Thierry-Mieg, Rafael A. Irizarry, Leslie Cope, Yasushi Ishihama, Charles Wang, Harsha Gowda, Akhilesh Pandey
2014 A conf
Context Aware Group Nearest Shrunken Centroids in Large-Scale Genomic Studies.
AISTATS
Juemin Yang, Fang Han, Rafael A. Irizarry, Han Liu
2014 J jnl
KRLMM: an adaptive genotype calling method for common and low frequency variants.
BMC Bioinform.
Ruijie Liu, Zhiyin Dai, Meredith Yeager, Rafael A. Irizarry, Matthew E. Ritchie
2014 J jnl
Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays.
Bioinform.
Martin J. Aryee, Andrew E. Jaffe, Héctor Corrada Bravo, Christine Ladd-Acosta, Andrew P. Feinberg, Kasper D. Hansen, Rafael A. Irizarry
2014 J jnl
The Gene Expression Barcode 3.0: improved data processing and mining tools.
Nucleic Acids Res.
Matthew N. McCall, Harris A. Jaffee, Susan J. Zelisko, Neeraj Sinha, Guido J. E. K. Hooiveld, Rafael A. Irizarry, Michael J. Zilliox
2014 J jnl
Visualization and probability-based scoring of structural variants within repetitive sequences.
Bioinform.
Eitan Halper-Stromberg, Jared Steranka, Kathleen H. Burns, Sarven Sabunciyan, Rafael A. Irizarry
2013 J jnl
ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data.
Bioinform.
George Wu, Jason T. Yustein, Matthew N. McCall, Michael J. Zilliox, Rafael A. Irizarry, Karen Zeller, Chi V. Dang, Hongkai Ji
2012 J jnl
Gene expression anti-profiles as a basis for accurate universal cancer signatures.
BMC Bioinform.
Héctor Corrada Bravo, Vasyl Pihur, Matthew N. McCall, Rafael A. Irizarry, Jeffrey T. Leek
2012 J jnl
Improved base-calling and quality scores for 454 sequencing based on a Hurdle Poisson model.
BMC Bioinform.
Kristof De Beuf, Joachim M. De Schrijver, Olivier Thas, Wim Van Criekinge, Rafael A. Irizarry, Lieven Clement
2012 J jnl
The partitioned LASSO-patternsearch algorithm with application to gene expression data.
BMC Bioinform.
Weiliang Shi, Grace Wahba, Rafael A. Irizarry, Héctor Corrada Bravo, Stephen J. Wright
2012 J jnl
fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.
Bioinform.
Matthew N. McCall, Harris A. Jaffee, Rafael A. Irizarry
2011 J jnl
Assessments of Affymetrix GeneChip Microarray Quality for Laboratories and Single Samples.
BMC Bioinform.
Matthew N. McCall, Peter N. Murakami, Margus Lukk, Wolfgang Huber, Rafael A. Irizarry
2011 J jnl
Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips.
BMC Bioinform.
Matthew E. Ritchie, Ruijie Liu, Benilton S. Carvalho, Rafael A. Irizarry
2011 J jnl
Performance assessment of copy number microarray platforms using a spike-in experiment.
Bioinform.
Eitan Halper-Stromberg, Laurence Frelin, Ingo Ruczinski, Robert B. Scharpf, Chunfa Jie, Benilton S. Carvalho, Haiping Hao, Kurt N. Hetrick, Anne Jedlicka, Amanda Dziedzic, Kim Doheny, Alan F. Scott, Steve Baylin, Jonathan Pevsner, Forrest Spencer, Rafael A. Irizarry
2011 J jnl
Thawing Frozen Robust Multi-array Analysis (fRMA).
BMC Bioinform.
Matthew N. McCall, Rafael A. Irizarry
2011 J jnl
The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.
Nucleic Acids Res.
Matthew N. McCall, Karan Uppal, Harris A. Jaffee, Michael J. Zilliox, Rafael A. Irizarry
2010 J jnl
A framework for oligonucleotide microarray preprocessing.
Bioinform.
Benilton S. Carvalho, Rafael A. Irizarry
2010 J jnl
Quantifying uncertainty in genotype calls.
Bioinform.
Benilton S. Carvalho, Thomas A. Louis, Rafael A. Irizarry
2009 J jnl
R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips.
Bioinform.
Matthew E. Ritchie, Benilton S. Carvalho, Kurt N. Hetrick, Simon Tavaré, Rafael A. Irizarry
2008 J jnl
Estimating Genome-Wide Copy Number Using Allele-Specific Mixture Models.
J. Comput. Biol.
Wenyi Wang, Benilton S. Carvalho, Nathaniel D. Miller, Jonathan Pevsner, Aravinda Chakravarti, Rafael A. Irizarry
2008 J jnl
Estimation and assessment of raw copy numbers at the single locus level.
Bioinform.
Henrik Bengtsson, Rafael A. Irizarry, Benilton S. Carvalho, Terence P. Speed
2007 B conf
Estimating Genome-Wide Copy Number Using Allele Specific Mixture Models.
RECOMB
Wenyi Wang, Benilton S. Carvalho, Nate Miller, Jonathan Pevsner, Aravinda Chakravarti, Rafael A. Irizarry
2006 J jnl
A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.
BMC Bioinform.
Tim F. Rayner, Philippe Rocca-Serra, Paul T. Spellman, Helen C. Causton, Anna Farne, Ele Holloway, Rafael A. Irizarry, Junmin Liu, Donald Maier, Michael Miller, Kjell Petersen, John Quackenbush, Gavin Sherlock, Christian J. Stoeckert Jr., Joseph White, Patricia L. Whetzel, Farrell Wymore, Helen E. Parkinson, Ugis Sarkans, Catherine A. Ball, Alvis Brazma
2006 J jnl
A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database.
BMC Bioinform.
Simon Katz, Rafael A. Irizarry, Xue Lin, Mark Tripputi, Mark W. Porter
2006 J jnl
Comparison of Affymetrix GeneChip expression measures.
Bioinform.
Rafael A. Irizarry, Zhijin Wu, Harris A. Jaffee
2006 J jnl
High-resolution spatial normalization for microarrays containing embedded technical replicates.
Bioinform.
Daniel S. Yuan, Rafael A. Irizarry
2005 J jnl
Stochastic Models Inspired by Hybridization Theory for Short Oligonucleotide Arrays.
J. Comput. Biol.
Zhijin Wu, Rafael A. Irizarry
2004 J jnl
A benchmark for Affymetrix GeneChip expression measures.
Bioinform.
Leslie Cope, Rafael A. Irizarry, Harris A. Jaffee, Zhijin Wu, Terence P. Speed
2004 B conf
Stochastic models inspired by hybridization theory for short oligonucleotide arrays.
RECOMB
Zhijin Wu, Rafael A. Irizarry
2004 J jnl
affy - analysis of Affymetrix GeneChip data at the probe level.
Bioinform.
Laurent Gautier, Leslie Cope, Benjamin M. Bolstad, Rafael A. Irizarry
2003 J jnl
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias.
Bioinform.
Benjamin M. Bolstad, Rafael A. Irizarry, Magnus Åstrand, Terence P. Speed
2000 J jnl
Some wavelet-based analyses of Markov chain data.
Signal Process.
David R. Brillinger, Pedro Alberto Morettin, Rafael A. Irizarry, Chang Chiann
1998 J jnl
An investigation of the second- and higher-order spectra of music.
Signal Process.
David R. Brillinger, Rafael A. Irizarry
1998 — conf
The Additive Sinusoidal Plus Residual Model: A Statistical Analysis.
ICMC
Rafael A. Irizarry