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Teaching

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Fall Semester 2022 - MATH 180 - Modern Applied Statistics Fall Semester 2023 - MATH 180 - Modern Applied Statistics Spring Semester 2024 - MATH 32 - Probability and Statistics Fall Semester 2024 - MATH 180 - Applied Statistics and Machine Learning Spring Semester 2025 - MATH 280 - Mathematical and...

Rube Lab

A unified approach for quantifying and interpreting DNA shape readout by transcription factors

Publication: Journal Article

Rube, Tomas, Chaitanya Rastogi, Judith F Kribelbauer, and Harmen J Bussemaker. 2018. “A Unified Approach for Quantifying and Interpreting DNA Shape Readout by Transcription Factors”. Mol. Syst. Biol. 14 (2): e7902.

Accurate and sensitive quantification of protein-DNA binding affinity

Publication: Journal Article

Rastogi, Chaitanya, Tomas Rube, Judith F Kribelbauer, Justin Crocker, Ryan E Loker, Gabriella D Martini, Oleg Laptenko, et al. 2018. “Accurate and Sensitive Quantification of Protein-DNA Binding Affinity”. Proc. Natl. Acad. Sci. U. S. A. 115 (16): E3692–E3701.

The simplicity of perfect atoms: degeneracies in supersymmetric hydrogen

Publication: Journal Article

Rube, Tomas, and Jay G Wacker. 2011. “The Simplicity of Perfect Atoms: Degeneracies in Supersymmetric Hydrogen”. Journal of Mathematical Physics 52 (6): 062102.

Rube Lab Founded

News: July 01, 2022

Tomas joins the Applied Mathematics Department at the University of California, Merced as an Assistant Professor.

Shahram Joins Lab

News: September 01, 2023

We would like to welcome Applied Math graduate student Shahram to the lab!

Research

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Our current research spans three areas: Accelerating proteomics research using compressed sensing - Protein-protein interactions (PPIS) are important in governing numerous processes like development and the onset of pathological conditions such as cancer and neurodegenerative disease. PPIs form...

Pooled IP-MS NSF grant funded

News: July 31, 2025

Our collaborative project with the Jovanovic Lab at Columbia University was funded by the NSF.

SPRINT-MS: A high-throughput platform for identifying protein-protein interactions using pooled IP-MS and sparse signal recovery

Publication: Journal Article

Street, Lena A., Moitrish Majumdar, Katherine L. Rothamel, Esin Gogus, Gloria Brar, Gene W. Yeo, Tomas Rube, and Marko Jovanovic. Submitted. “SPRINT-MS: A High-Throughput Platform for Identifying Protein-Protein Interactions Using Pooled IP-MS and Sparse Signal Recovery”. BioRxiv, Submitted.