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The Rohs Lab

Department of Quantitative and Computational Biology

University of Southern California


Welcome to the Rohs Lab

About our Computational Biology and Bioinformatics research group

Main Focus

The main focus of our Computational Biology and Bioinformatics research group is the integration of two fields of research: genomics and structural biology.

Who Can Join

Professor Rohs can accept graduate students from the following Ph.D. Programs as primary thesis adviser: Computational Biology and Bioinformatics, Chemistry, Physics, and Computer Science.


Professor Rohs also advises graduate students from the Master's Program in Quantitative and Computational Biology and undergraduate students from the Bachelor's Program in Quantitative Biology.

Primary Goal

Our primary goal is to reveal yet unknown molecular mechanisms underlying gene regulation using bioinformatics analyses of high-throughput sequencing and DNA methylation data of whole genomes, integrated with experimental molecular biology approaches.


Structural biology and genomics are big fields, but there is little interaction between these two worlds.

Genomics thinks of entire genomes in terms of sequence, and structural biology thinks of 3-D structures at high resolution but limited size."

- Remo Rohs, Ph.D. 

Selected Publications

J. Li, et al.:
Predicting DNA structure using a deep learning method
Nat. Commun. 15, 1243 (2024)

J.M. Sagendorf, et al.:
PNAbind: Structure-based prediction of protein-nucleic acid binding using graph neural networks
bioRxiv 2024.02.27.582387 (2024)

Y. Jiang, et al.:

Probing the role of the protonation state of a minor groove linker histidine in Exd-Hox-DNA binding.

Biophys. J. 123, 248-259 (2024)

J.A. Weller and R. Rohs:
DrugHIVE: A deep hierarchical variational autoencoder for the structure-based design of drug-like molecules.

bioRxiv 2023.12.22.573155 (2023)

R. Mitra, et al.:
DeepPBS: Geometric deep learning for interpretable prediction of protein-DNA binding specificity.

bioRxiv 2023.12.15.571942 (2023)

J. Li, et al.:
Deep DNAshape: Predicting DNA shape considering extended flanking regions using a deep learning method.

bioRxiv 2023.10.22.563383 (2023)

B.H. Cooper, et al.:
DNA binding specificity of all four Saccharomyces cerevisiae forkhead transcription factors.

Nucleic Acids Res. 51, 5621-5633 (2023)

T.P. Chiu, et al.:
Physicochemical models of protein-DNA binding with standard and modified base pairs.

Proc. Natl. Acad. Sci. USA 120, e2205796120 (2023)


Latest News

By The Numbers


Current Lab Members


Graduated Ph.D. Students


Published Peer-Reviewed Papers


Est. at University of Southern California


Academic Department Affiliations

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