Author

Alexandra Zhang

Yale UniversityORCID 0000-0003-1194-3066Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Research Focus:software / tool· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Isaac W. VockiD· 2 shared J. Robert HoggiD· 2 shared Justin W. MabiniD· 2 shared Martin MachynaiD· 2 shared Matthew D. SimoniD· 2 shared Ganesha RaiiD· 1 shared Isabelle Nathalie-Marie LeibleriD· 1 shared James IngleseiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersMolecular Biology

Isaac W. VockORCID

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2 papers

Recent·Most cited

Molecular BiologyGenome biologyPeer-reviewedJul 15, 2026

Uncovering the isoform-resolution kinetic landscape of nonsense-mediated mRNA decay with EZbakR

Justin W. Mabin, Isaac W. Vock, Martin Machyna…·J. Robert Hogg

The paper introduces a method to infer isoform-level kinetics of nonsense-mediated mRNA decay using short-read NR-seq data, revealing variability in NMD efficiency and decay rates of transcripts with and without PTCs.

6 citations

bulk RNA-seqstatistical model

𝕏 PostBluesky

BioinformaticsPLoS Computational BiologyPeer-reviewedJul 3, 2025

Expanding and improving analyses of nucleotide recoding RNA-seq experiments with the EZbakR suite

Isaac W. Vock, Justin W. Mabin, Martin Machyna…·Matthew D. Simon

The paper introduces EZbakR and fastq2EZbakR tools to enhance NR-seq data analysis by supporting multi-label modeling, improved variance accounting, and flexible statistical comparisons.

10 citations

bulk RNA-seqstatistical model

𝕏 PostBluesky