Categorical spectral analysis of periodicity in nucleosomal DNA
Jin, Hu, Tomas Rube, and Jun S Song. 2016. “Categorical Spectral Analysis of Periodicity in Nucleosomal DNA”. Nucleic Acids Res. 44 (5): 2047–2057.
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SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site
Zhang, Liyang, Gabriella D Martini, Tomas Rube, Judith F Kribelbauer, Chaitanya Rastogi, Vincent D FitzPatrick, Jon C Houtman, Harmen J Bussemaker, and Miles A Pufall. 2018. “SelexGLM Differentiates Androgen and Glucocorticoid Receptor DNA-Binding Preference over an Extended Binding Site”. Genome Res. 28 (1): 111–121.
N= 8 Supergravity 4-point amplitudes
Kallosh, Renata, Ching Hua Lee, and Tomas Rube. 2009. “N= 8 Supergravity 4-Point Amplitudes”. Journal of High Energy Physics 2009 (02): 050.
Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors
Feng, Siqian, Chaitanya Rastogi, Ryan E Loker, William J Glassford, Tomas Rube, Harmen J Bussemaker, and Richard S Mann. 2022. “Transcription Factor Paralogs Orchestrate Alternative Gene Regulatory Networks by Context-Dependent Cooperation With Multiple Cofactors”. BioRxiv.
Chaotic inflation and supersymmetry breaking
Kallosh, Renata, Andrei Linde, Keith A Olive, and Tomas Rube. 2011. “Chaotic Inflation and Supersymmetry Breaking”. Physical Review D 84 (8): 083519.
Accurate sequence-to-affinity models for SH2 domains from multi-round peptide binding assays coupled with free-energy regression
Gagoski, Dejan, Tomas Rube, Chaitanya Rastogi, Lucas AN Melo, Xiaoting Li, Rashmi Voleti, Neel H. Shah, and Harmen J. Bussemaker. Forthcoming. “Accurate Sequence-to-Affinity Models for SH2 Domains from Multi-Round Peptide Binding Assays Coupled With Free-Energy Regression”. BioRxiv, Forthcoming.
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H. Tomas Rube Assistant Professor, Department of Applied Mathematics Starting July 2022, H. Tomas Rube is an assistant professor in Applied Mathematics at University of California, Merced. With an undergraduate degree in engineering physics and a PhD in theoretical physics, Tomas’ research lies at...
Systems and methods for analyzing sequencing data
Bussemaker, Harmen H, Chaitanya Rastogi, and Hans Tomas Rube. 2021. “Systems and Methods for Analyzing Sequencing Data.”
Nearly supersymmetric dark atoms
Behbahani, Siavosh R, Martin Jankowiak, Tomas Rube, and Jay G Wacker. 2011. “Nearly Supersymmetric Dark Atoms”. Advances in High Energy Physics 2011.
Measuring DNA mechanics on the genome scale
Basu, Aakash, Dmitriy G Bobrovnikov, Zan Qureshi, Tunc Kayikcioglu, Thuy T M Ngo, Anand Ranjan, Sebastian Eustermann, et al. 2021. “Measuring DNA Mechanics on the Genome Scale”. Nature 589 (7842): 462–467.