Author

Nicolas Lonfat

Howard Hughes Medical InstituteORCID 0000-0001-7078-3301Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Developmental Biology· 3 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Organism:mouse· 4 Approach:statistical model· 4 Assay:ATAC-seq· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:DNA methylation· 1

Frequent Co-Authors

Constance L. CepkoiD· 4 shared ChangHee LeeiD· 2 shared Sui WangiD· 2 shared Alexander E. DavisiD· 1 shared Andrew E. O. HughesiD· 1 shared Candace S. Y. ChaniD· 1 shared Carlos Perez-CervantesiD· 1 shared Chaitra PrabhakaraiD· 1 shared

Activity by Year

2020-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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4 shared papersDevelopmental Biology

Constance L. CepkoORCID

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4 papers

Recent·Most cited

Developmental BiologybioRxivPreprintJan 4, 2026

Integration of in situ hybridization and scRNA-seq data provides a 2D topographical map of the developing retina across species

Heer N.V. Joisher, ChangHee Lee, Chaitra Prabhakara…·Constance L. Cepko

The paper integrates in situ hybridization and scRNA-seq data to create 2D topographic maps of the developing retina across species, revealing conserved and divergent patterning programs.

DOI 10.64898/2026.01.04.697548

humanmouse

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Developmental BiologyDevelopmentPeer-reviewedApr 24, 2021

Otx2 and Oc1 directly regulate the transcriptional program of cone photoreceptor development

Nicolas Lonfat, Su Wang, ChangHee Lee…·Constance L. Cepko

The paper identifies cis-regulatory modules regulated by Otx2 and Oc1 in cone photoreceptor development and shows Otx2 autoregulation.

21 citations

mousebulk RNA-seq

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Developmental BiologyDevelopmentPeer-reviewedJul 6, 2020

Cell type- and stage-specific expression of Otx2 is coordinated by a cohort of transcription factors and multiple cis-regulatory modules in the retina

Candace S. Y. Chan, Nicolas Lonfat, Rong Zhao…·Sui Wang

39 citations

mouseATAC-seq

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Molecular BiologyDevelopmentPeer-reviewedJan 8, 2020

Enhancer transcription identifies cis-regulatory elements for photoreceptor cell types

Rangarajan D. Nadadur, Carlos Perez-Cervantes, Nicolas Lonfat…·Ivan P. G. Moskowitz

The paper identifies cis-regulatory elements (CREs) for photoreceptor cell types using Nrl-dependent ncRNA profiling and ATAC-seq in mouse retina.

21 citations

mouseATAC-seq

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