Results 51 to 60 of about 8,461 (225)

Complete RNA inverse folding: computational design of functional hammerhead ribozymes [PDF]

Nucl. Acids Res. (2014) 42 (18): 11752-11762, 2014
Nanotechnology and synthetic biology currently constitute one of the most innovative, interdisciplinary fields of research, poised to radically transform society in the 21st century. This paper concerns the synthetic design of ribonucleic acid molecules, using our recent algorithm, RNAiFold, which can determine all RNA sequences whose minimum free ...
arxiv   +1 more source

Consolidate Overview of Ribonucleic Acid Molecular Dynamics: From Molecular Movements to Material Innovations

Advanced Engineering Materials, EarlyView.
Molecular dynamics simulations are advancing the study of ribonucleic acid (RNA) and RNA‐conjugated molecules. These developments include improvements in force fields, long‐timescale dynamics, and coarse‐grained models, addressing limitations and refining methods.
Kanchan Yadav, Iksoo Jang, Jong Bum Lee
wiley   +1 more source

Hairpin Ribozyme Structure and Dynamics

, 1997
Peer ...
Banerjee, Aloke Raj, Berzal-Herranz, Alfredo, Bond, J., Butcher, S., Esteban, José A., Heckman, Joyce, Sargueil, B., Walter, Nils, Burke, John M.   +8 more
openaire   +3 more sources

A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination [PDF]

, 2010
RNA crystallization and phasing represent major bottlenecks in RNA structure determination. Seeking to exploit antibody fragments as RNA crystallization chaperones, we have used an arginine-enriched synthetic Fab library displayed on phage to obtain Fabs
A Desmyter, A Ke, A Serganov, AA Kossiakoff, AC Messias, AL Edwards, Anthony A Kossiakoff, AR Ferré-D'Amaré, AR Ferré-D'Amaré, AY Keel, BL Golden, BM Lunde, BS Saville, C Eigenbrot, C Höbartner, C Keryer-Bibens, CG Hoogstraten, D Piekna-Przybylska, David M Shechner, David P Bartel, DM Shechner, EA Kabat, EH Ekland, Erica M Duguid, FA Fellouse, FA Fellouse, FA Fellouse, IA Laird-Offringa, J-D Ye, JA Chao, JA Doudna, Jingdong Ye, Joseph A Piccirilli, JR Hogg, JR Hogg, JS Mattick, JS Mattick, K Decanniere, M Jinek, MJ Fedor, MP Robertson, N Carrasco, NH Bergman, Nikolai B Suslov, P Kapranov, PJ Carter, R Dutzler, RJ Taft, RK Montange, S Birtalan, S Iwata, S Jones, S Koide, S Koide, S Uysal, Sachdev S Sidhu, SC Bagby, Shohei Koide, SL Reichow, SR Eddy, SS Sidhu, TA Cooper, V Tereshko, Yelena Koldobskaya   +63 more
core   +2 more sources

Rolling circle transcription of ribozymes from promoterless single-stranded DNA nanocircles in mammalian cells [Ribozimlerin, promotorsuz tek-iplikli DNA çemberlerinin rolling circle transkripsiyonu ile memeli hücrelerinde üretimi] [PDF]

Türk Biyokimya Dergisi, 2006
Self-processing hairpin ribozymes have been synthesized from promoterless singlestranded DNA circles (73 nt) within mammalian cells. Following lipid-mediated transient transfection, DNA circles were efficiently internalized by mouse L cells (OST7–1 ...
Attila A. Seyhan
doaj  

Recent Applications of Mesoporous Silica Nanoparticles in Gene Therapy

Advanced Healthcare Materials, EarlyView.
The review summarizes the synthesis of mesoporous silica nanoparticles (MSNs) with modifiable surface properties, functionalization strategies, mechanism of therapeutic payload release, and current applications in gene therapy, focusing on their capabilities in the targeted delivery of therapeutic nucleic acids, CRISPR‐Cas systems, and other genetic ...
Tamanna Binte Huq, Punnya Anil Kumar Jeeja, Sudip Kumar Dam, Sabya Sachi Das, Juan L. Vivero‐Escoto   +4 more
wiley   +1 more source

Role of tautomerism in RNA biochemistry [PDF]

, 2015
Heterocyclic nucleic acid bases and their analogs can adopt multiple tautomeric forms due to the presence of multiple solvent-exchangeable protons.
Essigmann, John M., Fedeles, Bogdan I., Singh, Vipender   +2 more
core   +1 more source

A Programmed DNA Dynamic Assembly‐Guided Molecular Amplifier for Authentic Information Decryption

Advanced Science, EarlyView.
This study presents a DNA‐based constitutional dynamic network (CDN) with adaptive thresholds for secure information decryption. The system self‐calibrates output patterns, ensuring reproducibility and accuracy, and integrates molecular amplifiers for expanded message capacity and precise DNA sensing.
Ning Yang, Jie Zhou, Fengying Yuan, Yajuan Liu, Jia Zhang, Ying Zhuo, Yu Ouyang, Yaqin Chai, Pu Zhang, Ruo Yuan   +9 more
wiley   +1 more source

Capturing the essence of folding and functions of biomolecules using Coarse-Grained Models

, 2011
The distances over which biological molecules and their complexes can function range from a few nanometres, in the case of folded structures, to millimetres, for example during chromosome organization. Describing phenomena that cover such diverse length,
A Dhar, A Elcock, A Elcock, A Grosberg, A Grosberg, A Minton, A Pisliakov, A Podtelezhnikov, A Rychkova, A Savelyev, A Vologodskii, AA Podtelezhnikov, B Messer, BJ Alder, C Bustamante, C Clementi, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, C Hyeon, D Thirumalai, D Thirumalai, D Thirumalai, D Thirumalai, D Thirumalai, E Koculi, E Lieberman-Aiden, E O'Brien, E Shakhnovich, EP O'Brien, F Valle, G Lorimer, G Papoian, G Ziv, H Liu, H Ma, HX Zhou, I Tinoco Jr., J Chen, J Harms, J Karanicolas, J Straub, JD Honeycutt, JM Fernandez, JN Onuchic, KA Dill, M Levitt, M Mickler, M Strajbl, M Takano, ME Fisher, MJ Todd, MS Cheung, N Hirokawa, N Koga, N Toan, OK Dudko, P Weinkam, PB Moore, PC Whitford, Q Du, R Russell, R Tehver, R Tehver, RD Vale, RD Vale, RI Dima, RW Pastor, S Jun, S Jun, S Jun, S Kamerlin, S Kirkpatrick, S Moghaddam, SB Smith, SJ Chen, SJ Marrink, T Cloutier, T Cremer, T Kirkpatrick, T Veitshans, V Lubchenko, Z Liu, Z Xu   +89 more
core   +1 more source

Mechanical unfolding of RNA hairpins

, 2005
Mechanical unfolding trajectories, generated by applying constant force in optical tweezer experiments, show that RNA hairpins and the P5abc subdomain of the group I intron unfold reversibly.
C. Hyeon, Camacho, D. Thirumalai, Fernandez, Gerland, Gerland, Klimov, Klimov, Klimov, Klimov, Koculi, Liphardt, Liphardt, Mathews, Misra, Onoa, R  disser, Thirumalai, Treiber, Walter   +19 more
core   +2 more sources