Author

Simon Boudreault

University of PennsylvaniaORCID 0000-0002-0517-9092Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:cell signaling & trafficking· 1 Research Focus:chromatin & epigenetic regulation· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1

Frequent Co-Authors

Kristen W. LynchiD· 2 shared Max FerrettiiD· 2 shared Asmita Panthi· 1 shared Attila GáboriD· 1 shared Bertram L. JacobsiD· 1 shared Gurdeep SinghiD· 1 shared James Bonner· 1 shared Mathieu Quesnel-VallièresiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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2 shared papersImmunology

Kristen W. LynchORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

ImmunologybioRxivPreprintSep 24, 2026

Mapping global transcript isoform landscapes of influenza A virus infection and interferon stimulation reveals RNA-binding protein networks associated with immune remodeling

Simon Boudreault, Rosa D. Hernansaiz-Ballesteros, Attila Gábor…·Steven F. Baker

The paper uses hybrid RNA sequencing to analyze transcript isoform changes during influenza infection and interferon treatment, identifying RNA-binding proteins involved in immune remodeling.

DOI 10.64898/2026.09.22.753599

virusbulk RNA-seq

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ImmunologyProceedings of the National Academy of SciencesPeer-reviewedJan 9, 2026

Nonsense-mediated decay controls a negative feedback loop in innate immune sensing

Simon Boudreault, Yahira Rivera-Lopez, Max Ferretti…·Kristen W. Lynch

The paper shows that dsRNA sensing inhibits NMD, forming a negative feedback loop that limits dsRNA-mediated immune responses.

5 citationstop 4%

multiomeexperimental assay

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Molecular BiologyCell ReportsPeer-reviewedAug 19, 2025

Alternate isoforms of IRF7 Differentially Regulate Interferon Expression to Tune Response to Viral Infection

Asmita Panthi, Max Ferretti, Olivia Howard…·Kristen W. Lynch

This study identifies an alternative splicing mechanism in IRF7 that generates a protein isoform with enhanced transcriptional activity, leading to increased resistance to viral infection.

9 citations

humanstatistical model

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