Author

Andrew Castillo

Broad Institute

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Cancer Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Assay:ATAC-seq· 2 Approach:deep learning· 2 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell type annotation· 1 Research Focus:chromatin & epigenetic regulation· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Jason Daniel BuenrostroiD· 2 shared Ruochi ZhangiD· 2 shared Ajay S. LabadeiD· 1 shared Alia MelikiiD· 1 shared Amy J. WagersiD· 1 shared Andrew EarliD· 1 shared Charles B. EpsteiniD· 1 shared Daniel ZeveiD· 1 shared

Activity by Year

2023-2025 · peak 1/yr

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10 top collaborators · 30 mutual co-author links

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2 shared papersCancer Biology

Jason Daniel BuenrostroORCID

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2 papers

Recent·Most cited

Clonal memory of colitis accumulates and promotes tumor growth

Surya Nagaraja, Lety Ojeda-Miron, Ruochi Zhang, Ena Oreskovic, Yan Hu, Daniel Zeve, Karina Sharma, Roni R. Hyman, Qiming Zhang, Andrew Castillo, David T. Breault, Ömer H. Yilmaz, Jason Daniel Buenrostro

The paper shows that colitis leaves an epigenetic memory in colonic stem cells that promotes tumor growth by enhancing regenerative gene programs and AP-1 activity.

bioRxiv · Feb 13, 2025 · PreprintCancer Biology

Single-cell multi-scale footprinting reveals the modular organization of DNA regulatory elements

Yan Hu, Sai Ma, Vinay K. Kartha, Fabiana M. Duarte, Max A. Horlbeck, Ruochi Zhang, Rojesh Shrestha, Ajay S. Labade, Heidi Kletzien, Alia Meliki, Andrew Castillo, Neva C. Durand, Eugenio Mattei, Lauren J. Anderson, Tristan Tay, , Jason Daniel Buenrostro

The paper introduces PRINT, a deep learning method to correct chromatin accessibility data and analyze DNA-protein interactions, revealing structural and functional changes in cis-regulatory elements during hematopoiesis and aging.

bioRxiv · Mar 28, 2023 · PreprintGenomics