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profileRafael A. Irizarry, Ph.D.

TitleProfessor of Biostatistics
InstitutionHarvard T.H. Chan School of Public Health
DepartmentBiostatistics
AddressDana-Farber Cancer Institute
Dept of Biostatistics & Computational Biology
44 Binney St
Boston MA 02115
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Other Positions
TitleAffiliate of the Department of Statistics
InstitutionFaculty of Arts & Sciences
DepartmentStatistics


Collapse Research 
Collapse research activities and funding
The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
R25GM114818     (IRIZARRY, RAFAEL ANGEL)Sep 29, 2014 - Aug 31, 2017
NIH/NIGMS
Biomedical Data Science Online Curriculum on HarvardX
Role: Principal Investigator

U54CA151838     (POMPER, MARTIN G)Aug 25, 2010 - Jul 31, 2015
NIH/NCI
Center of Cancer Nanotechnology Excellence at Johns Hopkins
Role: Co-Principal Investigator

R01HG005220     (IRIZARRY, RAFAEL ANGEL)Aug 11, 2010 - Feb 28, 2019
NIH/NHGRI
Overcoming bias and unwanted variability in next generation sequencing
Role: Principal Investigator

R01GM083084     (IRIZARRY, RAFAEL ANGEL)Sep 24, 2007 - Jun 30, 2020
NIH/NIGMS
Preprocessing and Analysis Tools for High-Throughput Technologies
Role: Principal Investigator

T32GM074906     (IRIZARRY, RAFAEL ANGEL)Aug 1, 2006 - Sep 30, 2011
NIH/NIGMS
Predoctoral Biostatistics Training in Genetics/Genomics
Role: Principal Investigator

Collapse Bibliographic 
Collapse selected publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Han L, Wu HJ, Zhu H, Kim KY, Marjani SL, Riester M, Euskirchen G, Zi X, Yang J, Han J, Snyder M, Park IH, Irizarry R, Weissman SM, Michor F, Fan R, Pan X. Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells. Nucleic Acids Res. 2017 Jun 02; 45(10):e77. PMID: 28126923.
    View in: PubMed
  2. Yuan GC, Cai L, Elowitz M, Enver T, Fan G, Guo G, Irizarry R, Kharchenko P, Kim J, Orkin S, Quackenbush J, Saadatpour A, Schroeder T, Shivdasani R, Tirosh I. Challenges and emerging directions in single-cell analysis. Genome Biol. 2017 May 08; 18(1):84. PMID: 28482897.
    View in: PubMed
  3. Patro R, Duggal G, Love MI, Irizarry RA, Kingsford C. Salmon provides fast and bias-aware quantification of transcript expression. Nat Methods. 2017 Apr; 14(4):417-419. PMID: 28263959.
    View in: PubMed
  4. Zheng SC, Beck S, Jaffe AE, Koestler DC, Hansen KD, Houseman AE, Irizarry RA, Teschendorff AE. Correcting for cell-type heterogeneity in epigenome-wide association studies: revisiting previous analyses. Nat Methods. 2017 Feb 28; 14(3):216-217. PMID: 28245219.
    View in: PubMed
  5. Campbell PT, Rebbeck TR, Nishihara R, Beck AH, Begg CB, Bogdanov AA, Cao Y, Coleman HG, Freeman GJ, Heng YJ, Huttenhower C, Irizarry RA, Kip NS, Michor F, Nevo D, Peters U, Phipps AI, Poole EM, Qian ZR, Quackenbush J, Robins H, Rogan PK, Slattery ML, Smith-Warner SA, Song M, VanderWeele TJ, Xia D, Zabor EC, Zhang X, Wang M, Ogino S. Proceedings of the third international molecular pathological epidemiology (MPE) meeting. Cancer Causes Control. 2017 Feb; 28(2):167-176. PMID: 28097472.
    View in: PubMed
  6. Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA. Erratum to: A benchmark for RNA-seq quantification pipelines. Genome Biol. 2016 Sep 30; 17(1):203. PMID: 27716375.
    View in: PubMed
  7. Collado-Torres L, Nellore A, Frazee AC, Wilks C, Love MI, Langmead B, Irizarry RA, Leek JT, Jaffe AE. Flexible expressed region analysis for RNA-seq with derfinder. Nucleic Acids Res. 2017 Jan 25; 45(2):e9. PMID: 27694310.
    View in: PubMed
  8. Love MI, Hogenesch JB, Irizarry RA. Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation. Nat Biotechnol. 2016 Dec; 34(12):1287-1291. PMID: 27669167.
    View in: PubMed
  9. Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA. Erratum to: A benchmark for RNA-seq quantification pipelines. Genome Biol. 2016 May 23; 17(1):107. PMID: 27215799.
    View in: PubMed
  10. Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA. A benchmark for RNA-seq quantification pipelines. Genome Biol. 2016 Apr 23; 17:74. PMID: 27107712; PMCID: PMC4842274.
  11. Mitchell CJ, Getnet D, Kim MS, Manda SS, Kumar P, Huang TC, Pinto SM, Nirujogi RS, Iwasaki M, Shaw PG, Wu X, Zhong J, Chaerkady R, Marimuthu A, Muthusamy B, Sahasrabuddhe NA, Raju R, Bowman C, Danilova L, Cutler J, Kelkar DS, Drake CG, Prasad TS, Marchionni L, Murakami PN, Scott AF, Shi L, Thierry-Mieg J, Thierry-Mieg D, Irizarry R, Cope L, Ishihama Y, Wang C, Gowda H, Pandey A. A multi-omic analysis of human naïve CD4+ T cells. BMC Syst Biol. 2015 Nov 06; 9:75. PMID: 26542228; PMCID: PMC4636073.
  12. Hicks SC, Irizarry RA. quantro: a data-driven approach to guide the choice of an appropriate normalization method. Genome Biol. 2015 Jun 04; 16:117. PMID: 26040460; PMCID: PMC4495646.
  13. Ogino S, Campbell PT, Nishihara R, Phipps AI, Beck AH, Sherman ME, Chan AT, Troester MA, Bass AJ, Fitzgerald KC, Irizarry RA, Kelsey KT, Nan H, Peters U, Poole EM, Qian ZR, Tamimi RM, Tchetgen Tchetgen EJ, Tworoger SS, Zhang X, Giovannucci EL, van den Brandt PA, Rosner BA, Wang M, Chatterjee N, Begg CB. Proceedings of the second international molecular pathological epidemiology (MPE) meeting. Cancer Causes Control. 2015 Jul; 26(7):959-72. PMID: 25956270; PMCID: PMC4466011.
  14. Vandiver AR, Irizarry RA, Hansen KD, Garza LA, Runarsson A, Li X, Chien AL, Wang TS, Leung SG, Kang S, Feinberg AP. Age and sun exposure-related widespread genomic blocks of hypomethylation in nonmalignant skin. Genome Biol. 2015 Apr 16; 16:80. PMID: 25886480; PMCID: PMC4423110.
  15. Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oles AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M. Orchestrating high-throughput genomic analysis with Bioconductor. Nat Methods. 2015 Feb; 12(2):115-21. PMID: 25633503; PMCID: PMC4509590.
  16. Timp W, Bravo HC, McDonald OG, Goggins M, Umbricht C, Zeiger M, Feinberg AP, Irizarry RA. Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors. Genome Med. 2014; 6(8):61. PMID: 25191524; PMCID: PMC4154522.
  17. Frazee AC, Hansen KD, Leek JT, Sabunciyan S, Irizarry RA. Corrigendum: Differential expression analysis of RNA-seq data at single-base resolution. Biostatistics. 2014 Jul; 15(3):584-5. PMID: 24936601.
    View in: PubMed
  18. Lahens NF, Kavakli IH, Zhang R, Hayer K, Black MB, Dueck H, Pizarro A, Kim J, Irizarry R, Thomas RS, Grant GR, Hogenesch JB. IVT-seq reveals extreme bias in RNA sequencing. Genome Biol. 2014 Jun 30; 15(6):R86. PMID: 24981968; PMCID: PMC4197826.
  19. Liu R, Dai Z, Yeager M, Irizarry RA, Ritchie ME. KRLMM: an adaptive genotype calling method for common and low frequency variants. BMC Bioinformatics. 2014 May 23; 15:158. PMID: 24886250; PMCID: PMC4064501.
  20. Halper-Stromberg E, Steranka J, Burns KH, Sabunciyan S, Irizarry RA. Visualization and probability-based scoring of structural variants within repetitive sequences. Bioinformatics. 2014 Jun 01; 30(11):1514-21. PMID: 24501098; PMCID: PMC4029030.
  21. Jaffe AE, Irizarry RA. Accounting for cellular heterogeneity is critical in epigenome-wide association studies. Genome Biol. 2014 Feb 04; 15(2):R31. PMID: 24495553; PMCID: PMC4053810.
  22. Aryee MJ, Jaffe AE, Corrada-Bravo H, Ladd-Acosta C, Feinberg AP, Hansen KD, Irizarry RA. Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics. 2014 May 15; 30(10):1363-9. PMID: 24478339; PMCID: PMC4016708.
  23. Frazee AC, Sabunciyan S, Hansen KD, Irizarry RA, Leek JT. Differential expression analysis of RNA-seq data at single-base resolution. Biostatistics. 2014 Jul; 15(3):413-26. PMID: 24398039; PMCID: PMC4059460.
  24. Li W, Xu H, Xiao T, Cong L, Love MI, Zhang F, Irizarry RA, Liu JS, Brown M, Liu XS. MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens. Genome Biol. 2014; 15(12):554. PMID: 25476604; PMCID: PMC4290824.
  25. McCall MN, Jaffee HA, Zelisko SJ, Sinha N, Hooiveld G, Irizarry RA, Zilliox MJ. The Gene Expression Barcode 3.0: improved data processing and mining tools. Nucleic Acids Res. 2014 Jan; 42(Database issue):D938-43. PMID: 24271388; PMCID: PMC3965035.
  26. Brebi P, Maldonado L, Noordhuis MG, Ili C, Leal P, Garcia P, Brait M, Ribas J, Michailidi C, Perez J, Soudry E, Tapia O, Guzman P, Muñoz S, Van Neste L, Van Criekinge W, Irizarry R, Sidransky D, Roa JC, Guerrero-Preston R. Genome-wide methylation profiling reveals Zinc finger protein 516 (ZNF516) and FK-506-binding protein 6 (FKBP6) promoters frequently methylated in cervical neoplasia, associated with HPV status and ethnicity in a Chilean population. Epigenetics. 2014 Feb; 9(2):308-17. PMID: 24241165; PMCID: PMC3962541.
  27. Retraction: Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK. Nature. 2013 Nov 07; 503(7474):146. PMID: 24201285; PMCID: PMC3843945.
  28. Michels KB, Binder AM, Dedeurwaerder S, Epstein CB, Greally JM, Gut I, Houseman EA, Izzi B, Kelsey KT, Meissner A, Milosavljevic A, Siegmund KD, Bock C, Irizarry RA. Recommendations for the design and analysis of epigenome-wide association studies. Nat Methods. 2013 Oct; 10(10):949-55. PMID: 24076989.
    View in: PubMed
  29. Montaño CM, Irizarry RA, Kaufmann WE, Talbot K, Gur RE, Feinberg AP, Taub MA. Measuring cell-type specific differential methylation in human brain tissue. Genome Biol. 2013 Aug 30; 14(8):R94. PMID: 24000956; PMCID: PMC4054676.
  30. Wu G, Yustein JT, McCall MN, Zilliox M, Irizarry RA, Zeller K, Dang CV, Ji H. ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data. Bioinformatics. 2013 May 01; 29(9):1182-9. PMID: 23457041; PMCID: PMC3658457.
  31. Aryee MJ, Liu W, Engelmann JC, Nuhn P, Gurel M, Haffner MC, Esopi D, Irizarry RA, Getzenberg RH, Nelson WG, Luo J, Xu J, Isaacs WB, Bova GS, Yegnasubramanian S. DNA methylation alterations exhibit intraindividual stability and interindividual heterogeneity in prostate cancer metastases. Sci Transl Med. 2013 Jan 23; 5(169):169ra10. PMID: 23345608; PMCID: PMC3577373.
  32. Beuf KD, Schrijver JD, Thas O, Criekinge WV, Irizarry RA, Clement L. Improved base-calling and quality scores for 454 sequencing based on a Hurdle Poisson model. BMC Bioinformatics. 2012 Nov 15; 13:303. PMID: 23151247; PMCID: PMC3534400.
  33. Bravo HC, Pihur V, McCall M, Irizarry RA, Leek JT. Gene expression anti-profiles as a basis for accurate universal cancer signatures. BMC Bioinformatics. 2012 Oct 22; 13:272. PMID: 23088656; PMCID: PMC3487959.
  34. McCall MN, Jaffee HA, Irizarry RA. fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays. Bioinformatics. 2012 Dec 01; 28(23):3153-4. PMID: 23044545; PMCID: PMC3509489.
  35. Hansen KD, Langmead B, Irizarry RA. BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions. Genome Biol. 2012 Oct 03; 13(10):R83. PMID: 23034175; PMCID: PMC3491411.
  36. Herb BR, Wolschin F, Hansen KD, Aryee MJ, Langmead B, Irizarry R, Amdam GV, Feinberg AP. Reversible switching between epigenetic states in honeybee behavioral subcastes. Nat Neurosci. 2012 Oct; 15(10):1371-3. PMID: 22983211; PMCID: PMC3518384.
  37. Shi W, Wahba G, Irizarry RA, Bravo HC, Wright SJ. The partitioned LASSO-patternsearch algorithm with application to gene expression data. BMC Bioinformatics. 2012 May 15; 13:98. PMID: 22587526; PMCID: PMC3505477.
  38. Sabunciyan S, Aryee MJ, Irizarry RA, Rongione M, Webster MJ, Kaufman WE, Murakami P, Lessard A, Yolken RH, Feinberg AP, Potash JB. Genome-wide DNA methylation scan in major depressive disorder. PLoS One. 2012; 7(4):e34451. PMID: 22511943; PMCID: PMC3325245.
  39. Lin YY, Kiihl S, Suhail Y, Liu SY, Chou YH, Kuang Z, Lu JY, Khor CN, Lin CL, Bader JS, Irizarry R, Boeke JD. Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK. Nature. 2012 Feb 08; 482(7384):251-5. PMID: 22318606; PMCID: PMC3277212.
  40. Lee H, Jaffe AE, Feinberg JI, Tryggvadottir R, Brown S, Montano C, Aryee MJ, Irizarry RA, Herbstman J, Witter FR, Goldman LR, Feinberg AP, Fallin MD. DNA methylation shows genome-wide association of NFIX, RAPGEF2 and MSRB3 with gestational age at birth. Int J Epidemiol. 2012 Feb; 41(1):188-99. PMID: 22422452; PMCID: PMC3304532.
  41. Jaffe AE, Murakami P, Lee H, Leek JT, Fallin MD, Feinberg AP, Irizarry RA. Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies. Int J Epidemiol. 2012 Feb; 41(1):200-9. PMID: 22422453; PMCID: PMC3304533.
  42. Hansen KD, Irizarry RA, Wu Z. Removing technical variability in RNA-seq data using conditional quantile normalization. Biostatistics. 2012 Apr; 13(2):204-16. PMID: 22285995; PMCID: PMC3297825.
  43. Clement L, De Beuf K, Thas O, Vuylsteke M, Irizarry RA, Crainiceanu CM. Fast wavelet based functional models for transcriptome analysis with tiling arrays. Stat Appl Genet Mol Biol. 2012 Jan 06; 11(1):Article 4. PMID: 22499683; PMCID: PMC3750750.
  44. Niranjan TS, Adamczyk A, Bravo HC, Taub MA, Wheelan SJ, Irizarry R, Wang T. Effective detection of rare variants in pooled DNA samples using Cross-pool tailcurve analysis. Genome Biol. 2011 Sep 28; 12(9):R93. PMID: 21955804; PMCID: PMC3308056.
  45. McCall MN, Irizarry RA. Thawing Frozen Robust Multi-array Analysis (fRMA). BMC Bioinformatics. 2011 Sep 16; 12:369. PMID: 21923903; PMCID: PMC3180392.
  46. Hansen KD, Wu Z, Irizarry RA, Leek JT. Sequencing technology does not eliminate biological variability. Nat Biotechnol. 2011 Jul 11; 29(7):572-3. PMID: 21747377; PMCID: PMC3137276.
  47. Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D, Briem E, Zhang K, Irizarry RA, Feinberg AP. Increased methylation variation in epigenetic domains across cancer types. Nat Genet. 2011 Jun 26; 43(8):768-75. PMID: 21706001; PMCID: PMC3145050.
  48. Jaffe AE, Feinberg AP, Irizarry RA, Leek JT. Significance analysis and statistical dissection of variably methylated regions. Biostatistics. 2012 Jan; 13(1):166-78. PMID: 21685414; PMCID: PMC3276267.
  49. Yegnasubramanian S, Wu Z, Haffner MC, Esopi D, Aryee MJ, Badrinath R, He TL, Morgan JD, Carvalho B, Zheng Q, De Marzo AM, Irizarry RA, Nelson WG. Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences. BMC Genomics. 2011 Jun 13; 12:313. PMID: 21669002; PMCID: PMC3124442.
  50. Guerrero-Preston R, Soudry E, Acero J, Orera M, Moreno-López L, Macía-Colón G, Jaffe A, Berdasco M, Ili-Gangas C, Brebi-Mieville P, Fu Y, Engstrom C, Irizarry RA, Esteller M, Westra W, Koch W, Califano J, Sidransky D. NID2 and HOXA9 promoter hypermethylation as biomarkers for prevention and early detection in oral cavity squamous cell carcinoma tissues and saliva. Cancer Prev Res (Phila). 2011 Jul; 4(7):1061-72. PMID: 21558411; PMCID: PMC3131432.
  51. McCall MN, Murakami PN, Lukk M, Huber W, Irizarry RA. Assessing affymetrix GeneChip microarray quality. BMC Bioinformatics. 2011 May 07; 12:137. PMID: 21548974; PMCID: PMC3097162.
  52. Scharpf RB, Irizarry RA, Ritchie ME, Carvalho B, Ruczinski I. Using the R Package crlmm for Genotyping and Copy Number Estimation. J Stat Softw. 2011 May 01; 40(12):1-32. PMID: 22523482.
    View in: PubMed
  53. Halper-Stromberg E, Frelin L, Ruczinski I, Scharpf R, Jie C, Carvalho B, Hao H, Hetrick K, Jedlicka A, Dziedzic A, Doheny K, Scott AF, Baylin S, Pevsner J, Spencer F, Irizarry RA. Performance assessment of copy number microarray platforms using a spike-in experiment. Bioinformatics. 2011 Apr 15; 27(8):1052-60. PMID: 21478196; PMCID: PMC3072561.
  54. Shan L, Yang HC, Rabi SA, Bravo HC, Shroff NS, Irizarry RA, Zhang H, Margolick JB, Siliciano JD, Siliciano RF. Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. J Virol. 2011 Jun; 85(11):5384-93. PMID: 21430059; PMCID: PMC3094997.
  55. Ritchie ME, Liu R, Carvalho BS, Irizarry RA. Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips. BMC Bioinformatics. 2011 Mar 08; 12:68. PMID: 21385424; PMCID: PMC3063825.
  56. McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA. The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Res. 2011 Jan; 39(Database issue):D1011-5. PMID: 21177656; PMCID: PMC3013751.
  57. Taub MA, Corrada Bravo H, Irizarry RA. Overcoming bias and systematic errors in next generation sequencing data. Genome Med. 2010 Dec 10; 2(12):87. PMID: 21144010; PMCID: PMC3025429.
  58. Aryee MJ, Wu Z, Ladd-Acosta C, Herb B, Feinberg AP, Yegnasubramanian S, Irizarry RA. Accurate genome-scale percentage DNA methylation estimates from microarray data. Biostatistics. 2011 Apr; 12(2):197-210. PMID: 20858772; PMCID: PMC3062148.
  59. Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, Naveiras O, Yoon TJ, Irizarry RA, Jung N, Seita J, Hanna J, Murakami P, Jaenisch R, Weissleder R, Orkin SH, Weissman IL, Feinberg AP, Daley GQ. Epigenetic memory in induced pluripotent stem cells. Nature. 2010 Sep 16; 467(7313):285-90. PMID: 20644535; PMCID: PMC3150836.
  60. Feinberg AP, Irizarry RA, Fradin D, Aryee MJ, Murakami P, Aspelund T, Eiriksdottir G, Harris TB, Launer L, Gudnason V, Fallin MD. Personalized epigenomic signatures that are stable over time and covary with body mass index. Sci Transl Med. 2010 Sep 15; 2(49):49ra67. PMID: 20844285; PMCID: PMC3137242.
  61. Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA. Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet. 2010 10; 11(10):733-9. PMID: 20838408; PMCID: PMC3880143.
  62. Bravo HC, Irizarry RA. Model-based quality assessment and base-calling for second-generation sequencing data. Biometrics. 2010 Sep; 66(3):665-74. PMID: 19912177; PMCID: PMC2888717.
  63. Ji H, Ehrlich LI, Seita J, Murakami P, Doi A, Lindau P, Lee H, Aryee MJ, Irizarry RA, Kim K, Rossi DJ, Inlay MA, Serwold T, Karsunky H, Ho L, Daley GQ, Weissman IL, Feinberg AP. Comprehensive methylome map of lineage commitment from haematopoietic progenitors. Nature. 2010 Sep 16; 467(7313):338-42. PMID: 20720541; PMCID: PMC2956609.
  64. Carvalho BS, Irizarry RA. A framework for oligonucleotide microarray preprocessing. Bioinformatics. 2010 Oct 01; 26(19):2363-7. PMID: 20688976; PMCID: PMC2944196.
  65. Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD, Oberthuer A, Thomas RS, Paules RS, Fielden M, Barlogie B, Chen W, Du P, Fischer M, Furlanello C, Gallas BD, Ge X, Megherbi DB, Symmans WF, Wang MD, Zhang J, Bitter H, Brors B, Bushel PR, Bylesjo M, Chen M, Cheng J, Cheng J, Chou J, Davison TS, Delorenzi M, Deng Y, Devanarayan V, Dix DJ, Dopazo J, Dorff KC, Elloumi F, Fan J, Fan S, Fan X, Fang H, Gonzaludo N, Hess KR, Hong H, Huan J, Irizarry RA, Judson R, Juraeva D, Lababidi S, Lambert CG, Li L, Li Y, Li Z, Lin SM, Liu G, Lobenhofer EK, Luo J, Luo W, McCall MN, Nikolsky Y, Pennello GA, Perkins RG, Philip R, Popovici V, Price ND, Qian F, Scherer A, Shi T, Shi W, Sung J, Thierry-Mieg D, Thierry-Mieg J, Thodima V, Trygg J, Vishnuvajjala L, Wang SJ, Wu J, Wu Y, Xie Q, Yousef WA, Zhang L, Zhang X, Zhong S, Zhou Y, Zhu S, Arasappan D, Bao W, Lucas AB, Berthold F, Brennan RJ, Buness A, Catalano JG, Chang C, Chen R, Cheng Y, Cui J, Czika W, Demichelis F, Deng X, Dosymbekov D, Eils R, Feng Y, Fostel J, Fulmer-Smentek S, Fuscoe JC, Gatto L, Ge W, Goldstein DR, Guo L, Halbert DN, Han J, Harris SC, Hatzis C, Herman D, Huang J, Jensen RV, Jiang R, Johnson CD, Jurman G, Kahlert Y, Khuder SA, Kohl M, Li J, Li L, Li M, Li QZ, Li S, Li Z, Liu J, Liu Y, Liu Z, Meng L, Madera M, Martinez-Murillo F, Medina I, Meehan J, Miclaus K, Moffitt RA, Montaner D, Mukherjee P, Mulligan GJ, Neville P, Nikolskaya T, Ning B, Page GP, Parker J, Parry RM, Peng X, Peterson RL, Phan JH, Quanz B, Ren Y, Riccadonna S, Roter AH, Samuelson FW, Schumacher MM, Shambaugh JD, Shi Q, Shippy R, Si S, Smalter A, Sotiriou C, Soukup M, Staedtler F, Steiner G, Stokes TH, Sun Q, Tan PY, Tang R, Tezak Z, Thorn B, Tsyganova M, Turpaz Y, Vega SC, Visintainer R, von Frese J, Wang C, Wang E, Wang J, Wang W, Westermann F, Willey JC, Woods M, Wu S, Xiao N, Xu J, Xu L, Yang L, Zeng X, Zhang J, Zhang L, Zhang M, Zhao C, Puri RK, Scherf U, Tong W, Wolfinger RD. The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nat Biotechnol. 2010 Aug; 28(8):827-38. PMID: 20676074; PMCID: PMC3315840.
  66. Scharpf RB, Ruczinski I, Carvalho B, Doan B, Chakravarti A, Irizarry RA. A multilevel model to address batch effects in copy number estimation using SNP arrays. Biostatistics. 2011 Jan; 12(1):33-50. PMID: 20625178; PMCID: PMC3006124.
  67. Wu H, Irizarry RA, Bravo HC. Intensity normalization improves color calling in SOLiD sequencing. Nat Methods. 2010 May; 7(5):336-7. PMID: 20431543; PMCID: PMC3142576.
  68. Sah S, McCall MN, Eveleigh D, Wilson M, Irizarry RA. Performance evaluation of commercial miRNA expression array platforms. BMC Res Notes. 2010 Mar 18; 3:80. PMID: 20298588; PMCID: PMC2853548.
  69. Schafer E, Irizarry R, Negi S, McIntyre E, Small D, Figueroa ME, Melnick A, Brown P. Promoter hypermethylation in MLL-r infant acute lymphoblastic leukemia: biology and therapeutic targeting. Blood. 2010 Jun 10; 115(23):4798-809. PMID: 20215641; PMCID: PMC2890186.
  70. Wu H, Caffo B, Jaffee HA, Irizarry RA, Feinberg AP. Redefining CpG islands using hidden Markov models. Biostatistics. 2010 Jul; 11(3):499-514. PMID: 20212320; PMCID: PMC2883304.
  71. McCall MN, Bolstad BM, Irizarry RA. Frozen robust multiarray analysis (fRMA). Biostatistics. 2010 Apr; 11(2):242-53. PMID: 20097884; PMCID: PMC2830579.
  72. López-Romero P, González MA, Callejas S, Dopazo A, Irizarry RA. Processing of Agilent microRNA array data. BMC Res Notes. 2010 Jan 22; 3:18. PMID: 20205787; PMCID: PMC2823597.
  73. Feinberg AP, Irizarry RA. Evolution in health and medicine Sackler colloquium: Stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease. Proc Natl Acad Sci U S A. 2010 Jan 26; 107 Suppl 1:1757-64. PMID: 20080672; PMCID: PMC2868296.
  74. Irizarry RA, Wang C, Zhou Y, Speed TP. Gene set enrichment analysis made simple. Stat Methods Med Res. 2009 Dec; 18(6):565-75. PMID: 20048385; PMCID: PMC3134237.
  75. Carvalho BS, Louis TA, Irizarry RA. Quantifying uncertainty in genotype calls. Bioinformatics. 2010 Jan 15; 26(2):242-9. PMID: 19906825; PMCID: PMC2804295.
  76. Doi A, Park IH, Wen B, Murakami P, Aryee MJ, Irizarry R, Herb B, Ladd-Acosta C, Rho J, Loewer S, Miller J, Schlaeger T, Daley GQ, Feinberg AP. Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts. Nat Genet. 2009 Dec; 41(12):1350-3. PMID: 19881528; PMCID: PMC2958040.
  77. Irizarry RA, Wu H, Feinberg AP. A species-generalized probabilistic model-based definition of CpG islands. Mamm Genome. 2009 Sep-Oct; 20(9-10):674-80. PMID: 19777308; PMCID: PMC2962567.
  78. Ritchie ME, Carvalho BS, Hetrick KN, Tavaré S, Irizarry RA. R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinformatics. 2009 Oct 01; 25(19):2621-3. PMID: 19661241; PMCID: PMC2752620.
  79. Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, Onyango P, Cui H, Gabo K, Rongione M, Webster M, Ji H, Potash J, Sabunciyan S, Feinberg AP. The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genet. 2009 Feb; 41(2):178-186. PMID: 19151715; PMCID: PMC2729128.
  80. Wen B, Wu H, Shinkai Y, Irizarry RA, Feinberg AP. Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells. Nat Genet. 2009 Feb; 41(2):246-50. PMID: 19151716; PMCID: PMC2632725.
  81. Yegnasubramanian S, Haffner MC, Zhang Y, Gurel B, Cornish TC, Wu Z, Irizarry RA, Morgan J, Hicks J, DeWeese TL, Isaacs WB, Bova GS, De Marzo AM, Nelson WG. DNA hypomethylation arises later in prostate cancer progression than CpG island hypermethylation and contributes to metastatic tumor heterogeneity. Cancer Res. 2008 Nov 01; 68(21):8954-67. PMID: 18974140; PMCID: PMC2577392.
  82. Wen B, Wu H, Bjornsson H, Green RD, Irizarry R, Feinberg AP. Overlapping euchromatin/heterochromatin- associated marks are enriched in imprinted gene regions and predict allele-specific modification. Genome Res. 2008 Nov; 18(11):1806-13. PMID: 18849526; PMCID: PMC2577870.
  83. Wang W, Carvalho B, Miller ND, Pevsner J, Chakravarti A, Irizarry RA. Estimating genome-wide copy number using allele-specific mixture models. J Comput Biol. 2008 Sep; 15(7):857-66. PMID: 18707534; PMCID: PMC2612042.
  84. McCall MN, Irizarry RA. Consolidated strategy for the analysis of microarray spike-in data. Nucleic Acids Res. 2008 Oct; 36(17):e108. PMID: 18676452; PMCID: PMC2553586.
  85. Bjornsson HT, Sigurdsson MI, Fallin MD, Irizarry RA, Aspelund T, Cui H, Yu W, Rongione MA, Ekström TJ, Harris TB, Launer LJ, Eiriksdottir G, Leppert MF, Sapienza C, Gudnason V, Feinberg AP. Intra-individual change over time in DNA methylation with familial clustering. JAMA. 2008 Jun 25; 299(24):2877-83. PMID: 18577732; PMCID: PMC2581898.
  86. Lin S, Carvalho B, Cutler DJ, Arking DE, Chakravarti A, Irizarry RA. Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays. Genome Biol. 2008 Apr 03; 9(4):R63. PMID: 18387188.
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  87. Bjornsson HT, Albert TJ, Ladd-Acosta CM, Green RD, Rongione MA, Middle CM, Irizarry RA, Broman KW, Feinberg AP. SNP-specific array-based allele-specific expression analysis. Genome Res. 2008 May; 18(5):771-9. PMID: 18369178; PMCID: PMC2336807.
  88. Irizarry RA, Ladd-Acosta C, Carvalho B, Wu H, Brandenburg SA, Jeddeloh JA, Wen B, Feinberg AP. Comprehensive high-throughput arrays for relative methylation (CHARM). Genome Res. 2008 May; 18(5):780-90. PMID: 18316654; PMCID: PMC2336799.
  89. Rodríguez-Quiñones JF, Irizarry RA, Díaz-Blanco NL, Rivera-Molina FE, Gómez-Garzón D, Rodríguez-Medina JR. Global mRNA expression analysis in myosin II deficient strains of Saccharomyces cerevisiae reveals an impairment of cell integrity functions. BMC Genomics. 2008 Jan 23; 9:34. PMID: 18215314; PMCID: PMC2253530.
  90. Bengtsson H, Irizarry R, Carvalho B, Speed TP. Estimation and assessment of raw copy numbers at the single locus level. Bioinformatics. 2008 Mar 15; 24(6):759-67. PMID: 18204055.
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  91. Peyser BD, Irizarry R, Spencer FA. Statistical analysis of fitness data determined by TAG hybridization on microarrays. Methods Mol Biol. 2008; 416:369-81. PMID: 18392981.
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  92. Meluh PB, Pan X, Yuan DS, Tiffany C, Chen O, Sookhai-Mahadeo S, Wang X, Peyser BD, Irizarry R, Spencer FA, Boeke JD. Analysis of genetic interactions on a genome-wide scale in budding yeast: diploid-based synthetic lethality analysis by microarray. Methods Mol Biol. 2008; 416:221-47. PMID: 18392971.
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  93. Zilliox MJ, Irizarry RA. A gene expression bar code for microarray data. Nat Methods. 2007 Nov; 4(11):911-3. PMID: 17906632; PMCID: PMC3154617.
  94. Loyo-Berríos NI, Irizarry R, Hennessey JG, Tao XG, Matanoski G. Air pollution sources and childhood asthma attacks in Catano, Puerto Rico. Am J Epidemiol. 2007 Apr 15; 165(8):927-35. PMID: 17308332.
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  95. Carvalho B, Bengtsson H, Speed TP, Irizarry RA. Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data. Biostatistics. 2007 Apr; 8(2):485-99. PMID: 17189563.
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  96. Wheelan SJ, Scheifele LZ, Martínez-Murillo F, Irizarry RA, Boeke JD. Transposon insertion site profiling chip (TIP-chip). Proc Natl Acad Sci U S A. 2006 Nov 21; 103(47):17632-7. PMID: 17101968; PMCID: PMC1693798.
  97. Rayner TF, Rocca-Serra P, Spellman PT, Causton HC, Farne A, Holloway E, Irizarry RA, Liu J, Maier DS, Miller M, Petersen K, Quackenbush J, Sherlock G, Stoeckert CJ, White J, Whetzel PL, Wymore F, Parkinson H, Sarkans U, Ball CA, Brazma A. A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics. 2006 Nov 06; 7:489. PMID: 17087822; PMCID: PMC1687205.
  98. Wheelan SJ, Martínez-Murillo F, Irizarry RA, Boeke JD. Stacking the deck: double-tiled DNA microarrays. Nat Methods. 2006 Nov; 3(11):903-7. PMID: 17060914.
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  99. Yuan DS, Irizarry RA. High-resolution spatial normalization for microarrays containing embedded technical replicates. Bioinformatics. 2006 Dec 15; 22(24):3054-60. PMID: 17060357; PMCID: PMC2262854.
  100. Katz S, Irizarry RA, Lin X, Tripputi M, Porter MW. A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database. BMC Bioinformatics. 2006 Oct 23; 7:464. PMID: 17059591; PMCID: PMC1624855.
  101. Takahashi H, McCaffery JM, Irizarry RA, Boeke JD. Nucleocytosolic acetyl-coenzyme a synthetase is required for histone acetylation and global transcription. Mol Cell. 2006 Jul 21; 23(2):207-17. PMID: 16857587.
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  102. Quackenbush J, Irizarry RA. Response to Shields: 'MIAME, we have a problem'. Trends Genet. 2006 Sep; 22(9):471-2. PMID: 16859802.
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  103. DiPietro JA, Caulfield LE, Irizarry RA, Chen P, Merialdi M, Zavaleta N. Prenatal development of intrafetal and maternal-fetal synchrony. Behav Neurosci. 2006 Jun; 120(3):687-701. PMID: 16768620.
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  104. Quackenbush J, Stoeckert C, Ball C, Brazma A, Gentleman R, Huber W, Irizarry R, Salit M, Sherlock G, Spellman P, Winegarden N. Top-down standards will not serve systems biology. Nature. 2006 Mar 02; 440(7080):24. PMID: 16511469.
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  105. Cope L, Hartman SM, Göhlmann HW, Tiesman JP, Irizarry RA. Analysis of Affymetrix GeneChip data using amplified RNA. Biotechniques. 2006 Feb; 40(2):165-6, 168, 170. PMID: 16526405.
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  106. Irizarry RA, Wu Z, Jaffee HA. Comparison of Affymetrix GeneChip expression measures. Bioinformatics. 2006 Apr 01; 22(7):789-94. PMID: 16410320.
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  107. Irizarry RA, Cope LM, Wu Z. Feature-level exploration of a published Affymetrix GeneChip control dataset. Genome Biol. 2006; 7(8):404. PMID: 16953902; PMCID: PMC1779590.
  108. Zeger SL, Irizarry R, Peng RD. On time series analysis of public health and biomedical data. Annu Rev Public Health. 2006; 27:57-79. PMID: 16533109.
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  109. Ooi SL, Pan X, Peyser BD, Ye P, Meluh PB, Yuan DS, Irizarry RA, Bader JS, Spencer FA, Boeke JD. Global synthetic-lethality analysis and yeast functional profiling. Trends Genet. 2006 Jan; 22(1):56-63. PMID: 16309778.
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  110. Baker SC, Bauer SR, Beyer RP, Brenton JD, Bromley B, Burrill J, Causton H, Conley MP, Elespuru R, Fero M, Foy C, Fuscoe J, Gao X, Gerhold DL, Gilles P, Goodsaid F, Guo X, Hackett J, Hockett RD, Ikonomi P, Irizarry RA, Kawasaki ES, Kaysser-Kranich T, Kerr K, Kiser G, Koch WH, Lee KY, Liu C, Liu ZL, Lucas A, Manohar CF, Miyada G, Modrusan Z, Parkes H, Puri RK, Reid L, Ryder TB, Salit M, Samaha RR, Scherf U, Sendera TJ, Setterquist RA, Shi L, Shippy R, Soriano JV, Wagar EA, Warrington JA, Williams M, Wilmer F, Wilson M, Wolber PK, Wu X, Zadro R. The External RNA Controls Consortium: a progress report. Nat Methods. 2005 Oct; 2(10):731-4. PMID: 16179916.
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  111. Peyser BD, Irizarry RA, Tiffany CW, Chen O, Yuan DS, Boeke JD, Spencer FA. Improved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools. Nucleic Acids Res. 2005 Sep 15; 33(16):e140. PMID: 16166654; PMCID: PMC1216341.
  112. Lechtzin N, John M, Irizarry R, Merlo C, Diette GB, Boyle MP. Outcomes of adults with cystic fibrosis infected with antibiotic-resistant Pseudomonas aeruginosa. Respiration. 2006; 73(1):27-33. PMID: 16113513.
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  113. Kittleson MM, Minhas KM, Irizarry RA, Ye SQ, Edness G, Breton E, Conte JV, Tomaselli G, Garcia JG, Hare JM. Gene expression in giant cell myocarditis: Altered expression of immune response genes. Int J Cardiol. 2005 Jul 10; 102(2):333-40. PMID: 15982506.
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  114. Yuan DS, Pan X, Ooi SL, Peyser BD, Spencer FA, Irizarry RA, Boeke JD. Improved microarray methods for profiling the Yeast Knockout strain collection. Nucleic Acids Res. 2005 Jul 01; 33(12):e103. PMID: 15994458; PMCID: PMC1169235.
  115. Wu Z, Irizarry RA. Stochastic models inspired by hybridization theory for short oligonucleotide arrays. J Comput Biol. 2005 Jul-Aug; 12(6):882-93. PMID: 16108723.
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  116. Grigoryev DN, Ma SF, Simon BA, Irizarry RA, Ye SQ, Garcia JG. In vitro identification and in silico utilization of interspecies sequence similarities using GeneChip technology. BMC Genomics. 2005 May 04; 6:62. PMID: 15871745; PMCID: PMC1156887.
  117. Hansel NN, Hilmer SC, Georas SN, Cope LM, Guo J, Irizarry RA, Diette GB. Oligonucleotide-microarray analysis of peripheral-blood lymphocytes in severe asthma. J Lab Clin Med. 2005 May; 145(5):263-74. PMID: 15902098.
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  118. Irizarry RA, Warren D, Spencer F, Kim IF, Biswal S, Frank BC, Gabrielson E, Garcia JG, Geoghegan J, Germino G, Griffin C, Hilmer SC, Hoffman E, Jedlicka AE, Kawasaki E, Martínez-Murillo F, Morsberger L, Lee H, Petersen D, Quackenbush J, Scott A, Wilson M, Yang Y, Ye SQ, Yu W. Multiple-laboratory comparison of microarray platforms. Nat Methods. 2005 May; 2(5):345-50. PMID: 15846361.
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  119. Kittleson MM, Minhas KM, Irizarry RA, Ye SQ, Edness G, Breton E, Conte JV, Tomaselli G, Garcia JG, Hare JM. Gene expression analysis of ischemic and nonischemic cardiomyopathy: shared and distinct genes in the development of heart failure. Physiol Genomics. 2005 May 11; 21(3):299-307. PMID: 15769906.
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  120. Kendziorski C, Irizarry RA, Chen KS, Haag JD, Gould MN. On the utility of pooling biological samples in microarray experiments. Proc Natl Acad Sci U S A. 2005 Mar 22; 102(12):4252-7. PMID: 15755808; PMCID: PMC552978.
  121. Kittleson MM, Ye SQ, Irizarry RA, Minhas KM, Edness G, Conte JV, Parmigiani G, Miller LW, Chen Y, Hall JL, Garcia JG, Hare JM. Identification of a gene expression profile that differentiates between ischemic and nonischemic cardiomyopathy. Circulation. 2004 Nov 30; 110(22):3444-51. PMID: 15557369.
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  122. Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 2004; 5(10):R80. PMID: 15461798; PMCID: PMC545600.
  123. Dipietro JA, Irizarry RA, Costigan KA, Gurewitsch ED. The psychophysiology of the maternal-fetal relationship. Psychophysiology. 2004 Jul; 41(4):510-20. PMID: 15189474.
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  124. Wu Z, Irizarry RA. Preprocessing of oligonucleotide array data. Nat Biotechnol. 2004 Jun; 22(6):656-8; author reply 658. PMID: 15175677.
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  125. Grigoryev DN, Ma SF, Irizarry RA, Ye SQ, Quackenbush J, Garcia JG. Orthologous gene-expression profiling in multi-species models: search for candidate genes. Genome Biol. 2004; 5(5):R34. PMID: 15128448; PMCID: PMC416470.
  126. Cope LM, Irizarry RA, Jaffee HA, Wu Z, Speed TP. A benchmark for Affymetrix GeneChip expression measures. Bioinformatics. 2004 Feb 12; 20(3):323-31. PMID: 14960458.
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  127. Gautier L, Cope L, Bolstad BM, Irizarry RA. affy--analysis of Affymetrix GeneChip data at the probe level. Bioinformatics. 2004 Feb 12; 20(3):307-15. PMID: 14960456.
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  128. Warren CD, Eckley DM, Lee MS, Hanna JS, Hughes A, Peyser B, Jie C, Irizarry R, Spencer FA. S-phase checkpoint genes safeguard high-fidelity sister chromatid cohesion. Mol Biol Cell. 2004 Apr; 15(4):1724-35. PMID: 14742710; PMCID: PMC379270.
  129. Cummings DA, Irizarry RA, Huang NE, Endy TP, Nisalak A, Ungchusak K, Burke DS. Travelling waves in the occurrence of dengue haemorrhagic fever in Thailand. Nature. 2004 Jan 22; 427(6972):344-7. PMID: 14737166.
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  130. Bolstad BM, Collin F, Simpson KM, Irizarry RA, Speed TP. Experimental design and low-level analysis of microarray data. Int Rev Neurobiol. 2004; 60:25-58. PMID: 15474586.
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  131. Chen H, Irizarry RA, Luo L, Zirkin BR. Leydig cell gene expression: effects of age and caloric restriction. Exp Gerontol. 2004 Jan; 39(1):31-43. PMID: 14724062.
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  132. Sidransky D, Irizarry R, Califano JA, Li X, Ren H, Benoit N, Mao L. Serum protein MALDI profiling to distinguish upper aerodigestive tract cancer patients from control subjects. J Natl Cancer Inst. 2003 Nov 19; 95(22):1711-7. PMID: 14625262.
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  133. Scharfstein DO, Irizarry RA. Generalized additive selection models for the analysis of studies with potentially nonignorable missing outcome data. Biometrics. 2003 Sep; 59(3):601-13. PMID: 14601761.
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  134. Cappola TP, Cope L, Cernetich A, Barouch LA, Minhas K, Irizarry RA, Parmigiani G, Durrani S, Lavoie T, Hoffman EP, Ye SQ, Garcia JG, Hare JM. Deficiency of different nitric oxide synthase isoforms activates divergent transcriptional programs in cardiac hypertrophy. Physiol Genomics. 2003 Jun 24; 14(1):25-34. PMID: 12709511.
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  135. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr; 4(2):249-64. PMID: 12925520.
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  136. Irizarry RA, Ooi SL, Wu Z, Boeke JD. Use of mixture models in a microarray-based screening procedure for detecting differentially represented yeast mutants. Stat Appl Genet Mol Biol. 2003; 2:Article1. PMID: 16646779.
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  137. Irizarry RA, Bolstad BM, Collin F, Cope LM, Hobbs B, Speed TP. Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res. 2003 Feb 15; 31(4):e15. PMID: 12582260; PMCID: PMC150247.
  138. Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics. 2003 Jan 22; 19(2):185-93. PMID: 12538238.
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  139. Tankersley CG, Irizarry R, Flanders SE, Rabold R, Frank R. Unstable heart rate and temperature regulation predict mortality in AKR/J mice. Am J Physiol Regul Integr Comp Physiol. 2003 Mar; 284(3):R742-50. PMID: 12388436.
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  140. Tankersley CG, Irizarry R, Flanders S, Rabold R. Circadian rhythm variation in activity, body temperature, and heart rate between C3H/HeJ and C57BL/6J inbred strains. J Appl Physiol (1985). 2002 Feb; 92(2):870-7. PMID: 11796704.
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  141. Crone NE, Hao L, Hart J, Boatman D, Lesser RP, Irizarry R, Gordon B. Electrocorticographic gamma activity during word production in spoken and sign language. Neurology. 2001 Dec 11; 57(11):2045-53. PMID: 11739824.
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  142. Dipietro JA, Irizarry RA, Hawkins M, Costigan KA, Pressman EK. Cross-correlation of fetal cardiac and somatic activity as an indicator of antenatal neural development. Am J Obstet Gynecol. 2001 Dec; 185(6):1421-8. PMID: 11744919.
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  143. Irizarry RA, Tankersley C, Frank R, Flanders S. Assessing homeostasis through circadian patterns. Biometrics. 2001 Dec; 57(4):1228-37. PMID: 11764264.
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