Author

Udayakumar S. Vishnu

New England Biolabs (United States)

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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Genetics· 2 Genomics· 2 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 5 Research Focus:gene regulatory network inference· 3 Assay:ATAC-seq· 2 Organism:human· 2 Organism:mouse· 2 Research Focus:variant calling· 2 Organism:bacteria (other)· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Hang Gyeong Chin· 4 shared Pierre‐Olivier EstèveiD· 4 shared Sriharsa PradhaniD· 4 shared Sagnik SeniD· 2 shared Changhui GuaniD· 1 shared Cristian I. RuseiD· 1 shared Gabriel L. LozanoiD· 1 shared George R. Feehery· 1 shared

Activity by Year

2019-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 22 mutual co-author links

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4 shared papersGenetics

Hang Gyeong Chin

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5 papers

Recent·Most cited

Distinct structural and functional heterochromatin partitioning of lamin B1 and B2 revealed using genome-wide Nicking Enzyme Epitope targeted DNA sequencing.

Sagnik Sen, Pierre‐Olivier Estève, Raman Karthikeyan, Julie Beaulieu, Hang Gyeong Chin, George R. Feehery, Udayakumar S. Vishnu, S.-y. Xu, James C. Samuelson, Sriharsa Pradhan

The paper uses NEED-seq to show lamin B1 and B2 associate with distinct heterochromatin states and are linked to neuronal development.

Nucleic Acids Research · Dec 26, 2024Peer-reviewedGenomics

Poly ADP-ribosylation of SET8 leads to aberrant H4K20 methylation domains in mammalian cells

Pierre‐Olivier Estève, Sagnik Sen, Udayakumar S. Vishnu, Cristian I. Ruse, Hang Gyeong Chin, Sriharsa Pradhan

This study shows that PARP1 poly ADP-ribosylates SET8, impairing its function and leading to altered H4K20 methylation domains and chromatin states.

Communications Biology · Nov 25, 2022Peer-reviewedMolecular Biology

Universal NicE-seq for high resolution accessible chromatin profiling for formaldehyde fixed and FFPE tissues

Hang Gyeong Chin, Zhiyi Sun, Udayakumar S. Vishnu, Pengying Hao, Paloma Cejas, George Spracklin, Pierre‐Olivier Estève, Shuang-yong Xu, Henry W. Long, Sriharsa Pradhan

The paper introduces UniNicE-seq, a method for high-resolution accessible chromatin profiling in formaldehyde-fixed and FFPE tissues without optimization steps.

Clinical Epigenetics · Sep 22, 2020Peer-reviewedGenetics

Visualization and sequencing of accessible chromatin reveals cell cycle and post romidepsin treatment dynamics

Pierre‐Olivier Estève, Udayakumar S. Vishnu, Hang Gyeong Chin, Sriharsa Pradhan

The paper uses NicE-viewSeq to study chromatin accessibility dynamics during the cell cycle and after histone deacetylase inhibition, finding preserved accessibility with subtle changes and correlations with gene expression.

Journal of Molecular Biology · Aug 4, 2020Peer-reviewedGenetics

Evaluation of InSeq to Identify Genes Essential for Pseudomonas aeruginosa PGPR2 Corn Root Colonization

R Sivakumar, Jothi Ranjani, Udayakumar S. Vishnu, Sathyanarayanan Jayashree, Gabriel L. Lozano, Jessica Miles, Nichole A. Broderick, Changhui Guan, P. Gunasekaran, Jo Handelsman, Jeyaprakash Rajendhran

This study uses INSeq to identify 108 genes essential for Pseudomonas aeruginosa PGPR2 root colonization, with four genes validated through mutant testing.

G3 Genes Genomes Genetics · Jan 31, 2019Peer-reviewedGenomics