Author

Hannah J. Ashe

NYU Langone Health

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· 4

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Organism:mouse· 4 Assay:ChIP-seq· 3 Assay:DNA methylation· 2 Research Focus:gene regulatory network inference· 2 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Research Focus:fine-mapping· 1

Frequent Co-Authors

André Mauricio Ribeiro-dos-SantosiD· 4 shared Jef D. BoekeiD· 4 shared Matthew T. MauranoiD· 4 shared Ran BroshiD· 4 shared Raquel OrdóñeziD· 4 shared Emily HuangiD· 3 shared Gwen EllisiD· 3 shared Megan S. HoganiD· 2 shared

Activity by Year

2023-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersGenomics

André Mauricio Ribeiro-dos-SantosORCID

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4 papers

Recent·Most cited

Synthetic genomic dissection of enhancer context sensitivity and synergy

Raquel Ordóñez, André Mauricio Ribeiro-dos-Santos, Colleen Mcloughlin, Gwen Ellis, Hannah J. Ashe, Nerea Berastegui, Ran Brosh, Miłosz Majewski, Kelly Barriball, Brendan R. Camellato, Jef D. Boeke, Matthew T. Maurano

The paper identifies context-dependent enhancer synergy in mouse embryonic stem cells, showing that enhancers can significantly boost neighboring DHS activity and that this synergy depends on distance and specific transcription factor sequences.

bioRxiv · Aug 13, 2025 · PreprintGenomics

Genomic context sensitizes regulatory elements to genetic disruption

Raquel Ordóñez, Weimin Zhang, Gwen Ellis, Yinan Zhu, Hannah J. Ashe, André Mauricio Ribeiro-dos-Santos, Ran Brosh, Emily Huang, Megan S. Hogan, Jef D. Boeke, Matthew T. Maurano

The paper investigates how genomic context affects enhancer function by analyzing the murine Igf2/H19 locus and shows that regulatory elements depend on their native surroundings.

Molecular Cell · May 1, 2024Peer-reviewedGenomics

Mouse genomic rewriting and tailoring: synthetic Trp53 and humanized ACE2

Weimin Zhang, Ilona Golynker, Ran Brosh, Álvaro Fajardo, Yinan Zhu, Aleksandra M. Wudzinska, Raquel Ordóñez, André Mauricio Ribeiro-dos-Santos, Lucía Carrau, Payal Damani‐Yokota, Stephen T. Yeung, Camille F Khairallah, Antonio Vela Gartner, Noor Chalhoub, Emily Huang, , Jef D. Boeke

This paper introduces mSwAP-In, a method for efficient genome rewriting in mouse embryonic stem cells, demonstrating its use for Trp53 and ACE2 locus modifications to create more accurate disease models.

Nature · Nov 1, 2023Peer-reviewedGenomics

Synthetic regulatory genomics uncovers enhancer context dependence at the Sox2 locus

Ran Brosh, Camila Coelho, André Mauricio Ribeiro-dos-Santos, Gwen Ellis, Megan S. Hogan, Hannah J. Ashe, Nicolette Somogyi, Raquel Ordóñez, Raven D. Luther, Emily Huang, Jef D. Boeke, Matthew T. Maurano

The paper uses synthetic regulatory genomics to study Sox2 expression in mESCs, finding that some enhancer regions are context-dependent and can enhance core regulatory elements.

Molecular Cell · Mar 16, 2023Peer-reviewedGenomics