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Deepak Koirala
Deepak Koirala
Department of Chemistry & Biochemistry, University of Maryland Baltimore County (UMBC)
Email verificata su umbc.edu - Home page
Titolo
Citata da
Citata da
Anno
A single-molecule platform for investigation of interactions between G-quadruplexes and small-molecule ligands
D Koirala, S Dhakal, B Ashbridge, Y Sannohe, R Rodriguez, H Sugiyama, ...
Nature chemistry 3 (10), 782-787, 2011
2432011
Intramolecular folding in three tandem guanine repeats of human telomeric DNA
D Koirala, T Mashimo, Y Sannohe, Z Yu, H Mao, H Sugiyama
Chemical Communications 48 (14), 2006-2008, 2012
1342012
G-quadruplex and i-motif are mutually exclusive in ILPR double-stranded DNA
S Dhakal, Z Yu, R Konik, Y Cui, D Koirala, H Mao
Biophysical journal 102 (11), 2575-2584, 2012
1302012
Coexistence of an ILPR i-motif and a partially folded structure with comparable mechanical stability revealed at the single-molecule level
S Dhakal, JD Schonhoft, D Koirala, Z Yu, S Basu, H Mao
Journal of the American Chemical Society 132 (26), 8991-8997, 2010
1302010
Single‐molecule mechanochemical sensing using DNA origami nanostructures
D Koirala, P Shrestha, T Emura, K Hidaka, S Mandal, M Endo, ...
Angewandte Chemie 126 (31), 8275-8279, 2014
1142014
Structural and mechanical properties of individual human telomeric G-quadruplexes in molecularly crowded solutions
S Dhakal, Y Cui, D Koirala, C Ghimire, S Kushwaha, Z Yu, PM Yangyuoru, ...
Nucleic acids research 41 (6), 3915-3923, 2013
1052013
Long-loop G-quadruplexes are misfolded population minorities with fast transition kinetics in human telomeric sequences
D Koirala, C Ghimire, C Bohrer, Y Sannohe, H Sugiyama, H Mao
Journal of the American Chemical Society 135 (6), 2235-2241, 2013
772013
Interaction of G-quadruplexes in the full-length 3′ human telomeric overhang
J Abraham Punnoose, Y Cui, D Koirala, PM Yangyuoru, C Ghimire, ...
Journal of the American Chemical Society 136 (52), 18062-18069, 2014
732014
Divalent cations and molecular crowding buffers stabilize G-triplex at physiologically relevant temperatures
HX Jiang, Y Cui, T Zhao, HW Fu, D Koirala, JA Punnoose, DM Kong, ...
Scientific reports 5 (1), 9255, 2015
702015
The SARS-CoV-2 programmed− 1 ribosomal frameshifting element crystal structure solved to 2.09 Å using chaperone-assisted RNA crystallography
C Roman, A Lewicka, D Koirala, NS Li, JA Piccirilli
ACS Chemical Biology 16 (8), 1469-1481, 2021
652021
Quantification of topological coupling between DNA superhelicity and G-quadruplex formation
S Selvam, D Koirala, Z Yu, H Mao
Journal of the American Chemical Society 136 (40), 13967-13970, 2014
602014
Single-molecule measurements of the binding between small molecules and DNA aptamers
PM Yangyuoru, S Dhakal, Z Yu, D Koirala, SM Mwongela, H Mao
Analytical chemistry 84 (12), 5298-5303, 2012
572012
Click chemistry assisted single-molecule fingerprinting reveals a 3D biomolecular folding funnel
Z Yu, D Koirala, Y Cui, LF Easterling, Y Zhao, H Mao
Journal of the American Chemical Society 134 (30), 12338-12341, 2012
532012
Detection of single nucleotide polymorphism using tension-dependent stochastic behavior of a single-molecule template
D Koirala, Z Yu, S Dhakal, H Mao
Journal of the American Chemical Society 133 (26), 9988-9991, 2011
502011
Molecular population dynamics of DNA structures in a bcl-2 promoter sequence is regulated by small molecules and the transcription factor hnRNP LL
Y Cui, D Koirala, HJ Kang, S Dhakal, P Yangyuoru, LH Hurley, H Mao
Nucleic acids research 42 (9), 5755-5764, 2014
492014
Structural basis for activation of fluorogenic dyes by an RNA aptamer lacking a G-quadruplex motif
SA Shelke, Y Shao, A Laski, D Koirala, BP Weissman, JR Fuller, X Tan, ...
Nature Communications 9 (1), 4542, 2018
462018
Mechanical properties of DNA origami nanoassemblies are determined by Holliday junction mechanophores
P Shrestha, T Emura, D Koirala, Y Cui, K Hidaka, WJ Maximuck, M Endo, ...
Nucleic acids research 44 (14), 6574-6582, 2016
442016
Intramolecular folding in human ILPR fragment with three C-rich repeats
S Dhakal, JL Lafontaine, Z Yu, D Koirala, H Mao
PLoS One 7 (6), e39271, 2012
412012
Mechanochemical properties of individual human telomeric RNA (TERRA) G-quadruplexes
PM Yangyuoru, AYQ Zhang, Z Shi, D Koirala, S Balasubramanian, H Mao
ChemBioChem 14 (15), 1931-1935, 2013
352013
Affinity maturation of a portable Fab–RNA module for chaperone-assisted RNA crystallography
D Koirala, SA Shelke, M Dupont, S Ruiz, S DasGupta, LJ Bailey, ...
Nucleic Acids Research 46 (5), 2624-2635, 2018
312018
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