Search results for "riboswitch"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
61	Adaya N. Cohen, Klara Kedem, Michal Shapira, Danny Barash	Integration of RNA Search methods for Identifying Novel Riboswitch Patterns in Eukaryotes.	CSB Workshops	2005	DBLP DOI BibTeX RDF
57	Peter Bengert, Thomas Dandekar	Riboswitch finder tool for identification of riboswitch RNAs.	Nucleic Acids Res.	2004	DBLP DOI BibTeX RDF
36	Shaojie Zhang, Brian Haas, Eleazar Eskin, Vineet Bafna	Searching Genomes for Noncoding RNA Using FastR.	IEEE ACM Trans. Comput. Biol. Bioinform.	2005	DBLP DOI BibTeX RDF	Noncoding RNA, riboswitch, bacterial genome, filtration, database search
28	Amit Kumar, Harish Vashisth	Mechanism of Ligand Discrimination by the NMT1 Riboswitch.	J. Chem. Inf. Model.	2023	DBLP DOI BibTeX RDF
28	Jianzhong Chen, Qingkai Zeng, Wei Wang, Haibo Sun, Guodong Hu	Decoding the Identification Mechanism of an SAM-III Riboswitch on Ligands through Multiple Independent Gaussian-Accelerated Molecular Dynamics Simulations.	J. Chem. Inf. Model.	2022	DBLP DOI BibTeX RDF
28	Elisabeth Kallert, Tim R. Fischer, Simon Schneider, Maike Grimm, Mark Helm, Christian Kersten	Protein-Based Virtual Screening Tools Applied for RNA-Ligand Docking Identify New Binders of the preQ1-Riboswitch.	J. Chem. Inf. Model.	2022	DBLP DOI BibTeX RDF
28	Indu Negi, Amanpreet Singh Mahmi, Preethi Seelam Prabhakar, Purshotam Sharma	Molecular Dynamics Simulations of the Aptamer Domain of Guanidinium Ion Binding Riboswitch ykkC-III: Structural Insights into the Discrimination of Cognate and Alternate Ligands.	J. Chem. Inf. Model.	2021	DBLP DOI BibTeX RDF
28	Jorge A. Marchand, Merrick D. Pierson smela, Thomas H. H. Jordan, Kamesh Narasimhan, George M. Church	TBDB: a database of structurally annotated T-box riboswitch: tRNA pairs.	Nucleic Acids Res.	2021	DBLP DOI BibTeX RDF
28	Guodong Hu, Huan-Xiang Zhou	Binding free energy decomposition and multiple unbinding paths of buried ligands in a PreQ1 riboswitch.	PLoS Comput. Biol.	2021	DBLP DOI BibTeX RDF
28	Solomon Shiferaw Beyene, Tianyi Ling, Blagoj Ristevski, Ming Chen 0005	A novel riboswitch classification based on imbalanced sequences achieved by machine learning.	PLoS Comput. Biol.	2020	DBLP DOI BibTeX RDF
28	Matt Crum, Nikhil Ram-Mohan, Michelle M. Meyer	Regulatory context drives conservation of glycine riboswitch aptamers.	PLoS Comput. Biol.	2019	DBLP DOI BibTeX RDF
28	Hugo A. Guillen-Ramirez, Israel M. Martínez-Pérez	Classification of riboswitch sequences using k-mer frequencies.	Biosyst.	2018	DBLP DOI BibTeX RDF
28	Manish Kesherwani, Kutumbarao N. H. V, Devadasan Velmurugan	Conformational Dynamics of thiM Riboswitch To Understand the Gene Regulation Mechanism Using Markov State Modeling and the Residual Fluctuation Network Approach.	J. Chem. Inf. Model.	2018	DBLP DOI BibTeX RDF
28	Guodong Hu, Aijing Ma, Jihua Wang	Ligand Selectivity Mechanism and Conformational Changes in Guanine Riboswitch by Molecular Dynamics Simulations and Free Energy Calculations.	J. Chem. Inf. Model.	2017	DBLP DOI BibTeX RDF
28	Christian A. Hanke, Holger Gohlke	Tertiary Interactions in the Unbound Guanine-Sensing Riboswitch Focus Functional Conformational Variability on the Binding Site.	J. Chem. Inf. Model.	2017	DBLP DOI BibTeX RDF
28	Susmita Roy, Heiko Lammert, Ryan L. Hayes, Bin Chen, Regan LeBlanc, T. Kwaku Dayie, José N. Onuchic, Karissa Y. Sanbonmatsu	A magnesium-induced triplex pre-organizes the SAM-II riboswitch.	PLoS Comput. Biol.	2017	DBLP DOI BibTeX RDF
28	Sumit Mukherjee, Supratim Sengupta	Riboswitch Scanner: an efficient pHMM-based web-server to detect riboswitches in genomic sequences.	Bioinform.	2016	DBLP DOI BibTeX RDF
28	Amritpreet Kaur, Somdutt Mujwar, Neeru Adlakha	In-silico analysis of riboswitch of Nocardia farcinica for design of its inhibitors and pharmacophores.	Int. J. Comput. Biol. Drug Des.	2016	DBLP DOI BibTeX RDF
28	Francesco Di Palma, Sandro Bottaro, Giovanni Bussi	Kissing loop interaction in adenine riboswitch: insights from umbrella sampling simulations.	BMC Bioinform.	2015	DBLP DOI BibTeX RDF
28	Amirhossein Manzourolajdad, Jonathan P. Arnold	Secondary structural entropy in RNA switch (Riboswitch) identification.	BMC Bioinform.	2015	DBLP DOI BibTeX RDF
28	Somdutt Mujwar, Kamal Raj Pardasani	Prediction of riboswitch as a potential drug target and design of its optimal inhibitors for Mycobacterium tuberculosis.	Int. J. Comput. Biol. Drug Des.	2015	DBLP DOI BibTeX RDF
28	Sunita Yadav, D. Swati, Hariharan Chandrasekharan	Thiamine Pyrophosphate Riboswitch in Some Representative Plant Species: A Bioinformatics Study.	J. Comput. Biol.	2015	DBLP DOI BibTeX RDF
28	Yuan Li, Cuncong Zhong, Shaojie Zhang	Finding consensus stable local optimal structures for aligned RNA sequences and its application to discovering riboswitch elements.	Int. J. Bioinform. Res. Appl.	2014	DBLP DOI BibTeX RDF
28	Kokoro Hamachi, Hikari Hayashi, Miyuki Shimamura, Yuiha Yamaji, Ai Kaneko, Aruma Fujisawa, Takuya Umehara, Koji Tamura	Glycols modulate terminator stem stability and ligand-dependency of a glycine riboswitch.	Biosyst.	2013	DBLP DOI BibTeX RDF
28	Ben Sauerwine, Michael Widom	Folding Kinetics of Riboswitch Transcriptional Terminators and Sequesterers.	Entropy	2013	DBLP DOI BibTeX RDF
28	Wei Huang, Joohyun Kim 0001, Shantenu Jha, Fareed Aboul-Ela	The Impact of a Ligand Binding on Strand Migration in the SAM-I Riboswitch.	PLoS Comput. Biol.	2013	DBLP DOI BibTeX RDF
28	Franziska Jentzsch, Jennifer V. Hines	Interfacing medicinal chemistry with structural bioinformatics: implications for T box riboswitch RNA drug discovery.	BMC Bioinform.	2012	DBLP DOI BibTeX RDF
28	Payal Singh, Pradipta Bandyopadhyay, Sudha Bhattacharya, A. Krishnamachari, Supratim Sengupta	Riboswitch Detection Using Profile Hidden Markov Models.	BMC Bioinform.	2009	DBLP DOI BibTeX RDF
28	Chase L. Beisel, Christina D. Smolke	Design Principles for Riboswitch Function.	PLoS Comput. Biol.	2009	DBLP DOI BibTeX RDF
28	Eva Freyhult, Vincent Moulton, Peter Clote	Boltzmann probability of RNA structural neighbors and riboswitch detection.	Bioinform.	2007	DBLP DOI BibTeX RDF
28	Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet Bafna	A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements.	ISMB (Supplement of Bioinformatics)	2006	DBLP DOI BibTeX RDF
28	Oriel Bergig, Danny Barash, Evgeny Nudler, Klara Kedem	STR2: A structure to string approach for locating G-box riboswitch shapes in pre-selected genes.	Silico Biol.	2004	DBLP BibTeX RDF