Author

Jessica Ravikoff Allegretti

Brigham and Women's HospitalORCID 0000-0003-3585-2425Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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

Frequent Co-Authors

Bonnie BergeriD· 1 shared David E. Kaplan· 1 shared Georg Kurt GerberiD· 1 shared Lynn BryiD· 1 shared Nicholas DiBenedettoiD· 1 shared Richard LaviniD· 1 shared Sawal Acharya· 1 shared Travis E. GibsoniD· 1 shared

Activity by Year

2025-2025 · peak 1/yr

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9 top collaborators · 36 mutual co-author links

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1 shared paperSystems Biology

Bonnie BergerORCID

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1 paper

Recent·Most cited

Microbial dynamics inference at ecosystem-scale

Travis E. Gibson, Younhun Kim, Sawal Acharya, David E. Kaplan, Nicholas DiBenedetto, Richard Lavin, Bonnie Berger, Jessica Ravikoff Allegretti, Lynn Bry, Georg Kurt Gerber

The paper introduces MDSINE2, a Bayesian method for inferring microbial dynamics from time-series data, and shows it outperforms existing methods in identifying ecosystem-scale interactions.

Nature Microbiology · Sep 9, 2025Peer-reviewedSystems Biology