Author

Amber Z. Shen

Broad InstituteORCID 0000-0002-8050-0851Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Genetics· 2 Genetic & Genomic Medicine· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 3 Approach:statistical model· 3 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:differential expression· 1 Research Focus:eQTL / molecular QTL mapping· 1 Research Focus:GWAS / association mapping· 1 Approach:matrix factorization· 1

Frequent Co-Authors

Karthik A. JagadeeshiD· 2 shared Kushal K. DeyiD· 2 shared Aaron J. WyseiD· 1 shared Accelerating Medicines Partnership Program: Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Network· 1 shared Adam T. Chicoine· 1 shared Alessandra NervianiiD· 1 shared Alkes L. PriceiD· 1 shared Ami Ben‐Artzi· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 38 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

2 shared papersGenetics

Karthik A. JagadeeshORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

GeneticsbioRxivPreprintMay 5, 2026

Highly efficient genotype compression leveraging genealogical relatedness

Amber Z. Shen, Xinran Wang, Nicholas Mancuso, Luke Jen O’Connor

The paper introduces a lossless compression method for genotype data using genealogical relatedness, achieving significant size reduction and speedup in genetic analyses.

DOI 10.64898/2026.04.29.721594

humanwhole-genome sequencing

𝕏 PostBluesky

GeneticsNature CommunicationsPeer-reviewedJan 17, 2024

Leveraging single-cell ATAC-seq to identify disease-critical fetal and adult brain cell types

Samuel Sungil Kim, Buu Minh Thanh Truong, Karthik A. Jagadeesh…·Alkes L. Price

The paper integrates GWAS with scATAC-seq and scRNA-seq data to identify disease-critical fetal and adult brain cell types for multiple traits.

56 citationstop 2%

humanscATAC-seq

𝕏 PostBluesky

Genetic & Genomic MedicineNature GeneticsPeer-reviewedNov 30, 2023

Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution

Joyce B. Kang, Amber Z. Shen, Saisriram Gurajala…·Joseph E. Powell

The paper maps cell-type-specific eQTLs for HLA genes across multiple tissues and identifies dynamic regulation of HLA-DQ genes in immune cells.

49 citationstop 1%

humanbulk RNA-seq

𝕏 PostBluesky