Rafael A. Irizarry

Publication Activity (10 Years)

Years Active: 1998-2016
Publications (10 Years): 1

Top Topics

Gene Expression

Drosophila Melanogaster

Top Venues

Publications

Stephanie C. Hicks, Rafael A. Irizarry
A Guide to Teaching Data Science. CoRR (2016)
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
A multi-omic analysis of human naïve CD4+ T cells. BMC Syst. Biol. 9 (2015)
Juemin Yang, Fang Han, Rafael A. Irizarry, Han Liu
Context Aware Group Nearest Shrunken Centroids in Large-Scale Genomic Studies. AISTATS (2014)
Martin J. Aryee, Andrew E. Jaffe, Héctor Corrada Bravo, Christine Ladd-Acosta, Andrew P. Feinberg, Kasper D. Hansen, Rafael A. Irizarry
Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinform. 30 (10) (2014)
Ruijie Liu, Zhiyin Dai, Meredith Yeager, Rafael A. Irizarry, Matthew E. Ritchie
KRLMM: an adaptive genotype calling method for common and low frequency variants. BMC Bioinform. 15 (2014)
Matthew N. McCall, Harris A. Jaffee, Susan J. Zelisko, Neeraj Sinha, Guido J. E. K. Hooiveld, Rafael A. Irizarry, Michael J. Zilliox
The Gene Expression Barcode 3.0: improved data processing and mining tools. Nucleic Acids Res. 42 (Database-Issue) (2014)
Eitan Halper-Stromberg, Jared Steranka, Kathleen H. Burns, Sarven Sabunciyan, Rafael A. Irizarry
Visualization and probability-based scoring of structural variants within repetitive sequences. Bioinform. 30 (11) (2014)
George Wu, Jason T. Yustein, Matthew N. McCall, Michael J. Zilliox, Rafael A. Irizarry, Karen Zeller, Chi V. Dang, Hongkai Ji
ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data. Bioinform. 29 (9) (2013)
Weiliang Shi, Grace Wahba, Rafael A. Irizarry, Héctor Corrada Bravo, Stephen J. Wright
The partitioned LASSO-patternsearch algorithm with application to gene expression data. BMC Bioinform. 13 (2012)
Matthew N. McCall, Harris A. Jaffee, Rafael A. Irizarry
fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays. Bioinform. 28 (23) (2012)
Kristof De Beuf, Joachim M. De Schrijver, Olivier Thas, Wim Van Criekinge, Rafael A. Irizarry, Lieven Clement
Improved base-calling and quality scores for 454 sequencing based on a Hurdle Poisson model. BMC Bioinform. 13 (2012)
Héctor Corrada Bravo, Vasyl Pihur, Matthew N. McCall, Rafael A. Irizarry, Jeffrey T. Leek
Gene expression anti-profiles as a basis for accurate universal cancer signatures. BMC Bioinform. 13 (2012)
Matthew N. McCall, Peter N. Murakami, Margus Lukk, Wolfgang Huber, Rafael A. Irizarry
Assessments of Affymetrix GeneChip Microarray Quality for Laboratories and Single Samples. BMC Bioinform. 12 (2011)
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
Performance assessment of copy number microarray platforms using a spike-in experiment. Bioinform. 27 (8) (2011)
Matthew N. McCall, Rafael A. Irizarry
Thawing Frozen Robust Multi-array Analysis (fRMA). BMC Bioinform. 12 (2011)
Matthew E. Ritchie, Ruijie Liu, Benilton S. Carvalho, Rafael A. Irizarry
Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips. BMC Bioinform. 12 (2011)
Matthew N. McCall, Karan Uppal, Harris A. Jaffee, Michael J. Zilliox, Rafael A. Irizarry
The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Res. 39 (Database-Issue) (2011)
Benilton S. Carvalho, Thomas A. Louis, Rafael A. Irizarry
Quantifying uncertainty in genotype calls. Bioinform. 26 (2) (2010)
Benilton S. Carvalho, Rafael A. Irizarry
A framework for oligonucleotide microarray preprocessing. Bioinform. 26 (19) (2010)
Matthew E. Ritchie, Benilton S. Carvalho, Kurt N. Hetrick, Simon Tavaré, Rafael A. Irizarry
R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinform. 25 (19) (2009)
Wenyi Wang, Benilton S. Carvalho, Nathaniel D. Miller, Jonathan Pevsner, Aravinda Chakravarti, Rafael A. Irizarry
Estimating Genome-Wide Copy Number Using Allele-Specific Mixture Models. J. Comput. Biol. 15 (7) (2008)
Henrik Bengtsson, Rafael A. Irizarry, Benilton S. Carvalho, Terence P. Speed
Estimation and assessment of raw copy numbers at the single locus level. Bioinform. 24 (6) (2008)
Wenyi Wang, Benilton S. Carvalho, Nate Miller, Jonathan Pevsner, Aravinda Chakravarti, Rafael A. Irizarry
Estimating Genome-Wide Copy Number Using Allele Specific Mixture Models. RECOMB (2007)
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
A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinform. 7 (2006)
Simon Katz, Rafael A. Irizarry, Xue Lin, Mark Tripputi, Mark W. Porter
A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database. BMC Bioinform. 7 (2006)
Rafael A. Irizarry, Zhijin Wu, Harris A. Jaffee
Comparison of Affymetrix GeneChip expression measures. Bioinform. 22 (7) (2006)
Daniel S. Yuan, Rafael A. Irizarry
High-resolution spatial normalization for microarrays containing embedded technical replicates. Bioinform. 22 (24) (2006)
Zhijin Wu, Rafael A. Irizarry
Stochastic Models Inspired by Hybridization Theory for Short Oligonucleotide Arrays. J. Comput. Biol. 12 (6) (2005)
Laurent Gautier, Leslie Cope, Benjamin M. Bolstad, Rafael A. Irizarry
affy - analysis of Affymetrix GeneChip data at the probe level. Bioinform. 20 (3) (2004)
Leslie Cope, Rafael A. Irizarry, Harris A. Jaffee, Zhijin Wu, Terence P. Speed
A benchmark for Affymetrix GeneChip expression measures. Bioinform. 20 (3) (2004)
Zhijin Wu, Rafael A. Irizarry
Stochastic models inspired by hybridization theory for short oligonucleotide arrays. RECOMB (2004)
Benjamin M. Bolstad, Rafael A. Irizarry, Magnus Åstrand, Terence P. Speed
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinform. 19 (2) (2003)
David R. Brillinger, Pedro Alberto Morettin, Rafael A. Irizarry, Chang Chiann
Some wavelet-based analyses of Markov chain data. Signal Process. 80 (8) (2000)
Rafael A. Irizarry
The Additive Sinusoidal Plus Residual Model: A Statistical Analysis. ICMC (1998)
David R. Brillinger, Rafael A. Irizarry
An investigation of the second- and higher-order spectra of music. Signal Process. 65 (2) (1998)