Author

Joshua Gardner

University of California, Santa Cruz

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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Genetic & Genomic Medicine· 2

Signature Assays, Organisms & Methods

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Organism:human· 2 Research Focus:variant calling· 2 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1 Assay:long-read sequencing· 1 Approach:statistical model· 1

Frequent Co-Authors

Anton GoretskyiD· 2 shared Asher BryantiD· 2 shared Ataberk DonmeziD· 2 shared Ayşe Gökçe KeşküşiD· 2 shared Bao Quoc TraniD· 2 shared Benedict PateniD· 2 shared Brandy McNulty· 2 shared Byunggil YooiD· 2 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersGenetic & Genomic Medicine

Anton GoretskyORCID

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2 papers

Recent·Most cited

Wakhan: reconstruction of chromosome-scale copy number profiles of tumor genomes with long-read sequencing

Tanveer Ahmad, Ayşe Gökçe Keşküş, Sergey S. Aganezov, Anton Goretsky, Isabel Rodriguez, Byunggil Yoo, Lisa A. Lansdon, Elena A. Repnikova, Lei Zhang, Yuelin Liu, Ataberk Donmez, Asher Bryant, Sonam Tulsyan, Jimin Park, Joshua Gardner, , Mikhail Kolmogorov

Wakhan reconstructs chromosome-scale copy number profiles of tumor genomes using long-read sequencing, showing better consistency with data than existing methods.

medRxiv · Dec 15, 2025 · PreprintGenetic & Genomic Medicine

Severus: accurate detection and characterization of somatic structural variation in tumor genomes using long reads

Ayşe Gökçe Keşküş, Asher Bryant, Tanveer Ahmad, Byunggil Yoo, Sergey S. Aganezov, Anton Goretsky, Ataberk Donmez, Lisa A. Lansdon, Isabel Rodriguez, Jimin Park, Yuelin Liu, Xiwen Cui, Joshua Gardner, Brandy McNulty, Samuel Sacco, , Mikhail Kolmogorov

Severus detects and characterizes somatic structural variations in tumor genomes using long reads, outperforming existing methods in accuracy and revealing clinically relevant rearrangements.

Nature Biotechnology · Apr 4, 2025Peer-reviewedGenetic & Genomic Medicine