Author

Clairine I. S. Larsen

University of Wisconsin–Madison

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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Microbiology· 3 Genomics· 2

Signature Assays, Organisms & Methods

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Research Focus:gene regulatory network inference· 4 Approach:experimental assay· 3 Assay:DNA methylation· 2 Organism:Drosophila· 2 Organism:human· 2 Assay:proteomics· 2 Approach:statistical model· 2 Research Focus:cell signaling & trafficking· 1

Frequent Co-Authors

Kinjal MajumderiD· 3 shared Gopishankar ThirumoorthyiD· 2 shared Jeffrey S. ThompsoniD· 2 shared Lori BoiesiD· 2 shared Rachael CowaniD· 2 shared Rhiannon R. AbrahamsiD· 2 shared Alyssa KoehleriD· 1 shared Amun Uppal· 1 shared

Activity by Year

2025-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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3 shared papersMicrobiology

Kinjal MajumderORCID

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Author profile →

5 papers

Recent·Most cited

CTCF regulates wild-type and recombinant AAV gene expression by shaping viral chromatin

Clairine I. S. Larsen, Rhiannon R. Abrahams, Rea Guertler, Elliott M. Wilion, Eda Erata, Zachary H. Sykes, Lorelei Stoica, Gopishankar Thirumoorthy, Divya Sinha, Richa Rai, Elizabeth K. Hofer, Eleanor Hart, David M. Gamm, Matthew S. Fuller, Kinjal Majumder

This study identifies a CTCF-binding element in the wtAAV2 genome that enhances rAAV transgene expression by shaping chromatin structure, offering a strategy to improve gene therapy vectors.

bioRxiv · Jun 3, 2026 · PreprintMicrobiology

The interaction between virus-bound KLF4 and host-bound PARP1 directs the localization of Adeno-Associated Virus Type 2 (wtAAV2) to cellular sites of DNA damage

Rhiannon R. Abrahams, Clairine I. S. Larsen, Raymond Ha, Kinjal Majumder

This paper identifies a mechanism by which wtAAV2 localizes to DNA damage sites via KLF4 and PARP1 interactions, showing that enhancing KLF4 binding improves rAAV vector performance.

bioRxiv · Feb 26, 2026 · PreprintMicrobiology

Gene model for the ortholog of Ilp4 in Drosophila eugracilis

Rachael Cowan, Amun Uppal, Clairine I. S. Larsen, Christopher E. Ellison, Nicole S. Torosin, Jeffrey S. Thompson, Chinmay P Rele, Lori Boies

The paper characterizes the Ilp4 ortholog in D. eugracilis as part of a study on IIS pathway evolution across Drosophila species.

bioRxiv · Sep 5, 2025 · PreprintGenomics

Gene model for the ortholog of Ilp4 in Drosophila grimshawi

Rachael Cowan, Alyssa Koehler, Clairine I. S. Larsen, Jeffrey S. Thompson, Andrew M. Arsham, Lori Boies

The paper characterizes the Ilp4 ortholog in Drosophila grimshawi as part of a dataset studying IIS pathway evolution.

bioRxiv · Aug 25, 2025 · PreprintGenomics

Adeno-Associated Virus 2 (AAV2) - induced RPA exhaustion generates cellular DNA damage and restricts viral gene expression

Monnette F. Summers, MegAnn K. Haubold, Marcel Morgenstern, Phoenix M. Shepherd, Clairine I. S. Larsen, Ava E. Bartz, Gopishankar Thirumoorthy, Robert N. Kirchdoerfer, Joshua J. Coon, Kavi P.M. Mehta, Kinjal Majumder

This study shows that AAV2 genomes compete with host RPA for binding, causing replication stress and DNA damage, which suppresses viral gene expression.

PLoS Pathogens · Aug 18, 2025Peer-reviewedMicrobiology