Author

Berkay Engin

Boston University

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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Genomics· 2

Signature Assays, Organisms & Methods

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Organism:human· 2 Assay:bulk RNA-seq· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Research Focus:gene regulatory network inference· 1 Approach:machine learning (classical)· 1 Approach:statistical model· 1

Frequent Co-Authors

George D. Muñoz-EsquiveliD· 2 shared Jaice T. RottenbergiD· 2 shared Juan I. Fuxman BassiD· 2 shared Lucía Martínez CuestaiD· 2 shared Anna BerensoniD· 1 shared Benedetta D’Elia· 1 shared Cheng-Che Lee· 1 shared Clarissa Stephanie SantosoiD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersGenomics

George D. Muñoz-EsquivelORCID

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2 papers

Recent·Most cited

Viral transcriptional regulators extensively rewire host pathways through diverse mechanisms

Jaice T. Rottenberg, Xing Liu, Anna Berenson, Luis F. Soto, Mohamed Yousry ElSadec, Clarissa Stephanie Santoso, James E. Corban, Phillip J. Dexheimer, Berkay Engin, Ryan Lane, Sakshi Shah, Kerstin Spirohn, Shubham Khetan, Cheng-Che Lee, George D. Muñoz-Esquivel, , Juan I. Fuxman Bass

This study systematically profiles 95 viral transcriptional regulators (vTRs) across multiple assays, revealing their diverse mechanisms of rewiring host pathways to promote viral replication and disease links.

bioRxiv · Dec 2, 2025 · PreprintGenomics

Global cis-regulatory landscape of double-stranded DNA viruses

Tommy Henry Taslim, Joseph Alexander Finkelberg, Susan Kales, Luis F. Soto-Ugaldi, Benedetta D’Elia, Berkay Engin, George D. Muñoz-Esquivel, Elvis Morara, Jacob Purinton, Harshpreet Chandok, Jaice T. Rottenberg, Rodrigo I. Castro, Lucía Martínez Cuesta, Matias Alejandro Paz, Ryan Tewhey, Juan I. Fuxman Bass

The paper identifies ~2,000 cis-regulatory elements (CREs) across 27 dsDNA viruses using reporter assays and machine learning, revealing their regulatory features and associated transcription factors.

bioRxiv · Jul 20, 2025 · PreprintGenomics