Quantifying the role of steric constraints in nucleosome positioning Publication: Journal Article Rube, Tomas, and Jun S Song. 2014. “Quantifying the role of steric constraints in nucleosome positioning”. Nucleic Acids Res. 42 (4): 2147–2158.
Systematic in vitro profiling of off-target affinity, cleavage and efficiency for CRISPR enzymes Publication: Journal Article Zhang, Liyang, Tomas Rube, Christopher A Vakulskas, Mark A Behlke, Harmen J Bussemaker, and Miles A Pufall. 2020. “Systematic in vitro profiling of off-target affinity, cleavage and efficiency for CRISPR enzymes”. Nucleic Acids Res. 48 (9): 5037–5053.
Understanding TERT promoter mutations: A common path to immortality Publication: Journal Article Bell, Robert J A, Tomas Rube, Ana Xavier-Magalhães, Bruno M Costa, Andrew Mancini, Jun S Song, and Joseph F Costello. 2016. “Understanding TERT promoter mutations: A common path to immortality”. Mol. Cancer Res. 14 (4): 315–323.
Cancer. The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer Publication: Journal Article Bell, Robert J A, Tomas Rube, Alex Kreig, Andrew Mancini, Shaun D Fouse, Raman P Nagarajan, Serah Choi, et al. 2015. “Cancer. The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer”. Science 348 (6238): 1036–1039.
Categorical spectral analysis of periodicity in nucleosomal DNA Publication: Journal Article Jin, Hu, Tomas Rube, and Jun S Song. 2016. “Categorical spectral analysis of periodicity in nucleosomal DNA”. Nucleic Acids Res. 44 (5): 2047–2057.
SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site Publication: Journal Article 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 Publication: Journal Article 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 Publication: Journal Article 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 Publication: Journal Article Kallosh, Renata, Andrei Linde, Keith A Olive, and Tomas Rube. 2011. “Chaotic inflation and supersymmetry breaking”. Physical Review D 84 (8): 083519.
Author Correction: AsCas12a ultra nuclease facilitates the rapid generation of therapeutic cell medicines Publication: Journal Article Zhang, Liyang, John A Zuris, Ramya Viswanathan, Jasmine N Edelstein, Rolf Turk, Bernice Thommandru, Tomas Rube, et al. 2021. “Author Correction: AsCas12a ultra nuclease facilitates the rapid generation of therapeutic cell medicines”. Nat. Commun. 12 (1): 4500.