Author

Andy Zhou

Chan Zuckerberg Biohub San FranciscoORCID 0000-0003-3383-0855Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 2 Microbiology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Research Focus:cell type annotation· 2 Research Focus:cell-cell communication· 2 Assay:scRNA-seq· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1

Frequent Co-Authors

Norma F NeffiD· 2 shared Alina NalyvaykoiD· 1 shared Amanda Seng· 1 shared Angela M. DetweileriD· 1 shared Angela Oliveira PiscoiD· 1 shared Beth Shoshana ZhaiD· 1 shared Duo PengiD· 1 shared Eric WaltariiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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Curved chords = mutual co-authorship

2 shared papersGenomics

Norma F NeffORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

GenomicsbioRxivPreprintSep 14, 2026

Single-cell splice isoform usage reveals distinct axes of cellular identity and senescence

Madhav Mantri, Angela M. Detweiler, Jaeyoon Lee…·Stephen R. Quake

The paper presents a single-cell long-read isoform atlas across 26 human tissues, revealing novel isoforms and their role in cellular identity and senescence.

DOI 10.64898/2026.09.11.748700

humanscRNA-seq

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GenomicsbioRxivPreprintJun 19, 2026

RNAquarium: an archive-scale atlas of zebrafish gene expression coupled with pan-taxonomic profiling reveals diverse viral drivers of transcriptomic states

Yttria Aniseia, Eric Waltari, H. H. HUANG…·Keir M. Balla

RNAquarium integrates zebrafish and metatranscriptomic data to identify viral drivers of transcriptomic states and support foundation-model training.

1 citation

zebrafishbulk RNA-seq

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MicrobiologyScience AdvancesPeer-reviewedJan 15, 2025

How Mycobacterium tuberculosis builds a home: Single-cell analysis reveals M. tuberculosis ESX-1-mediated accumulation of anti-inflammatory macrophages in infected mouse lungs.

Weihao Zheng, Michael Borja, Leah C. Dorman…·Beth Shoshana Zha

This study uses single-cell RNA sequencing to show that M. tuberculosis ESX-1 promotes the recruitment and differentiation of anti-inflammatory macrophages in infected mouse lungs.

17 citationstop 1%

mousescRNA-seq

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