Author

Pierre Bongrand

Harvard UniversityORCID 0000-0002-7228-1898Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Organism:human· 2 Approach:transformer / foundation model· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Silvi RouskiniD· 2 shared Adam SychlaiD· 1 shared Albéric A. de LajarteiD· 1 shared Alex Kashi· 1 shared Anoop KrishnaniD· 1 shared Casper L’Esperance-KerckhoffiD· 1 shared Colin H. KalickiiD· 1 shared Dragui SalazariD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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2 shared papersMolecular Biology

Silvi RouskinORCID

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2 papers

Recent·Most cited

Molecular BiologybioRxivPreprintSep 24, 2026

✦ In-depth digest

An RNA Language Model trained on sequence alone reveals the structural logic of Internal Ribosome Entry Sites

Adam Sychla, Pierre Bongrand, Grant Yang…·Silvi Rouskin

Continued pretraining of an RNA language model on picornaviral 5′ UTRs alone predicts IRES base pairs with median precision 0.80 versus 0.47 for Infernal, and reveals a Type II subclass.

1 citation

virushuman

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BiochemistryScience AdvancesPeer-reviewedFeb 25, 2026

Diverse Database and Machine Learning Model to narrow the generalization gap in RNA structure prediction

Albéric A. de Lajarte, Yves J. Martin des Taillades, Justin Aruda…·Silvi Rouskin

The paper introduces a diverse RNA structure database and a deep learning model, eFold, which improves RNA secondary structure prediction by emphasizing structural diversity over database size.

18 citationstop 1%

humanstructural biology

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