Author

Derek J. Le

Stanford Medicine

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· 1 Genomics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Research Focus:gene regulatory network inference· 3 Assay:ATAC-seq· 1 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Assay:ChIP-seq· 1 Research Focus:differential expression· 1 Assay:Hi-C· 1

Frequent Co-Authors

Alistair Nicol BoettigeriD· 2 shared Antonina HafneriD· 2 shared Ke WangiD· 2 shared Abby R. ThurmiD· 1 shared Benjamin R. DoughtyiD· 1 shared Callan P. O’SheaiD· 1 shared Carolina Rios-MartineziD· 1 shared Joydeb SinhaiD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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2 shared papersGenetics

Alistair Nicol BoettigerORCID

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3 papers

Recent·Most cited

Single-cell chromatin state transitions during epigenetic memory formation

Taihei Fujimori, Abby R. Thurm, Simon Gaudin, Owen R. S. Dunkley, Carolina Rios-Martinez, Michaela M. Hinks, Benjamin R. Doughty, Joydeb Sinha, Derek J. Le, Antonina Hafner, William James Greenleaf, Alistair Nicol Boettiger, Lacramioara Bintu

The paper investigates chromatin state transitions during epigenetic memory formation by analyzing single-cell gene expression and chromatin structure changes after repressor recruitment and release.

Science Advances · Jul 23, 2026Peer-reviewedGenetics

Super-enhancer interactomes from single cells link clustering and transcription

Derek J. Le, Antonina Hafner, Sadhana Gaddam, Ke Wang, Alistair Nicol Boettiger

The paper maps single-cell super-enhancer interactomes, revealing that SEs form loose communities linked to transcriptional bursts.

bioRxiv · May 8, 2024 · PreprintMolecular Biology

Schizophrenia Risk Mapping and Functional Engineering of the 3D Genome in Three Neuronal Subtypes

Samuel K. Powell, Will Liao, Callan P. O’Shea, Sarah Kammourh, Sadaf Ghorbani, Raymond Rigat, Rahat Elahi, PJ Michael Deans, Derek J. Le, Poonam Agarwal, Wei Qiang Seow, Ke Wang, Schahram Akbarian, Kristen Brennand

The paper maps 3D chromatin structures in neuronal subtypes and shows how schizophrenia risk loci reorganize during differentiation, linking regulatory loops to gene function.

bioRxiv · Jul 17, 2023 · PreprintGenomics