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Paul T. Englund - Related publications

Biological Chemistry Johns Hopkins University, Baltimore, MD 
Biochemistry and molecular biology of parasitic protozoa
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Xu J, Wang X, Zhang X, Yao L, Qin P, Lu Y, Chen Y, Zhang Y, Yan Y, Chen W. Periodically programmed building and collapse of DNA networks enables an ultrahigh signal amplification effect for ultrasensitive nucleic acids analysis. Analytica Chimica Acta. 1150: 338221. PMID 33583542 DOI: 10.1016/j.aca.2021.338221   
2021 Li Y, Yuan J. Role of deubiquitinating enzymes in DNA double-strand break repair. Journal of Zhejiang University. Science. B. 22: 63-72. PMID 33448188 DOI: 10.1631/jzus.B2000309   
2021 Weinhold E, Chakraborty B. DNA modification and visualization on an origami-based enzyme nano-factory. Nanoscale. PMID 33471009 DOI: 10.1039/d0nr07618j   
2021 McKie SJ, Neuman KC, Maxwell A. DNA topoisomerases: Advances in understanding of cellular roles and multi-protein complexes via structure-function analysis. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. e2000286. PMID 33480441 DOI: 10.1002/bies.202000286   
2021 Cheng M, Qiu D, Tamon L, Ištvánková E, Víšková P, Amrane S, Guédin A, Chen J, Lacroix L, Ju H, Trantírek L, Sahakyan AB, Zhou J, Mergny JL. Thermal and pH stabilities of i-DNA: confronting in vitro experiments with models and in-cell NMR data. Angewandte Chemie (International Ed. in English). PMID 33605024 DOI: 10.1002/anie.202016801   
2021 Vatta M, Lyons B, Heney KA, Lidster T, Merrill AR. Mapping the DNA-Binding Motif of Scabin Toxin, a Guanine Modifying Enzyme from . Toxins. 13. PMID 33450958 DOI: 10.3390/toxins13010055   
2021 Lee KJ, Li Z. The CRK2-CYC13 complex functions as an S-phase cyclin-dependent kinase to promote DNA replication in Trypanosoma brucei. Bmc Biology. 19: 29. PMID 33568178 DOI: 10.1186/s12915-021-00961-1   
2021 Cameron G, Yardimci H. Studying chromosome biology with single-molecule resolution in Xenopus laevis egg extracts. Essays in Biochemistry. PMID 33438722 DOI: 10.1042/EBC20200026   
2021 Li G, Deng L, Huang N, Sun F. The Biological Roles of lncRNAs and Future Prospects in Clinical Application. Diseases (Basel, Switzerland). 9. PMID 33450825 DOI: 10.3390/diseases9010008   
2021 Zhang M, Yang C, Tasan I, Zhao H. Expanding the Potential of Mammalian Genome Engineering Targeted DNA Integration. Acs Synthetic Biology. PMID 33596056 DOI: 10.1021/acssynbio.0c00576   
2021 Li F, Yu W, Zhang J, Dong Y, Ding X, Ruan X, Gu Z, Yang D. Spatiotemporally programmable cascade hybridization of hairpin DNA in polymeric nanoframework for precise siRNA delivery. Nature Communications. 12: 1138. PMID 33602916 DOI: 10.1038/s41467-021-21442-7   
2021 Hnízda A, Tesina P, Nguyen TB, Kukačka Z, Kater L, Chaplin A, Beckmann R, Ascher DB, Novák P, Blundell TL. SAP domain forms a flexible part of DNA aperture in Ku70/80. The Febs Journal. PMID 33511782 DOI: 10.1111/febs.15732   
2021 Iaccarino N, Cheng M, Qiu D, Pagano B, Amato J, Di Porzio A, Zhou J, Randazzo A, Mergny JL. Effects of sequence and base composition on the CD and TDS profiles of i-DNA. Angewandte Chemie (International Ed. in English). PMID 33617090 DOI: 10.1002/anie.202016822   
2021 Jeong SW, Kim MK, Zhao L, Yang SK, Jung JH, Lim HM, Lim S. Effects of Conserved Wedge Domain Residues on DNA Binding Activity of RecG Helicase. Frontiers in Genetics. 12: 634615. PMID 33613647 DOI: 10.3389/fgene.2021.634615   
2021 Ghosh S, Ghosh A. Activation of DNA damage response signaling in mammalian cells by ionizing radiation. Free Radical Research. 1-35. PMID 33455476 DOI: 10.1080/10715762.2021.1876853   
2021 Lu K, Liu C, Liu Y, Luo A, Chen J, Lei Z, Kong J, Xiao X, Zhang S, Wang YZ, Ma L, Dou SX, Wang PY, Li M, Li G, et al. Curaxin-Induced DNA Topology Alterations Trigger the Distinct Binding Response of CTCF and FACT at the Single-Molecule Level. Biochemistry. PMID 33570402 DOI: 10.1021/acs.biochem.1c00014   
2021 Schmit M, Bielinsky AK. Congenital Diseases of DNA Replication: Clinical Phenotypes and Molecular Mechanisms. International Journal of Molecular Sciences. 22. PMID 33477564 DOI: 10.3390/ijms22020911   
2021 Scozzi D, Cano M, Ma L, Zhou D, Zhu JH, O'Halloran JA, Goss CW, Rauseo AM, Liu Z, Sahu SK, Peritore V, Rocco M, Ricci A, Amodeo R, Aimati L, et al. Circulating mitochondrial DNA is an early indicator of severe illness and mortality from COVID-19. Jci Insight. PMID 33444289 DOI: 10.1172/jci.insight.143299   
2021 Herrmann GK, Russell WK, Garg NJ, Yin YW. Poly(ADP-Ribose) polymerase 1 regulates mitochondrial DNA repair in a metabolism-dependent manner. The Journal of Biological Chemistry. 100309. PMID 33482196 DOI: 10.1016/j.jbc.2021.100309   
2021 Maiuri T, Hung CLK, Suart C, Begeja N, Barba-Bazan C, Peng Y, Savic N, Wong T, Truant R. DNA Repair in Huntington's Disease and Spinocerebellar Ataxias: Somatic Instability and Alternative Hypotheses. Journal of Huntington's Disease. 10: 165-173. PMID 33579859 DOI: 10.3233/JHD-200414   
2021 Vouzas AE, Gilbert DM. Mammalian DNA Replication Timing. Cold Spring Harbor Perspectives in Biology. PMID 33558366 DOI: 10.1101/cshperspect.a040162   
2021 McGillick J, Ames JR, Murphy T, Bourne CR. A YoeB toxin cleaves both RNA and DNA. Scientific Reports. 11: 3592. PMID 33574407 DOI: 10.1038/s41598-021-82950-6   
2021 Fang N, Wang K, Tong D. An Algorithm for Gene Fragment Reconstruction. Interdisciplinary Sciences, Computational Life Sciences. PMID 33609237 DOI: 10.1007/s12539-021-00419-6   
2021 Hao N, Sullivan AE, Shearwin KE, Dodd IB. The loopometer: a quantitative in vivo assay for DNA-looping proteins. Nucleic Acids Research. PMID 33511418 DOI: 10.1093/nar/gkaa1284   
2021 Medan J, Sleebs BE, Lackovic K, Watson KG, Evison BJ, Phillips DR, Cutts SM. Development of an automated assay for accelerated in vitro detection of DNA adduct-inducing and crosslinking agents. Bioorganic & Medicinal Chemistry Letters. 127813. PMID 33486050 DOI: 10.1016/j.bmcl.2021.127813   
2021 Wang J, Rojas P, Mao J, Mustè Sadurnì M, Garnier O, Xiao S, Higgs MR, Garcia P, Saponaro M. Persistence of RNA transcription during DNA replication delays duplication of transcription start sites until G2/M. Cell Reports. 34: 108759. PMID 33596418 DOI: 10.1016/j.celrep.2021.108759   
2021 Park G, Cho MK, Jung Y. Sequence-Dependent Kink Formation in Short DNA Loops: Theory and Molecular Dynamics Simulations. Journal of Chemical Theory and Computation. PMID 33570937 DOI: 10.1021/acs.jctc.0c01116   
2021 Tumuluri VS, Rajgor V, Xu SY, Chouhan OP, Saikrishnan K. Mechanism of DNA cleavage by the endonuclease SauUSI: a major barrier to horizontal gene transfer and antibiotic resistance in Staphylococcus aureus. Nucleic Acids Research. PMID 33533920 DOI: 10.1093/nar/gkab042   
2021 Chandrasekaran AR. Nuclease resistance of DNA nanostructures. Nature Reviews. Chemistry. 1-15. PMID 33585701 DOI: 10.1038/s41570-021-00251-y   
2021 Rattu P, Belzunces B, Haynes T, Skylaris CK, Khalid S. Translocation of flexible and tensioned ssDNA through designed hydrophobic nanopores with two constrictions. Nanoscale. PMID 33434242 DOI: 10.1039/d0nr04890a   
2021 Xu W, Lin Y, Zhao K, Li H, Tian Y, Ngatia JN, Ma Y, Sahu SK, Guo H, Guo X, Xu YC, Liu H, Kristiansen K, Lan T, Zhou X. An efficient pipeline for ancient DNA mapping and recovery of endogenous ancient DNA from whole-genome sequencing data. Ecology and Evolution. 11: 390-401. PMID 33437437 DOI: 10.1002/ece3.7056   
2021 Güllülü Ö, Hehlgans S, Mayer BE, Gößner I, Petraki C, Hoffmann M, Dombrowsky MJ, Kunzmann P, Hamacher K, Strebhardt K, Fokas E, Rödel C, Münch C, Rödel F. A spatial and functional interaction of a heterotetramer Survivin-DNA-PKcs complex in DNA damage response. Cancer Research. PMID 33408118 DOI: 10.1158/0008-5472.CAN-20-2931   
2021 Choi WL, Mok YG, Huh JH. Application of 5-Methylcytosine DNA Glycosylase to the Quantitative Analysis of DNA Methylation. International Journal of Molecular Sciences. 22. PMID 33499041 DOI: 10.3390/ijms22031072   
2021 Wu JT, Liu R, Chen YR, Zheng XQ, Wu ZS. The hierarchical assembly of a multi-level DNA ring-based nanostructure in a precise order and its application for screening tumor cells. Biomaterials Science. PMID 33533777 DOI: 10.1039/d0bm00085j   
2021 Suzuki T, Sassa A, Grúz P, Gupta RC, Johnson F, Adachi N, Nohmi T. Error-prone bypass patch by a low-fidelity variant of DNA polymerase zeta in human cells. Dna Repair. 100: 103052. PMID 33607474 DOI: 10.1016/j.dnarep.2021.103052   
2021 Quinet A, Tirman S, Cybulla E, Meroni A, Vindigni A. To skip or not to skip: choosing repriming to tolerate DNA damage. Molecular Cell. PMID 33515486 DOI: 10.1016/j.molcel.2021.01.012   
2021 Hatchi E, Goehring L, Landini S, Skourti-Stathaki K, DeConti DK, Abderazzaq FO, Banerjee P, Demers TM, Wang YE, Quackenbush J, Livingston DM. BRCA1 and RNAi factors promote repair mediated by small RNAs and PALB2-RAD52. Nature. PMID 33536619 DOI: 10.1038/s41586-020-03150-2   
2021 Qiu S, Huang J. MRN complex is an essential effector of DNA damage repair. Journal of Zhejiang University. Science. B. 22: 31-37. PMID 33448185 DOI: 10.1631/jzus.B2000289   
2021 Cai R, Zhang S, Chen L, Li M, Zhang Y, Zhou N. Self-Assembled DNA Nanoflowers Triggered by a DNA Walker for Highly Sensitive Electrochemical Detection of . Acs Applied Materials & Interfaces. PMID 33470807 DOI: 10.1021/acsami.0c22062   
2021 Chao MR, Evans MD, Hu CW, Ji Y, Møller P, Rossner P, Cooke MS. Biomarkers of nucleic acid oxidation - A summary state-of-the-art. Redox Biology. 101872. PMID 33579665 DOI: 10.1016/j.redox.2021.101872   
2021 Felipe C, Shin J, Kolomeisky AB. DNA Looping and DNA Conformational Fluctuations Can Accelerate Protein Target Search. The Journal of Physical Chemistry. B. PMID 33570939 DOI: 10.1021/acs.jpcb.0c09599   
2021 Pyne ALB, Noy A, Main KHS, Velasco-Berrelleza V, Piperakis MM, Mitchenall LA, Cugliandolo FM, Beton JG, Stevenson CEM, Hoogenboom BW, Bates AD, Maxwell A, Harris SA. Base-pair resolution analysis of the effect of supercoiling on DNA flexibility and major groove recognition by triplex-forming oligonucleotides. Nature Communications. 12: 1053. PMID 33594049 DOI: 10.1038/s41467-021-21243-y   
2021 Brown SL, Kendrick S. The i-Motif as a Molecular Target: More Than a Complementary DNA Secondary Structure. Pharmaceuticals (Basel, Switzerland). 14. PMID 33513764 DOI: 10.3390/ph14020096   
2021 Brown SL, Kendrick S. The i-Motif as a Molecular Target: More Than a Complementary DNA Secondary Structure. Pharmaceuticals (Basel, Switzerland). 14. PMID 33513764 DOI: 10.3390/ph14020096   
2021 Li D, Yang E, Luo Z, Xie Q, Duan Y. An enzyme-mediated universal fluorescent biosensor template for pathogen detection based on a three-dimensional DNA walker and catalyzed hairpin assembly. Nanoscale. PMID 33471006 DOI: 10.1039/d0nr07593k   
2021 Wagner JR, Madugundu GS, Cadet J. Ozone-Induced DNA Damage: A Pandora's Box of Oxidatively Modified DNA Bases. Chemical Research in Toxicology. PMID 33417438 DOI: 10.1021/acs.chemrestox.0c00342   
2021 Wagner JR, Madugundu GS, Cadet J. Ozone-Induced DNA Damage: A Pandora's Box of Oxidatively Modified DNA Bases. Chemical Research in Toxicology. PMID 33417438 DOI: 10.1021/acs.chemrestox.0c00342   
2021 Shi K, Xie S, Tian R, Wang S, Lu Q, Gao D, Lei C, Zhu H, Nie Z. A CRISPR-Cas autocatalysis-driven feedback amplification network for supersensitive DNA diagnostics. Science Advances. 7. PMID 33571114 DOI: 10.1126/sciadv.abc7802   
2021 Wang J, Dubiel D, Wu Y, Cheng Y, Wolf DA, Dubiel W. CSN7B defines a variant COP9 signalosome complex with distinct function in DNA damage response. Cell Reports. 34: 108662. PMID 33503427 DOI: 10.1016/j.celrep.2020.108662   
2021 Nakamura K, Kustatscher G, Alabert C, Hödl M, Forne I, Völker-Albert M, Satpathy S, Beyer TE, Mailand N, Choudhary C, Imhof A, Rappsilber J, Groth A. Proteome dynamics at broken replication forks reveal a distinct ATM-directed repair response suppressing DNA double-strand break ubiquitination. Molecular Cell. PMID 33450211 DOI: 10.1016/j.molcel.2020.12.025