Author

Ren Yi

Courant Institute of Mathematical SciencesORCID 0000-0002-0238-3573Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Systems Biology· 2

Signature Assays, Organisms & Methods

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Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Assay:ChIP-seq· 1 Assay:DNA methylation· 1 Organism:mouse· 1 Assay:scRNA-seq· 1 Organism:yeast· 1

Frequent Co-Authors

Richard BonneauiD· 2 shared Aaron WattersiD· 1 shared Aashna Shah· 1 shared Andreas TjärnbergiD· 1 shared Bram L. GorisseniD· 1 shared Christopher A. JacksoniD· 1 shared Claudia Skok GibbsiD· 1 shared David GreshamiD· 1 shared

Activity by Year

2022-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersSystems Biology

Richard BonneauORCID

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2 papers

Recent·Most cited

NetTIME: a multitask and base-pair resolution framework for improved transcription factor binding site prediction

Ren Yi, Kyunghyun Cho, Richard Bonneau

NetTIME improves TF binding site prediction using multitask learning and base-pair resolution, outperforming existing methods in supervised and transfer learning settings.

Bioinformatics · Aug 23, 2022Peer-reviewedSystems Biology

High performance single-cell gene regulatory network inference at scale: The Inferelator 3.0

Claudia Skok Gibbs, Christopher A. Jackson, Giuseppe-Antonio Saldi, Andreas Tjärnberg, Aashna Shah, Aaron Watters, Nicholas De Veaux, Konstantine Tchourine, Ren Yi, Tymor Hamamsy, Dayanne M. Castro, Nicholas John Carriero, Bram L. Gorissen, David Gresham, Emily R. Miraldi, Richard Bonneau

The paper introduces Inferelator 3.0, a tool for inferring gene regulatory networks from single-cell data, showing improved performance on yeast and mouse brain datasets.

Bioinformatics · Feb 17, 2022Peer-reviewedSystems Biology