Rafael A. Irizarry


Co-Investigator of the Biostatistics and Bioinformatics Core


Associate Professor,

Bloomberg School of Public Health,

johns Hopkins University



Academic Degrees

PhD, University of California at Berkeley, 1998


Departmental Affiliation



For more information visit my personal web page.


Departmental Address

615 N. Wolfe St. E3132

Baltimore, MD 21205


Email: rafa@jhu.edu 

Phone: 410-614-5157

Fax: 410-955-0958





I'm interested in the analysis and pre-processing of microarray and genomic data, and the applications of Nonparametric Statistics and Time Series Analysis in the biomedical sciences. These are my current projects:


For more information, including publications, talks, and research interests go to my web page.





Biostatistics, Bioinformatics, Microarray Data Analysis, Nonparametric Statistics, Time Series Analysis in the biomedical sciences



Selected Publications

Link to each of the following abstracts here.


Warren CD, Eckley DM, Lee MS, Hanna JS, Hughes A, Peyser B, Jie C, Irizarry RA, and Spencer FA. S-Phase checkpoint genes safegaurd high fidelity sister chromatid cohesion. Molecular Biology of the Cell. In press.


DiPietro JA, Irizarry RA, Costigan KA, and Gurewitsch ED. The psychophysiology of the maternal-fetal relationship. Psychophysiology. In press.


Cope LM, Irizarry RA, Jaffee H, Wu Z, and Speed TP. A benchmark for Affymetrix GeneChip expression measures. Bioinformatics. In press.


Gautier L, Cope LM, Bolstad BM, and Irizarry RA. affy - An R package for the analysis of Affymetrix GeneChip data at the probe level. Bioinformatics. In pres.


Cummings DA, Irizarry RA, Endy TP, Nisalak A, and Burke D (2004) Traveling waves in dengue hemorrhagic fever incidence in Thailand. Nature 427: 344-347.


Chen H, Irizarry RA, Luo L, and Zirkin BR (2004) Leydig cell gene expression: Effects of age and caloric restriction. Experimental Gerontology 39:31-43.


Sidransky D, Irizarry RA, Califano JA, Li X, Ren H, Benoit N, and Mao L (2003) Serum protein MALDI profiling distinguishes upper aerodigestive tract cancer patients from controls. Jouurnal of the National Cancer Institute 95:1711-1777.


Cappola TP, Cope L, Cernetich A, Barouch LA, Minhas, K, Irizarry RA,

Parmigiani G, Durrani S, Lavoie T, Hoffman EP, Ye SQ, Garcia JGN, Hare

JM (2003) Deficiency of different nitric oxide synthase isoforms activates

divergent transcriptional programs in cardiac hypertrophy. Physiological Genomics 14:25-34


Scharfstein DO and Irizarry RA (2003) Generalized additive selection models for the analysis of non-ignorable missing data. Biometrics 59: 610-613


Irizarry RA, Ooi SL, Wu Z, and Boeke JD (2003) Use of mixture model in a genome-wide DNA microarray-based genetic screen for components of the NHEJ pathway in yeast. Statistical Applications in Genetics and Molecular Biology 2:Article 1


Irizarry RA, Bolstad BM, Collin F, Cope LM, Hobbs B and Speed TP (2003) Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Research 31:e15


Bolstad BM, Irizarry RA, Astrand M, and Speed TP (2003) A comparison of normalization methods for high density oligonucleotide array data based on bias and variance. Bioinformatics 19:185-193


Tankersley C, Irizarry RA, Flanders S, Rabold R, and Frank R (2003) Unstable heart rate and temperature regulation predict mortality in ARK/J mice. American Journal of Physiology-Regulatory, Integrative, and Comparative Physiology 284:R742-750.


Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, and Speed TP (2003) Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4:249-264


Irizarry RA (2002) Weighted estimation of harmonic components in a musical sound signal. Journal of Time Series Analysis 23:29-48


Irizarry RA , Tankersley CG, Frank R, and Flanders SE (2001) Assessing homeostasis through circadian patterns. Biometrics 57:1228-1238


Tankersley CG, Irizarry RA, Flanders S and Rabold R (2001)

Circadian rhythm variation in activity, body temperature and heart rate between C3H/HeJ and C57BL/6J inbred strains. Journal of Applied Physiology 92: 870-877


Brillinger DR, Chiann C, Irizarry RA, and Morettin PA (2001) Automatic methods for generating seismic intensity maps. Probability, Statistics, and Seismology: Journal of Applied Probability 38A:189-202


DiPietro JA, Irizarry RA, Hawkins M, Costigan KA, and Pressman EK (2001) Cross-correlation of fetal and somatic activity as an indicator of antenatal neural development. American Journal of Obstetrics and Gynecology 185:1421-8


Crone NE, Hao L, Hart J Jr, Boatman D, Lesser RP, Irizarry RA, Gordon B (2001) Electrocorticographic gamma activity during word production in spoken and sign language. Neurology 57:2045-2053


Irizarry RA (2001) Local harmonic estimation in musical sound signals. Journal of the American Statistical Association 96:357-367


Irizarry RA (2001) Information and posterior probability criteria for model selection in local likelihood estimation. Journal of the American Statistical Association 96: 303-315


Irizarry RA (2001) Local regression with meaningful parameters. The American Statistician 55: 72-79


Irizarry RA (2000) Asymptotic distribution of estimates for a time-varying parameter in a harmonic model with multiple fundamentals. Statistica Sinica 10: 1041-1067


Brillinger DR, Morettin PA, Irizarry RA, and Chiann C (2000) Some wavelet-based analyses of markov chain data. Signal Processing 80: 1607-1627


Katinas GS, Cornelissen G, Irizarry RA, Schaffer E, Homans D, Rhodus N, Schwartzkopff O, Siegelova J, Palat M, and Halberg F (1999) Case report of coexisting elderly MESOR-hypertension and circadian amplitude-hypertension (CHAT) Geronto-Geriatrics 2: 68-86


Brillinger DR and Irizarry RA (1998) An investigation of the second- and higher-order spectra of music. Signal Processing 65: 161-178


Wu Z and Irizarry RA. Stochastic Models Inspired by Hybridization Theory for Short Oligonucleotide Arrays. Proceedings of the 8'th International Conference on Computational Molecular Biology (RECOMB 2004). To appear.


Irizarry RA (2003) Measures of expression for Affymetrix high density oligonueclotide arrays. IMS Lecture Notes Volume 40. Monograph Series, Science and Statistics: A Festschrift for Terry Speed. Ed. Darlene R. Goldstein.


Irizarry RA, Gautier L, and Cope L (2003) An R package for analyses of Affymetrix oligonucleotide arrays in The Analysis of Gene Expression Data: Methods and Software, eds. Parmigiani G, Garrett ES, Irizarry RA, and Zeger SL. Springer. NY.


Tankersley C, Flanders S, Rabold R, Irizarry RA, Berger R, and Frank R (1999) Bradycardia, hypothermia, and imminent death in AKR/J inbred mice. In Proceedings of the third colloquium on particulate air pollution and human health. Edited by: Robert Phalen and Yvonne Bell. University of California. Irvine, CA. pp. 6-97 - 6-106.


Parmigiani G, Garrett ES, Irizarry RA, and Zeger SL (2003) The Analysis of Gene Expression Data: Methods and Software, eds. Springer. NY.




Honors and Awards


2003 Insightful Innovation Award. This award from the Insightful Corporation, recognizes innovation in information sciences. Awarded to Bioconductor.


2001 American Statistical Association Noether Young Scholar Award for researcher, younger than 35 years of age, who has significant research accomplishments in nonparametrics statistics


1999 Faculty Innovation Fund, Johns Hopkins University School of Public Health.










Project 1

Project 2

Project 3

Project 4

Project 5

Project 6


Core A

Core B

Core C


Developmental Research Program


Career Development Program


Other Key Personnel






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