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Thomas Connor Bishop is a computational molecular biologist. His primary research interests are the structure and dynamics of DNA and chromatin and how they relate to genetic function and dysfunction. Historically he has utilized the hormone response mechanism as a model system for his studies. Recent efforts focus on development of methods for unifying sequence, structure and functional data from experiment, theory and computation to investigate genome organization on multiple time and length scales. He is applying these methods to the study of chromatinized extrachromosomal circular DNA.
Selected Publications:
Li Z, Sun R, Bishop TC. Genome Dashboards: Framework and Examples. Biophys J. 2020 May 5;118(9):2077-2085. doi:10.1016/j.bpj.2020.02.018. Epub 2020 Feb 29. PMID: 32171420; PMCID: PMC7203004.
SunR, Li Z, Bishop TC. TMB Library of Nucleosome Simulations. J Chem Inf Model.2019 Oct 28;59(10):4289-4299. doi: 10.1021/acs.jcim.9b00252. Epub 2019 Sep 24.PMID: 31490686.
PasiM, Maddocks JH, Beveridge D, Bishop TC, Case DA, Cheatham T 3rd, Dans PD, Jayaram B, Lankas F, Laughton C, Mitchell J, Osman R, Orozco M, Pérez A, Petkevičiūtė D, Spackova N, Sponer J, Zakrzewska K, Lavery R. μABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA. Nucleic Acids Res. 2014 Oct 29;42(19):12272-83. doi:10.1093/nar/gku855. Epub 2014 Sep 26. PMID: 25260586; PMCID: PMC4231739.
StolzRC, Bishop TC. ICM Web: the interactive chromatin modeling web server. NucleicAcids Res. 2010 Jul;38(Web Server issue):W254-61. doi: 10.1093/nar/gkq496. Epub2010 Jun 11. PMID: 20542915; PMCID: PMC2896153.
Zlatanova J, Bishop TC, Victor JM, Jackson V, van Holde K. The nucleosomefamily: dynamic and growing. Structure. 2009 Feb 13;17(2):160-71. doi:10.1016/j.str.2008.12.016. PMID: 19217387.
Bishop TC. Moleculardynamics simulations of a nucleosome and free DNA. J Biomol Struct Dyn. 2005Jun;22(6):673-86. doi: 10.1080/07391102.2005.10507034. PMID: 15842172.
TOPICS:
DNA, nucleosomes, chromatin, dna topology, eccDNA,
Labwebsite: https://dna.engr.latech.edu
