Author

Jeremy Marcus

University of California, BerkeleyORCID 0000-0002-1095-6300Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Assay:long-read sequencing· 3 Research Focus:benchmarking· 2 Assay:DNA methylation· 2 Organism:human· 2 Research Focus:software / tool· 2 Assay:ChIP-seq· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Aaron F. StraightiD· 3 shared Aaron StreetsiD· 3 shared Annie MaslaniD· 3 shared Nicolas AltemoseiD· 3 shared Jacob Price SchwartziD· 2 shared Kousik SundararajaniD· 2 shared Nathan I. GamarraiD· 2 shared Oberon Dixon-LuinenburgiD· 2 shared

Activity by Year

2024-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Aaron F. StraightORCID

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Author profile →

3 papers

Recent·Most cited

Integrated analysis of multimodal long-read epigenetic assays

Jeremy Marcus, Oberon Dixon-Luinenburg, Nathan I. Gamarra, Jacob Price Schwartz, Michal Rozenwald, Annie Maslan, Fyodor D. Urnov, Aaron F. Straight, Nicolas Altemose, Nilah M. Ioannidis, Aaron Streets

The paper introduces dimelo-toolkit, a Python package for analyzing multimodal long-read epigenetic data, demonstrating its use with a novel DiMeLo-seq protocol to study chromatin state in GM12878 cells.

bioRxiv · Nov 9, 2025 · PreprintGenomics

DiMeLo-cito: a one-tube protocol for mapping protein-DNA interactions reveals CTCF bookmarking in mitosis

Nathan I. Gamarra, Cy Chittenden, Kousik Sundararajan, Jacob Price Schwartz, Sofia Lundqvist, Denise A. Robles, Oberon Dixon-Luinenburg, Jeremy Marcus, Annie Maslan, John M. Franklin, Aaron Streets, Aaron F. Straight, Nicolas Altemose

DiMeLo-cito improves DiMeLo-seq by eliminating wash steps, enabling mitotic protein-DNA interaction analysis in diploid human cells and revealing CTCF bookmarking.

bioRxiv · Mar 11, 2025 · PreprintGenomics

Mapping protein-DNA interactions with DiMeLo-seq

Annie Maslan, Nicolas Altemose, Jeremy Marcus, Reet Mishra, Lucy D. Brennan, Kousik Sundararajan, Gary H. Karpen, Aaron F. Straight, Aaron Streets

The paper introduces DiMeLo-seq, a method for mapping protein-DNA interactions using long-read sequencing, and provides a protocol and analysis tool.

Nature Protocols · Sep 5, 2024Peer-reviewedGenomics