Author

Jieni Hu

University of Pittsburgh

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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Bioinformatics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:ChIP-seq· 1 Research Focus:database / resource· 1 Assay:Hi-C· 1 Organism:human· 1

Frequent Co-Authors

Maria D. ChikinaiD· 2 shared Ali Tuğrul BalcıiD· 1 shared David Ryan KoesiD· 1 shared Diego Borges-RiveraiD· 1 shared Geoffrey FudenbergiD· 1 shared Jacqueline DreschiD· 1 shared Julianne Fetter· 1 shared Kristina PerevoshchikovaiD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

9 top collaborators · 24 mutual co-author links

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2 shared papersBioinformatics

Maria D. ChikinaORCID

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2 papers

Recent·Most cited

InfluenceNet: Encoding Motif Influence for Interpretable Modeling of Cis-Regulatory Syntax

Jieni Hu, Julianne Fetter, David Ryan Koes, Maria D. Chikina

InfluenceNet directly encodes motif influence in cis-regulatory elements, enabling interpretable prediction of regulatory syntax with performance comparable to state-of-the-art models.

bioRxiv · Nov 20, 2025 · PreprintBioinformatics

Mechanistic Genome Folding at Scale through the Differentiable Loop Extrusion Model

Tina Subic, Ali Tuğrul Balcı, Kristina Perevoshchikova, Diego Borges-Rivera, Jieni Hu, Geoffrey Fudenberg, Jacqueline Dresch, Maria D. Chikina

This paper introduces dLEM, a differentiable loop extrusion model that predicts genome folding mechanisms from contact maps and integrates with deep learning to infer extrusion parameters from genomic features.

bioRxiv · Oct 17, 2025 · PreprintGenomics