Alan A Chen

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Angel E GarciaCenter for Non Linear Studies, Los Alamos National LaboratoryEmail yang diverifikasi di lanl.gov
Srivathsan RanganathanOHSUEmail yang diverifikasi di ohsu.edu
Sweta VangavetiThe RNA Institute, SUNY, AlbanyEmail yang diverifikasi di albany.edu
Rohit V. PappuGene K. Beare Distinguished Professor of Biomedical Engineering, Washington University in St. LouisEmail yang diverifikasi di wustl.edu
jia shengUniversity at Albany, SUNYEmail yang diverifikasi di albany.edu
Julius B. LucksProfessor, Northwestern UniversityEmail yang diverifikasi di northwestern.edu
Angela M YuBaylor College of MedicineEmail yang diverifikasi di bcm.edu
Parisa EbrahimiAssistant Professor of BiochemistryEmail yang diverifikasi di ut.ac.ir
Ken HalvorsenRNA Institute, University at AlbanyEmail yang diverifikasi di albany.edu
Lorenzo BarontiHelmholtz Zentrum MünchenEmail yang diverifikasi di helmholtz-muenchen.de
Katja PetzoldProfessor @ Uppsala University, Uppsala, SwedenEmail yang diverifikasi di imbim.uu.se
Jacob MinerSenior Scientist at Sanofi, Inc.Email yang diverifikasi di sanofi.com
William StephensonGenentechEmail yang diverifikasi di gene.com
Scott TenenbaumCollege of Nanotechnology, Science and Engineering, University at Albany - SUNYEmail yang diverifikasi di albany.edu
Mehmet V YigitState University of New York at AlbanyEmail yang diverifikasi di albany.edu
Maria Basanta Sanchez *The RNA Institute, University at Albany, NYEmail yang diverifikasi di albany.edu
Kyle E. WattersDirector, Arbor BiotechnologiesEmail yang diverifikasi di arbor.bio
Fusheng ShenPh.D. Candidate of Chemistry, University at AlbanyEmail yang diverifikasi di albany.edu
Judith SchlagnitweitCNRS, CRMN LyonEmail yang diverifikasi di ens-lyon.fr
Carolina FontanaDepartamento de Química del Litoral, CENUR Litoral Norte, UdelaREmail yang diverifikasi di fq.edu.uy

Ikuti

Alan A Chen

Associate Professor, Chemistry, SUNY Albany

Email yang diverifikasi di albany.edu - Beranda

Computational biophysics of RNA


Judul Urutkan menurut kutipan Urutkan menurut tahun Urutkan menurut judul	Dikutip oleh Dikutip oleh	Tahun
High-resolution reversible folding of hyperstable RNA tetraloops using molecular dynamics simulations AA Chen, AE García Proceedings of the National Academy of Sciences 110 (42), 16820-16825, 2013	316	2013
Parameters of monovalent ions in the AMBER-99 forcefield: Assessment of inaccuracies and proposed improvements AA Chen, RV Pappu The Journal of Physical Chemistry B 111 (41), 11884-11887, 2007	182	2007
Quantitative characterization of ion pairing and cluster formation in strong 1: 1 electrolytes AA Chen, RV Pappu The Journal of Physical Chemistry B 111 (23), 6469-6478, 2007	148	2007
Molecular simulation studies of monovalent counterion-mediated interactions in a model RNA kissing loop AA Chen, DE Draper, RV Pappu Journal of molecular biology 390 (4), 805-819, 2009	78	2009
Computationally reconstructing cotranscriptional RNA folding from experimental data reveals rearrangement of non-native folding intermediates MY Angela, PM Gasper, L Cheng, LB Lai, S Kaur, V Gopalan, AA Chen, ... Molecular Cell 81 (4), 870-883. e10, 2021	72	2021
Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA L Baronti, I Guzzetti, P Ebrahimi, SF Sandoz, E Steiner, J Schlagnitweit, ... Nature 583 (7814), 139-144, 2020	69	2020
Advances in RNA molecular dynamics: a simulator's guide to RNA force fields S Vangaveti, SV Ranganathan, AA Chen Wiley Interdisciplinary Reviews: RNA, 2016	68	2016
Complex thermodynamic behavior of single-stranded nucleic acid adsorption to graphene surfaces SV Ranganathan, K Halvorsen, CA Myers, NM Robertson, MV Yigit, ... Langmuir 32 (24), 6028-6034, 2016	59	2016
Simulations of RNA interactions with monovalent ions AA Chen, M Marucho, NA Baker, RV Pappu Methods in enzymology 469, 411-432, 2009	56	2009
Free-energy landscape of a hyperstable RNA tetraloop JC Miner, AA Chen, AE García Proceedings of the National Academy of Sciences 113 (24), 6665-6670, 2016	54	2016
The Essential Role of Stacking Adenines in a Two-Base-Pair RNA Kissing Complex W Stephenson, PN Asare-Okai, AA Chen, S Keller, R Santiago, ... Journal of the American Chemical Society 135 (15), 5602-5611, 2013	44	2013
Using in-cell SHAPE-Seq and simulations to probe structure–function design principles of RNA transcriptional regulators MK Takahashi, KE Watters, PM Gasper, TR Abbott, PD Carlson, AA Chen, ... RNA 22 (6), 920-933, 2016	39	2016
Synthesis, base pairing and structure studies of geranylated RNA R Wang, S Vangaveti, SV Ranganathan, M Basanta-Sanchez, ... Nucleic acids research 44 (13), 6036-6045, 2016	32	2016
Cotranscriptional RNA strand exchange underlies the gene regulation mechanism in a purine-sensing transcriptional riboswitch L Cheng, EN White, NL Brandt, MY Angela, AA Chen, JB Lucks Nucleic Acids Research, 10.1093/nar/gkac102, 2022	29	2022
Mechanism of enhanced mechanical stability of a minimal RNA kissing complex elucidated by nonequilibrium molecular dynamics simulations AA Chen, AE García Proceedings of the National Academy of Sciences 109 (24), E1530-E1539, 2012	25	2012
High-throughput single-molecule quantification of individual base stacking energies in nucleic acids J Abraham Punnoose, KJ Thomas, AR Chandrasekaran, J Vilcapoma, ... Nature Communications 14 (1), 631, 2023	20	2023
Synthesis and base pairing studies of geranylated 2-thiothymidine, a natural variant of thymidine R Wang, SV Ranganathan, M Basanta-Sanchez, F Shen, A Chen, ... Chemical Communications 51 (91), 16369-16372, 2015	20	2015
A two-dimensional replica-exchange molecular dynamics method for simulating RNA folding using sparse experimental restraints P Ebrahimi, S Kaur, L Baronti, K Petzold, AA Chen Methods 162, 96-107, 2019	18	2019
Hybrid DNA/RNA nanostructures with 2′-5′ linkages AR Chandrasekaran, J Mathivanan, P Ebrahimi, J Vilcapoma, AA Chen, ... Nanoscale 12 (42), 21583-21590, 2020	14	2020
CoSIMS: An Optimized Trajectory-Based Collision Simulator for Ion Mobility Spectrometry CA Myers, RJ D’Esposito, D Fabris, SV Ranganathan, AA Chen The Journal of Physical Chemistry B 123 (20), 4347-4357, 2019	13	2019

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