Uddhav K. Shigdel, Ph.D. - Related publications

2009 University of Chicago, Chicago, IL 
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50 most relevant papers in past 60 days:
Year Citation  Score
2019 Adhikari H, Ghosh R, Mukherjea KK. An oxidodiperoxido vanadium based artificial nuclease: DNA binding and cleavage studies. Journal of Biomolecular Structure & Dynamics. 1-9. PMID 30806581 DOI: 10.1080/07391102.2019.1587514   
2019 Zhang Y, Cui Y, An R, Liang X, Li Q, Wang H, Wang H, Fan Y, Dong P, Li J, Cheng K, Wang W, Wang S, Wang G, Xue C, et al. Topologically constrained formation of stable Z-DNA from normal sequence under physiological conditions. Journal of the American Chemical Society. PMID 30844265 DOI: 10.1021/jacs.8b13855   
2019 Jeanne Dit Fouque K, Garabedian A, Leng F, Tse-Dinh YC, Fernandez-Lima F. Microheterogeneity of Topoisomerase IA/IB and Their DNA-Bound States. Acs Omega. 4: 3619-3626. PMID 30842985 DOI: 10.1021/acsomega.8b02887   
2019 Li Y, Liu W, Zhu Y, Diao L. A fluorescence method for homogeneous detection of influenza A (H1N1) DNA sequence based on Guanine(G)-quadruplex- N-methylmesoporphyrin IX (NMM) complex and Assistance-DNA (A-DNA) inhibition. Journal of Medical Virology. PMID 30715734 DOI: 10.1002/jmv.25422   
2019 Li L, Zhang P, Li J, Wang Y, Wei Y, Hu J, Zhou X, Xu B, Li B. Measurement of nanomechanical properties of DNA molecules by PeakForce atomic force microscopy based on DNA origami. Nanoscale. PMID 30834915 DOI: 10.1039/c8nr10354b   
2019 Kwon HJ, Jeong JS, Bae YK, Choi K, Yang I. Stable isotope-labeled DNA: A new strategy for the quantification of total DNA using LC-MS. Analytical Chemistry. PMID 30773003 DOI: 10.1021/acs.analchem.8b04940   
2019 Nguyen HP, Stewart S, Kukwikila MN, Jones SF, Offenbartl-Stiegert D, Mao S, Balasubramanian S, Beck S, Howorka S. Opto-epigenetic modulation of DNA methylation with a photo-responsive small-molecule approach. Angewandte Chemie (International Ed. in English). PMID 30773767 DOI: 10.1002/anie.201901139   
2019 Zuo H, Mao C. A minimalist's approach for DNA nanoconstructions. Advanced Drug Delivery Reviews. PMID 30769045 DOI: 10.1016/j.addr.2019.02.002   
2019 Gansauge MT, Meyer M. A Method for Single-Stranded Ancient DNA Library Preparation. Methods in Molecular Biology (Clifton, N.J.). 1963: 75-83. PMID 30875046 DOI: 10.1007/978-1-4939-9176-1_9   
2019 Krerowicz SJ, Hernandez-Ortiz JP, Schwartz DC. A simple dialysis device for large DNA molecules. Biotechniques. 66: 93-95. PMID 30744406 DOI: 10.2144/btn-2018-0133   
2019 Greschner AA, Ropagnol X, Kort M, Zuberi N, Perreault J, Razzari L, Ozaki T, Gauthier MA. Room temperature and selective triggering of supramolecular DNA assembly/disassembly by non-ionizing radiation. Journal of the American Chemical Society. PMID 30707028 DOI: 10.1021/jacs.8b10355   
2019 Del Prado A, Rodríguez I, Lázaro JM, Moreno-Morcillo M, de Vega M, Salas M. New insights into the coordination between the polymerization and 3'-5' exonuclease activities in ϕ29 DNA polymerase. Scientific Reports. 9: 923. PMID 30696917 DOI: 10.1038/s41598-018-37513-7   
2019 Tse ECM, Zwang TJ, Bedoya S, Barton JK. Effective Distance for DNA-Mediated Charge Transport between Repair Proteins. Acs Central Science. 5: 65-72. PMID 30693326 DOI: 10.1021/acscentsci.8b00566   
2019 Friedrich SM, Bang R, Li A, Wang TH. Versatile Analysis of DNA-Biomolecule Interactions in Solution by Hydrodynamic Separation and Single Molecule Detection. Analytical Chemistry. PMID 30668901 DOI: 10.1021/acs.analchem.8b04733   
2019 Wiegand T, Cadalbert R, Lacabanne D, Timmins J, Terradot L, Böckmann A, Meier BH. The conformational changes coupling ATP hydrolysis and translocation in a bacterial DnaB helicase. Nature Communications. 10: 31. PMID 30604765 DOI: 10.1038/s41467-018-07968-3   
2019 Raia P, Delarue M, Sauguet L. An updated structural classification of replicative DNA polymerases. Biochemical Society Transactions. PMID 30647142 DOI: 10.1042/BST20180579   
2019 Sarangi MK, Zvoda V, Holte MN, Becker NA, Peters JP, Maher LJ, Ansari A. Evidence for a bind-then-bend mechanism for architectural DNA binding protein yNhp6A. Nucleic Acids Research. PMID 30698746 DOI: 10.1093/nar/gkz022   
2019 Marin-Gonzalez A, Vilhena JG, Moreno-Herrero F, Perez R. DNA Crookedness Regulates DNA Mechanical Properties at Short Length Scales. Physical Review Letters. 122: 048102. PMID 30768347 DOI: 10.1103/PhysRevLett.122.048102   
2019 Lau BT, Ji HP. Covalent 'click chemistry'-based attachment of DNA onto solid phase enables iterative molecular analysis. Analytical Chemistry. PMID 30652472 DOI: 10.1021/acs.analchem.8b05139   
2019 Guan T, Yang Y, Zhang Q, He Y, Xu N, Li D, Shi L, Xu Y, Wang X. Label-free and Non-destruction Determination of Single- and Double-Strand DNA based on Quantum Weak Measurement. Scientific Reports. 9: 1891. PMID 30760805 DOI: 10.1038/s41598-018-38454-x   
2019 Jung Y, Lee CY, Park KS, Park HG. Sensitive and specific detection of proteins based on target-responsive DNA polymerase activity. Analytica Chimica Acta. 1059: 80-85. PMID 30876635 DOI: 10.1016/j.aca.2019.01.025   
2019 Ickert S, Schwaar T, Springer A, Grabarics M, Riedel J, Beck S, Pagel K, Linscheid MW. Comparison of the fragmentation behavior of DNA and LNA single strands and duplexes. Journal of Mass Spectrometry : Jms. PMID 30771235 DOI: 10.1002/jms.4344   
2019 Lerner LK, Sale JE. Replication of G Quadruplex DNA. Genes. 10. PMID 30700033 DOI: 10.3390/genes10020095   
2019 Öz R, Kk S, Westerlund F. A nanofluidic device for real-time visualization of DNA-protein interactions on the single DNA molecule level. Nanoscale. PMID 30644945 DOI: 10.1039/c8nr09023h   
2019 Meyer D, Fu BXH, Chavez M, Loeillet S, Cerqueira PG, Nicolas A, Heyer WD. Cooperation between non-essential DNA polymerases contributes to genome stability in Saccharomyces cerevisiae. Dna Repair. 76: 40-49. PMID 30818168 DOI: 10.1016/j.dnarep.2019.02.004   
2019 Alfano L, Caporaso A, Altieri A, Dell'Aquila M, Landi C, Bini L, Pentimalli F, Giordano A. Depletion of the RNA binding protein HNRNPD impairs homologous recombination by inhibiting DNA-end resection and inducing R-loop accumulation. Nucleic Acids Research. PMID 30799487 DOI: 10.1093/nar/gkz076   
2019 Huang CL, Sun ZQ, Guo R, Liu X, Mao YP, Peng H, Tian L, Lin AH, Li L, Shao JY, Sun Y, Ma J, Tang LL. Plasma Epstein-Barr Virus DNA Load after Induction Chemotherapy Predicts Outcome in Locoregionally Advanced Nasopharyngeal Carcinoma. International Journal of Radiation Oncology, Biology, Physics. PMID 30682489 DOI: 10.1016/j.ijrobp.2019.01.007   
2019 Kaur G, Lewis JS, van Oijen AM. Shining a Spotlight on DNA: Single-Molecule Methods to Visualise DNA. Molecules (Basel, Switzerland). 24. PMID 30704053 DOI: 10.3390/molecules24030491   
2019 Liu Q, Georgieva DC, Egli D, Wang K. NanoMod: a computational tool to detect DNA modifications using Nanopore long-read sequencing data. Bmc Genomics. 20: 78. PMID 30712508 DOI: 10.1186/s12864-018-5372-8   
2019 Zeng J, Fu W, Qi Z, Zhu Q, He H, Huang C, Zuo H, Mao C. Self-Assembly of Microparticles by Supramolecular Homopolymerization of One Component DNA Molecule. Small (Weinheim An Der Bergstrasse, Germany). e1805552. PMID 30734479 DOI: 10.1002/smll.201805552   
2019 Kladova OA, Grin IR, Fedorova OS, Kuznetsov NA, Zharkov DO. Conformational Dynamics of damage Processing by Human DNA Glycosylase NEIL1. Journal of Molecular Biology. PMID 30716333 DOI: 10.1016/j.jmb.2019.01.030   
2019 Nebenzahl-Sharon K, Shalata H, Sharf R, Amer J, Khoury-Haddad H, Sohn SY, Ayoub N, Hearing P, Kleinberger T. Biphasic functional interaction between the adenovirus E4orf4 protein and DNA-PK. Journal of Virology. PMID 30842317 DOI: 10.1128/JVI.01365-18   
2019 Terasaki K, Yokoyama T. Structural Modification of DNA Studied by Scanning Tunneling Microscopy. The Journal of Physical Chemistry. B. PMID 30721062 DOI: 10.1021/acs.jpcb.8b12100   
2019 Bell SD. Initiating DNA replication: a matter of prime importance. Biochemical Society Transactions. PMID 30647143 DOI: 10.1042/BST20180627   
2019 Bui H, Brown CW, Buckhout-White S, Díaz SA, Stewart MH, Susumu K, Oh E, Ancona MG, Goldman ER, Medintz IL. Transducing Protease Activity into DNA Output for Developing Smart Bionanosensors. Small (Weinheim An Der Bergstrasse, Germany). e1805384. PMID 30803148 DOI: 10.1002/smll.201805384   
2019 Kaufhold WT, Brady RA, Tuffnell JM, Cicuta P, Di Michele L. Membrane scaffolds enhance the responsiveness and stability of DNA-based sensing circuits. Bioconjugate Chemistry. PMID 30865433 DOI: 10.1021/acs.bioconjchem.9b00080   
2019 Valdés A, Martínez-García B, Segura J, Dyson S, Díaz-Ingelmo O, Roca J. Quantitative disclosure of DNA knot chirality by high-resolution 2D-gel electrophoresis. Nucleic Acids Research. PMID 30649468 DOI: 10.1093/nar/gkz015   
2019 Liang Y, Zhang X, Bai X, Yang Y, Gong W, Wang T, Ling Y, Zhang J, Wang L, Wang J, Li G, Chen Y, Chen X, Wu X. Immunogenicity and therapeutic effects of latency-associated genes in a Mycobacterium tuberculosis reactivation mouse model. Human Gene Therapy Methods. PMID 30727774 DOI: 10.1089/hgtb.2018.211   
2019 Green MR, Sambrook J. Inverse Polymerase Chain Reaction (PCR). Cold Spring Harbor Protocols. 2019: pdb.prot095166. PMID 30710023 DOI: 10.1101/pdb.prot095166   
2019 Green MR, Sambrook J. Random Priming: Labeling of Purified DNA Fragments by Extension of Random Oligonucleotides. Cold Spring Harbor Protocols. 2019: pdb.prot100586. PMID 30824624 DOI: 10.1101/pdb.prot100586   
2019 Kusakabe M, Onishi Y, Tada H, Kurihara F, Kusao K, Furukawa M, Iwai S, Yokoi M, Sakai W, Sugasawa K. Mechanism and regulation of DNA damage recognition in nucleotide excision repair. Genes and Environment : the Official Journal of the Japanese Environmental Mutagen Society. 41: 2. PMID 30700997 DOI: 10.1186/s41021-019-0119-6   
2019 Wang L, Wang H, Liu H, Zhao Q, Liu B, Wang L, Zhang J, Zhu J, Bao R, Luo Y. Improved CRISPR-Cas12a-assisted One-Pot DNA Editing (iCOPE) method enables seamless DNA editing. Biotechnology and Bioengineering. PMID 30730047 DOI: 10.1002/bit.26938   
2019 Xu Y, Jiang S, Simmons CR, Narayanan RP, Zhang F, Aziz AM, Yan H, Stephanopoulos N. Tunable Nanoscale Cages from Self-Assembling DNA and Protein Building Blocks. Acs Nano. PMID 30835439 DOI: 10.1021/acsnano.8b09798   
2019 Zeng N, Xiang J. Detection of KRAS G12D point mutation level by anchor-like DNA electrochemical biosensor. Talanta. 198: 111-117. PMID 30876538 DOI: 10.1016/j.talanta.2019.01.105   
2019 Mazlan NF, Tan LL, Karim NHA, Heng LY, Jamaluddin ND, Yusof NYM, Quay DHX, Khalid B. Acrylic-based genosensor utilizing metal salphen labeling approach for reflectometric dengue virus detection. Talanta. 198: 358-370. PMID 30876573 DOI: 10.1016/j.talanta.2019.02.036   
2019 Datta C, Jha RK, Ganguly S, Nagaraja V. NapA (Rv0430), a novel nucleoid-associated protein that regulates a virulence operon in Mycobacterium tuberculosis in a supercoiling-dependent manner. Journal of Molecular Biology. PMID 30872139 DOI: 10.1016/j.jmb.2019.02.029   
2019 Xu Z, Chang Y, Chai Y, Wang H, Yuan R. An ultrasensitive electrochemiluminescence biosensor for speedy detection of microRNA based on DNA rolling machine and target recycling. Analytical Chemistry. PMID 30859820 DOI: 10.1021/acs.analchem.9b00728   
2019 Karda R, Counsell JR, Karbowniczek K, Caproni LJ, Tite JP, Waddington SN. Production of lentiviral vectors using novel, enzymatically produced, linear DNA. Gene Therapy. PMID 30643205 DOI: 10.1038/s41434-018-0056-1   
2019 Biswas PK, Chakraborty S. Targeted DNA oxidation and trajectory of radical DNA using DFT based QM/MM dynamics. Nucleic Acids Research. PMID 30773597 DOI: 10.1093/nar/gkz089   
2019 Yang T, Gao H. Atomic force microscopy study of EDTA induced desorption of metal ions immobilized DNA from mica surface. Ultramicroscopy. 199: 7-15. PMID 30711717 DOI: 10.1016/j.ultramic.2019.01.001