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Thomas Begley

Research Profile

Disorders

DNA Damage

Physiology

Living Beings

Chemicals & Drugs

Genes & Molecular Sequences

Genome, Fungal

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Publications

TOP 3
David Svilar; Jiang-bo Tang; Xiao-hong Wang; Claudette M St Croix; Thomas Begley; Andrea Braganza; Ashley R Brown; Madhu Dyavaiah; John S Lazo; Jianfeng Li; Salony Maniar; Peter R McDonald; Ian F Pollack; Tong Ying Shun; Robert W Sobol
Alkylation sensitivity screens reveal a conserved cross-species functionome.
Ashish Patil; John P Rooney; Clement T Y Chan; Peter C Dedon; Madhu Dyavaiah; Fraulin Joseph; Thomas Begley
Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response.
Ashish Patil; John P Rooney; Clement T Y Chan; Peter C Dedon; Madhu Dyavaiah; Thomas Begley
Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications.

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All Publications

2012: David Svilar; Jiang-bo Tang; Xiao-hong Wang; Claudette M St Croix; Thomas Begley; Andrea Braganza; Ashley R Brown; Madhu Dyavaiah; John S Lazo; Jianfeng Li; Salony Maniar; Peter R McDonald; Ian F Pollack; Tong Ying Shun; Robert W Sobol
Alkylation sensitivity screens reveal a conserved cross-species functionome.
Molecular cancer research : MCR 2012;10(12):1580-96.
2012: Ashish Patil; John P Rooney; Clement T Y Chan; Peter C Dedon; Madhu Dyavaiah; Fraulin Joseph; Thomas Begley
Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response.
Cell cycle (Georgetown, Tex.) 2012;11(19):3656-65.
2012: Ashish Patil; John P Rooney; Clement T Y Chan; Peter C Dedon; Madhu Dyavaiah; Thomas Begley
Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications.
RNA biology 2012;9(7):990-1001.
2012: Clement T Y Chan; I Ramesh Babu; Thomas Begley; Wenjun Deng; Madhu Dyavaiah; Yan Ling Joy Pang; Peter C Dedon
Reprogramming of tRNA modifications controls the oxidative stress response by codon-biased translation of proteins.
Nature communications 2012;3():937.
2010: Clement T Y Chan; Madhu Dyavaiah; Michael S DeMott; Koli Taghizadeh; Peter C Dedon; Thomas Begley
A quantitative systems approach reveals dynamic control of tRNA modifications during cellular stress.
PLoS genetics 2010;6(12):e1001247.
2010: Dragony Fu; Jennifer A N Brophy; Clement T Y Chan; Kyle A Atmore; Ulrike Begley; Richard S Paules; Peter C Dedon; Thomas Begley; Leona D Samson
Human AlkB homolog ABH8 Is a tRNA methyltransferase required for wobble uridine modification and DNA damage survival.
Molecular and cellular biology 2010;30(10):2449-59.
2008: Rachel L Erlich; Rebecca Fry; Thomas Begley; Danielle L Daee; Robert S Lahue; Leona D Samson
Anc1, a protein associated with multiple transcription complexes, is involved in postreplication repair pathway in S. cerevisiae.
PloS one 2008;3(11):e3717.
2007: Ulrike Begley; Madhu Dyavaiah; Ashish Patil; John P Rooney; Dan DiRenzo; Christine M Young; Douglas S Conklin; Richard S Zitomer; Thomas Begley
Trm9-catalyzed tRNA modifications link translation to the DNA damage response.
Molecular cell 2007;28(5):860-70.
2007: Ivan Rusyn; Rebecca Fry; Thomas Begley; Joanna Klapacz; J Peter Svensson; Mark Ambrose; Leona D Samson
Transcriptional networks in S. cerevisiae linked to an accumulation of base excision repair intermediates.
PloS one 2007;2(11):e1252.
2006: Christopher T Workman; H Craig Mak; Scott McCuine; Jean-Bosco Tagne; Maya Agarwal; Owen Ozier; Thomas Begley; Leona D Samson; Trey Ideker
A systems approach to mapping DNA damage response pathways.
Science (New York, N.Y.) 2006;312(5776):1054-9.
2006: Rebecca Fry; Michael S DeMott; Joseph P Cosgrove; Thomas Begley; Leona D Samson; Peter C Dedon
The DNA-damage signature in Saccharomyces cerevisiae is associated with single-strand breaks in DNA.
BMC genomics 2006;7():313.
2005: Rebecca Fry; Thomas Begley; Leona D Samson
Genome-wide responses to DNA-damaging agents.
Annual review of microbiology 2005;59():357-77.
2004: Maya R Said; Thomas Begley; Alan V Oppenheim; Douglas A Lauffenburger; Leona D Samson
Global network analysis of phenotypic effects: protein networks and toxicity modulation in Saccharomyces cerevisiae.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(52):18006-11.
2004: Thomas Begley; Ari S Rosenbach; Trey Ideker; Leona D Samson
Hot spots for modulating toxicity identified by genomic phenotyping and localization mapping.
Molecular cell 2004;16(1):117-25.
2004: Thomas Begley; Leona D Samson
Reversing DNA damage with a directional bias.
Nature structural & molecular biology 2004;11(8):688-90.
2004: Thomas Begley; Leona D Samson
Network responses to DNA damaging agents.
DNA repair 2004;3(8-9):1123-32.
2003: Thomas Begley; Leona D Samson
Molecular biology: A fix for RNA.
Nature 2003;421(6925):795-6.
2003: Thomas Begley; Brian J Haas; Juan C Morales; Eric T Kool; Richard P Cunningham
Kinetics and binding of the thymine-DNA mismatch glycosylase, Mig-Mth, with mismatch-containing DNA substrates.
DNA repair 2003;2(1):107-20.
2003: Thomas Begley; Leona D Samson
AlkB mystery solved: oxidative demethylation of N1-methyladenine and N3-methylcytosine adducts by a direct reversal mechanism.
Trends in biochemical sciences 2003;28(1):2-5.
2002: Thomas Begley; Ari S Rosenbach; Trey Ideker; Leona D Samson
Damage recovery pathways in Saccharomyces cerevisiae revealed by genomic phenotyping and interactome mapping.
Molecular cancer research : MCR 2002;1(2):103-12.
2002: Clifford D Mol; Andrew S Arvai; Thomas Begley; Richard P Cunningham; John A Tainer
Structure and activity of a thermostable thymine-DNA glycosylase: evidence for base twisting to remove mismatched normal DNA bases.
Journal of molecular biology 2002;315(3):373-84.
2000: Thomas Begley; SA Jelinsky; Leona D Samson
Complex transcriptional responses to macromolecular damaging agents: regulatory responses specific for SN2 alkylation and the MAG1 gene.
Cold Spring Harbor symposia on quantitative biology 2000;65():383-93.
1999: Thomas Begley; Brian J Haas; J Noel; A Shekhtman; W A Williams; Richard P Cunningham
A new member of the endonuclease III family of DNA repair enzymes that removes methylated purines from DNA.
Current biology : CB 1999;9(12):653-6.
1999: Thomas Begley; Richard P Cunningham
Methanobacterium thermoformicicum thymine DNA mismatch glycosylase: conversion of an N-glycosylase to an AP lyase.
Protein engineering 1999;12(4):333-40.
1998: JS Fetrow; J S Spitzer; B M Gilden; S J Mellender; Thomas Begley; Brian J Haas; TL Boose
Structure, function, and temperature sensitivity of directed, random mutants at proline 76 and glycine 77 in omega-loop D of yeast iso-1-cytochrome c.
Biochemistry 1998;37(8):2477-87.