Thomas J. Kelly - Related publications

Molecular Biology Memorial Sloan Kettering Cancer Center, Rockville Centre, NY, United States 
DNA replication
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Zhang J, Ghadermarzi S, Katuwawala A, Kurgan L. DNAgenie: accurate prediction of DNA-type-specific binding residues in protein sequences. Briefings in Bioinformatics. PMID 34415020 DOI: 10.1093/bib/bbab336   
2021 Katerji M, Duerksen-Hughes PJ. DNA damage in cancer development: special implications in viral oncogenesis. American Journal of Cancer Research. 11: 3956-3979. PMID 34522461   
2021 Yan S, Song M, Ping J, Lai ST, Cao XY, Bai CJ, Xie DF, Guan H, Gao SS, Zhou PK. ZGRF1 promotes end resection of DNA homologous recombination via forming complex with BRCA1/EXO1. Cell Death Discovery. 7: 260. PMID 34552057 DOI: 10.1038/s41420-021-00633-7   
2021 Berger M, Wortmann L, Buchgraber P, Lücking U, Zitzmann-Kolbe S, Wengner AM, Bader B, Bömer U, Briem H, Eis K, Rehwinkel H, Bartels F, Moosmayer D, Eberspächer U, Lienau P, et al. BAY-8400: A Novel Potent and Selective DNA-PK Inhibitor which Shows Synergistic Efficacy in Combination with Targeted Alpha Therapies. Journal of Medicinal Chemistry. PMID 34428039 DOI: 10.1021/acs.jmedchem.1c00762   
2021 Tse DH, Becker NA, Young RT, Olson WK, Peters JP, Schwab TL, Clark KJ, Maher LJ. Designed architectural proteins that tune DNA looping in bacteria. Nucleic Acids Research. PMID 34478548 DOI: 10.1093/nar/gkab759   
2021 Fogg JM, Judge AK, Stricker E, Chan HL, Zechiedrich L. Supercoiling and looping promote DNA base accessibility and coordination among distant sites. Nature Communications. 12: 5683. PMID 34584096 DOI: 10.1038/s41467-021-25936-2   
2021 Yoshida K, Fujita M. DNA damage responses that enhance resilience to replication stress. Cellular and Molecular Life Sciences : Cmls. PMID 34463774 DOI: 10.1007/s00018-021-03926-3   
2021 Hu W, Wang Y, Yang B, Lin C, Yu H, Liu G, Deng Z, Ou HY, He X. Bacterial YedK represses plasmid DNA replication and transformation through its DNA single-strand binding activity. Microbiological Research. 252: 126852. PMID 34454309 DOI: 10.1016/j.micres.2021.126852   
2021 Lee SY, Kim JJ, Miller KM. Bromodomain proteins: protectors against endogenous DNA damage and facilitators of genome integrity. Experimental & Molecular Medicine. PMID 34548613 DOI: 10.1038/s12276-021-00673-0   
2021 Dhar GA, Saha S, Mitra P, Nag Chaudhuri R. DNA methylation and regulation of gene expression: Guardian of our health. The Nucleus : An International Journal of Cytology and Allied Topics. 1-12. PMID 34421129 DOI: 10.1007/s13237-021-00367-y   
2021 Pujari SS, Wu M, Thomforde J, Wang ZA, Chao C, Olson N, Erber L, Pomerantz WCK, Cole P, Tretyakova NY. Site-Specific 5-Formyl Cytosine Mediated DNA-Histone Cross-Links: Synthesis and Polymerase Bypass by Human DNA Polymerase η. Angewandte Chemie (International Ed. in English). PMID 34634172 DOI: 10.1002/anie.202109418   
2021 Dhingra N, Zhao X. Advances in SUMO-based regulation of homologous recombination. Current Opinion in Genetics & Development. 71: 114-119. PMID 34333341 DOI: 10.1016/j.gde.2021.07.007   
2021 Balana AT, Mukherjee A, Nagpal H, Moon SP, Fierz B, Vasquez KM, Pratt MR. O-GlcNAcylation of High Mobility Group Box 1 (HMGB1) Alters Its DNA Binding and DNA Damage Processing Activities. Journal of the American Chemical Society. PMID 34546745 DOI: 10.1021/jacs.1c06192   
2021 Silva GLA, Tosi LRO, McCulloch R, Black JA. Unpicking the Roles of DNA Damage Protein Kinases in Trypanosomatids. Frontiers in Cell and Developmental Biology. 9: 636615. PMID 34422791 DOI: 10.3389/fcell.2021.636615   
2021 Polleys EJ, Freudenreich CH. Homologous recombination within repetitive DNA. Current Opinion in Genetics & Development. 71: 143-153. PMID 34464817 DOI: 10.1016/j.gde.2021.08.005   
2021 Ge J, Qiu X. Expression, purification, characterization of DNA binding activity and crystallization of a putative type II DNA Cytosine-5-methyltransferase from Microcystis aeruginosa. Protein Expression and Purification. 189: 105988. PMID 34634480 DOI: 10.1016/j.pep.2021.105988   
2021 Hinds JW, Ditano JP, Eastman A. Inhibition of Protein Synthesis Induced by CHK1 Inhibitors Discriminates Sensitive from Resistant Cancer Cells. Acs Pharmacology & Translational Science. 4: 1449-1461. PMID 34423276 DOI: 10.1021/acsptsci.1c00150   
2021 Lin SN, Dame RT, Wuite GJL. Direct visualization of the effect of DNA structure and ionic conditions on HU-DNA interactions. Scientific Reports. 11: 18492. PMID 34531428 DOI: 10.1038/s41598-021-97763-w   
2021 Kang Z, Fu P, Alcivar AL, Fu H, Redon C, Foo TK, Zuo Y, Ye C, Baxley R, Madireddy A, Buisson R, Bielinsky AK, Zou L, Shen Z, Aladjem MI, et al. BRCA2 associates with MCM10 to suppress PRIMPOL-mediated repriming and single-stranded gap formation after DNA damage. Nature Communications. 12: 5966. PMID 34645815 DOI: 10.1038/s41467-021-26227-6   
2021 Brugger C, Deaconescu AM. A Gel-Based Assay for Probing Protein Translocation on dsDNA. Bio-Protocol. 11: e4094. PMID 34395731 DOI: 10.21769/BioProtoc.4094   
2021 Serra-Cardona A, Yu C, Zhang X, Hua X, Yao Y, Zhou J, Gan H, Zhang Z. A mechanism for Rad53 to couple leading- and lagging-strand DNA synthesis under replication stress in budding yeast. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34531325 DOI: 10.1073/pnas.2109334118   
2021 Parker AV, Mann D, Tzokov SB, Hwang LC, Bergeron JRC. The structure of the bacterial DNA segregation ATPase filament reveals the conformational plasticity of ParA upon DNA binding. Nature Communications. 12: 5166. PMID 34453062 DOI: 10.1038/s41467-021-25429-2   
2021 Xuan J, Gitareja K, Brajanovski N, Sanij E. Harnessing the Nucleolar DNA Damage Response in Cancer Therapy. Genes. 12. PMID 34440328 DOI: 10.3390/genes12081156   
2021 Muzzopappa F, Hertzog M, Erdel F. DNA length tunes the fluidity of DNA-based condensates. Biophysical Journal. 120: 1288-1300. PMID 33640380 DOI: 10.1016/j.bpj.2021.02.027   
2021 Spencer DM, Reyna AG, Pisetsky DS. The Binding of Monoclonal and Polyclonal Anti-Z-DNA Antibodies to DNA of Various Species Origin. International Journal of Molecular Sciences. 22. PMID 34445637 DOI: 10.3390/ijms22168931   
2021 Lo CY, Gao Y. DNA Helicase-Polymerase Coupling in Bacteriophage DNA Replication. Viruses. 13. PMID 34578319 DOI: 10.3390/v13091739   
2021 Leavitt JC, Gilcrease EB, Woodbury BM, Teschke CM, Casjens SR. Intravirion DNA Can Access the Space Occupied by the Bacteriophage P22 Ejection Proteins. Viruses. 13. PMID 34452369 DOI: 10.3390/v13081504   
2021 Fujita T, Nagata S, Fujii H. Protein or ribonucleoprotein-mediated blocking of recombinase polymerase amplification enables the discrimination of nucleotide and epigenetic differences between cell populations. Communications Biology. 4: 988. PMID 34413466 DOI: 10.1038/s42003-021-02503-5   
2021 Chen XS, Pomerantz RT. DNA Polymerase θ: A Cancer Drug Target with Reverse Transcriptase Activity. Genes. 12. PMID 34440316 DOI: 10.3390/genes12081146   
2021 Singh AK, Kumar SL, Beniwal R, Mohanty A, Kushwaha B, Rao HBDP. Local DNA synthesis is critical for DNA repair during oocyte maturation. Journal of Cell Science. PMID 34415018 DOI: 10.1242/jcs.257774   
2021 Chen BR, Wang Y, Tubbs A, Zong D, Fowler FC, Zolnerowich N, Wu W, Bennett A, Chen CC, Feng W, Nussenzweig A, Tyler JK, Sleckman BP. LIN37-DREAM prevents DNA end resection and homologous recombination at DNA double-strand breaks in quiescent cells. Elife. 10. PMID 34477552 DOI: 10.7554/eLife.68466   
2021 Guo Y, Tang J, Yao C, Yang D. Multimodules integrated functional DNA nanomaterials for intelligent drug delivery. Wiley Interdisciplinary Reviews. Nanomedicine and Nanobiotechnology. e1753. PMID 34463046 DOI: 10.1002/wnan.1753   
2021 Zentout S, Smith R, Jacquier M, Huet S. New Methodologies to Study DNA Repair Processes in Space and Time Within Living Cells. Frontiers in Cell and Developmental Biology. 9: 730998. PMID 34589495 DOI: 10.3389/fcell.2021.730998   
2021 de Martin X, Sodaei R, Santpere G. Mechanisms of Binding Specificity among bHLH Transcription Factors. International Journal of Molecular Sciences. 22. PMID 34502060 DOI: 10.3390/ijms22179150   
2021 Pan J, Lian K, Sarre A, Leiros HS, Williamson A. Bacteriophage origin of some minimal ATP-dependent DNA ligases: a new structure from Burkholderia pseudomallei with striking similarity to Chlorella virus ligase. Scientific Reports. 11: 18693. PMID 34548548 DOI: 10.1038/s41598-021-98155-w   
2021 Dai Y, Yuan BF, Feng YQ. Quantification and mapping of DNA modifications. Rsc Chemical Biology. 2: 1096-1114. PMID 34458826 DOI: 10.1039/d1cb00022e   
2021 Rose E, Moraes A, Shiroma T, Nitz N, Rosa AC, Pratesi R, Hagström L, de Carvalho JL, Hecht M. Host DNA repair response to oxidative damage is modulated by Trypanosoma cruzi in a strain-dependent manner. Acta Tropica. 106127. PMID 34509459 DOI: 10.1016/j.actatropica.2021.106127   
2021 Yamaoka K, Oikawa R, Abe N, Nakamoto K, Tomoike F, Hashiya F, Kimura Y, Abe H. Complete chemical synthesis of long DNA transcriptable in human cells. Chembiochem : a European Journal of Chemical Biology. PMID 34519401 DOI: 10.1002/cbic.202100312   
2021 Ma W, Zhan Y, Zhang Y, Mao C, Xie X, Lin Y. The biological applications of DNA nanomaterials: current challenges and future directions. Signal Transduction and Targeted Therapy. 6: 351. PMID 34620843 DOI: 10.1038/s41392-021-00727-9   
2021 Han P, Ma Y, Fu Z, Guo Z, Xie J, Wu Y, Yuan YJ. A DNA Inversion System in Eukaryotes Established via Laboratory Evolution. Acs Synthetic Biology. PMID 34420293 DOI: 10.1021/acssynbio.1c00132   
2021 Yoshua SB, Watson GD, Howard JAL, Velasco-Berrelleza V, Leake MC, Noy A. Integration host factor bends and bridges DNA in a multiplicity of binding modes with varying specificity. Nucleic Acids Research. PMID 34352078 DOI: 10.1093/nar/gkab641   
2021 Kokic G, Wagner FR, Chernev A, Urlaub H, Cramer P. Structural basis of human transcription-DNA repair coupling. Nature. PMID 34526721 DOI: 10.1038/s41586-021-03906-4   
2021 Tashiro R, Sugiyama H. Photoreaction of DNA Containing 5-Halouracil and its Products. Photochemistry and Photobiology. PMID 34543451 DOI: 10.1111/php.13521   
2021 Kropp HM, Ludmann S, Diederichs K, Betz K, Marx A. Structural Basis for The Recognition of Deaminated Nucleobases by An Archaeal DNA Polymerase. Chembiochem : a European Journal of Chemical Biology. PMID 34486208 DOI: 10.1002/cbic.202100306   
2021 Tang Y, Yao Y, Wei G. Unraveling the Allosteric Mechanism of Four Cancer-related Mutations in the Disruption of p53-DNA Interaction. The Journal of Physical Chemistry. B. PMID 34403252 DOI: 10.1021/acs.jpcb.1c05638   
2021 St Germain C, Zhao H, Barlow JH. Transcription-Replication Collisions-A Series of Unfortunate Events. Biomolecules. 11. PMID 34439915 DOI: 10.3390/biom11081249   
2021 Li J, Sun C, Lin Y, Zhi H, Fu Y, Liu Z. The interaction of proanthocyanidins with DNA molecules studied by atomic force microscopy and spectroscopic method. Ultramicroscopy. 230: 113393. PMID 34607224 DOI: 10.1016/j.ultramic.2021.113393   
2021 Kunisky AK, Anyaeche VI, Herron RS, Park CY, Hwang HW. Shift in MSL1 alternative polyadenylation in response to DNA damage protects cancer cells from chemotherapeutic agent-induced apoptosis. Cell Reports. 37: 109815. PMID 34644577 DOI: 10.1016/j.celrep.2021.109815   
2021 Ao C, Gao L, Yu L. Research progress in predicting DNA methylation modifications and the relation with human diseases. Current Medicinal Chemistry. PMID 34533438 DOI: 10.2174/0929867328666210917115733   
2021 Zheng LL, Li JZ, Li YX, Gao JB, Dong JX, Gao ZF. pH-Responsive DNA Motif: From Rational Design to Analytical Applications. Frontiers in Chemistry. 9: 732770. PMID 34458239 DOI: 10.3389/fchem.2021.732770