Author

Simon P. Shen

Broad InstituteORCID 0000-0003-2310-7831Unclaimed 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· 2 Assay:ATAC-seq· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Assay:CRISPR screen· 1 Research Focus:drug response / drug discovery· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Allison P. SiegenfeldiD· 1 shared Brian B. LiauiD· 1 shared C. GuoiD· 1 shared Caroline ComenhoiD· 1 shared Ceejay LeeiD· 1 shared Heejin RohiD· 1 shared Howard J. GrittoniD· 1 shared Hu YaniD· 1 shared

Activity by Year

2018-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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1 shared paperMolecular Biology

Allison P. SiegenfeldORCID

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2 papers

Recent·Most cited

Molecular BiologyNature MethodsPeer-reviewedSep 11, 2025

Coupling CRISPR Scanning with Targeted Chromatin Accessibility Profiling using a Double-Stranded DNA Deaminase

Heejin Roh, Simon P. Shen, Hu Yan…·Brian B. Liau

This paper introduces TDAC-seq, a method combining CRISPR perturbations with chromatin accessibility profiling to study cis-regulatory elements at single-nucleotide resolution.

9 citations

humanCRISPR screen

𝕏 PostBluesky

NeuroscienceeNeuroPeer-reviewedSep 1, 2018

Automatic Cell Segmentation by Adaptive Thresholding (ACSAT) for large scale calcium imaging datasets

Simon P. Shen, Hua-an Tseng, Kyle Hansen…·Xue Han

ACSAT automatically segments neurons in large-scale calcium imaging datasets using adaptive thresholding, achieving 80% precision and recall comparable to human inspection.

29 citations

mouseimaging

𝕏 PostBluesky