Rafael A. Irizarry - Publications, H-index & Citations

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Rafael A. Irizarry

Harvard University

99H-index

414Paper Count

11.1WCitation Count

Published Papers 107

Publication Date

Inhibition of salt-inducible kinases reprograms T cells and antitumor immunity in ovarian cancer

Nature Immunology

IF27.6

2026-05-20

PREAI

Han Dong; Arindam Ray; Lara K. Rotter; Jinhua Wang; Isabella Grabski; Heemaja Mewada; Lulu Wang; Kun Huang; Ye Tian; Maxime Meylan; Graham Barlow; Chenyang Yu; Mahesh Raundhal; Sung-Hee Yoon; Shreya Nakhawa; Liya Ding; Jean J. Zhao; Ursula A. Matulonis; Marc Foretz; Kai W. Wucherpfennig; Rafael A. Irizarry; Marc N. Wein; Laurie H. Glimcher

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Setting higher standards for reports of microbial species in human cancers

Nature Cancer

IF28.5

2026-02-19

PREAI

Steven L. Salzberg; Minghao Chia; Alfred Tay; Noel F.C.C. de Miranda; Vincent Smit; Jelle Wesseling; Rafael Irizarry; Barry Marshall; Eske Willerslev; Jacques Neefjes; Niranjan Nagarajan

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An image-based transcriptomics atlas reveals the regional and microbiota-dependent molecular, cellular, and spatial structure of the murine gut

Cell Host & Microbe

IF18.7

2026-02-19

OAAI

Rosalind J. Xu; Hao Zhang; Paolo Cadinu; Phillip B. Nicol; Uli S. Herrmann; Tyrone Lee; Ludwig Geistlinger; Rafael A. Irizarry; Jeffrey R. Moffitt

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Robust identification of perturbed cell types in single-cell RNA-seq data

NATURE COMMUNICATIONS

IF15.7

2024-09-01

OAAI

Nicol, Phillip B.; Paulson, Danielle; Qian, Gege; Liu, X. Shirley; Irizarry, Rafael; Sahu, Avinash D.

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Detection of allele-specific expression in spatial transcriptomics with spASE

GENOME BIOLOGY

IF9.4

2024-07-08

OAAI

Zou, Luli S.; Cable, Dylan M.; Barrera-Lopez, Irving A.; Zhao, Tongtong; Murray, Evan; Aryee, Martin J.; Chen, Fei; Irizarry, Rafael A.

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DNA binding analysis of rare variants in homeodomains reveals homeodomain specificity-determining residues

NATURE COMMUNICATIONS

IF15.7

2024-04-10

OAAI

Kock, Kian Hong; Kimes, Patrick K.; Gisselbrecht, Stephen S.; Inukai, Sachi; Phanor, Sabrina K.; Anderson, James T.; Ramakrishnan, Gayatri; Lipper, Colin H.; Song, Dongyuan; Kurland, Jesse V.; Rogers, Julia M.; Jeong, Raehoon; Blacklow, Stephen C.; Irizarry, Rafael A.; Bulyk, Martha L.

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Effects of KRAS Genetic Interactions on Outcomes in Cancers of the Lung, Pancreas, and Colorectum

CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

IF3.4

2023-11-09

OAAI

Grabski, Isabella N.; Heymach, John V.; Kehl, Kenneth L.; Kopetz, Scott; Lau, Ken S.; Riely, Gregory J.; Schrag, Deborah; Yaeger, Rona; Irizarry, Rafael A.; Haigis, Kevin M.

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UBR5 forms ligand-dependent complexes on chromatin to regulate nuclear hormone receptor stability

MOLECULAR CELL

IF16.6

2023-08-01

OAAI

Tsai, Jonathan M.; Aguirre, Jacob D.; Li, Yen-Der; Brown, Jared; Focht, Vivian; Kater, Lukas; Kempf, Georg; Sandoval, Brittany; Schmitt, Stefan; Rutter, Justine C.; Galli, Pius; Sandate, Colby R.; Cutler, Jevon A.; Zou, Charles; Donovan, Katherine A.; Lumpkin, Ryan J.; Cavadini, Simone; Park, Paul M. C.; Sievers, Quinlan; Hatton, Charlie; Ener, Elizabeth; Regalado, Brandon D.; Sperling, Micah T.; Sabicki, Mikoaj; Kim, Jeonghyeon; Zon, Rebecca; Zhang, Zinan; Miller, Peter G.; Belizaire, Roger; Sperling, Adam S.; Fischer, Eric S.; Irizarry, Rafael; Armstrong, Scott A.; Thoma, Nicolas H.; Ebert, Benjamin L.

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Significance analysis for clustering with single-cell RNA-sequencing data

NATURE METHODS

IF32.1

2023-07-10

OAAI

Grabski, Isabella N.; Street, Kelly; Irizarry, Rafael A.

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Discovery of antibodies and cognate surface targets for ovarian cancer by surface profiling

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

IF9.1

2022-12-27

OAAI

Schroefelbauer, Baerbel; Kimes, Patrick K.; Hauke, Paige; Reid, Charlotte E.; Shao, Kevin; Hill, Sarah J.; Irizarry, Rafael; Hahn, William C.

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Cell type-specific inference of differential expression in spatial transcriptomics

NATURE METHODS

IF32.1

2022-09-01

OAAI

Cable, Dylan M.; Murray, Evan; Shanmugam, Vignesh; Zhang, Simon; Zou, Luli S.; Diao, Michael; Chen, Haiqi; Macosko, Evan Z.; Irizarry, Rafael A.; Chen, Fei

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Differential richness inference for 16S rRNA marker gene surveys

GENOME BIOLOGY

IF9.4

2022-08-01

OAAI

Kumar, M. Senthil; Slud, Eric V.; Hehnly, Christine; Zhang, Lijun; Broach, James; Irizarry, Rafael A.; Schiff, Steven J.; Paulson, Joseph N.

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mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis

BMC GENOMICS

IF3.7

2022-06-13

OAAI

Movassagh, Mercedeh; Morton, Sarah U.; Hehnly, Christine; Smith, Jasmine; Doan, Trang T.; Irizarry, Rafael; Broach, James R.; Schiff, Steven J.; Bailey, Jeffrey A.; Paulson, Joseph N.

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Effectiveness estimates of three COVID-19 vaccines based on observational data from Puerto Rico

LANCET REGIONAL HEALTH-AMERICAS

IF7.6

2022-05-01

OAAI

Robles-Fontan, Monica M.; Nieves, Elvis G.; Cardona-Gerena, Iris; Irizarry, Rafael A.

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Characterizing batch effects and binding site-specific variability in ChIP-seq data

genomics proteomics bioinformatics

IF2.8

2021-10-14

OAAI

Teng, Mingxiang; Du, Dongliang; Chen, Danfeng; Irizarry, Rafael A.

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Vaginal microbiome topic modeling of laboring Ugandan women with and without fever

NPJ BIOFILMS AND MICROBIOMES

IF9.2

2021-09-10

OAAI

Movassagh, Mercedeh; Bebell, Lisa M.; Burgoine, Kathy; Hehnly, Christine; Zhang, Lijun; Moran, Kim; Sheldon, Kathryn; Sinnar, Shamim A.; Mbabazi-Kabachelor, Edith; Kumbakumba, Elias; Bazira, Joel; Ochora, Moses; Mulondo, Ronnie; Nsubuga, Brian Kaaya; Weeks, Andrew D.; Gladstone, Melissa; Olupot-Olupot, Peter; Ngonzi, Joseph; Roberts, Drucilla J.; Meier, Frederick A.; Irizarry, Rafael A.; Broach, James R.; Schiff, Steven J.; Paulson, Joseph N.

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Excess deaths associated with covid-19 pandemic in 2020: age and sex disaggregated time series analysis in 29 high income countries

BMJ-BRITISH MEDICAL JOURNAL

IF42.7

2021-05-19

289

OAAI

Islam, Nazrul; Shkolnikov, Vladimir M.; Acosta, Rolando J.; Klimkin, Ilya; Kawachi, Ichiro; Irizarry, Rafael A.; Alicandro, Gianfranco; Khunti, Kamlesh; Yates, Tom; Jdanov, Dmitri A.; White, Martin; Lewington, Sarah; Lacey, Ben

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Robust decomposition of cell type mixtures in spatial transcriptomics

NATURE BIOTECHNOLOGY

IF41.7

2021-02-18

417

OAAI

Cable, Dylan M.; Murray, Evan; Zou, Luli S.; Goeva, Aleksandrina; Macosko, Evan Z.; Chen, Fei; Irizarry, Rafael A.

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Every Body Counts: Measuring Mortality From the COVID-19 Pandemic

ANNALS OF INTERNAL MEDICINE

IF15.2