These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
22. Effects of flanking regions on HDV cotranscriptional folding kinetics. Wang Y; Wang Z; Liu T; Gong S; Zhang W RNA; 2018 Sep; 24(9):1229-1240. PubMed ID: 29954950 [TBL] [Abstract][Full Text] [Related]
23. Computational Methods for Modeling Aptamers and Designing Riboswitches. Gong S; Wang Y; Wang Z; Zhang W Int J Mol Sci; 2017 Nov; 18(11):. PubMed ID: 29149090 [TBL] [Abstract][Full Text] [Related]
24. RNA folding kinetics using Monte Carlo and Gillespie algorithms. Clote P; Bayegan AH J Math Biol; 2018 Apr; 76(5):1195-1227. PubMed ID: 28780735 [TBL] [Abstract][Full Text] [Related]
25. Network Properties of the Ensemble of RNA Structures. Clote P; Bayegan A PLoS One; 2015; 10(10):e0139476. PubMed ID: 26488894 [TBL] [Abstract][Full Text] [Related]
26. An implementation of the Gillespie algorithm for RNA kinetics with logarithmic time update. Dykeman EC Nucleic Acids Res; 2015 Jul; 43(12):5708-15. PubMed ID: 25990741 [TBL] [Abstract][Full Text] [Related]
27. Design criteria for synthetic riboswitches acting on transcription. Wachsmuth M; Domin G; Lorenz R; Serfling R; Findeiß S; Stadler PF; Mörl M RNA Biol; 2015; 12(2):221-31. PubMed ID: 25826571 [TBL] [Abstract][Full Text] [Related]
28. Four RNA families with functional transient structures. Zhu JY; Meyer IM RNA Biol; 2015; 12(1):5-20. PubMed ID: 25751035 [TBL] [Abstract][Full Text] [Related]
31. Finding consensus stable local optimal structures for aligned RNA sequences and its application to discovering riboswitch elements. Li Y; Zhong C; Zhang S Int J Bioinform Res Appl; 2014; 10(4-5):498-518. PubMed ID: 24989865 [TBL] [Abstract][Full Text] [Related]
32. Memory-efficient RNA energy landscape exploration. Mann M; Kucharík M; Flamm C; Wolfinger MT Bioinformatics; 2014 Sep; 30(18):2584-91. PubMed ID: 24833804 [TBL] [Abstract][Full Text] [Related]
33. RNA folding pathways and kinetics using 2D energy landscapes. Senter E; Dotu I; Clote P J Math Biol; 2015 Jan; 70(1-2):173-96. PubMed ID: 24515409 [TBL] [Abstract][Full Text] [Related]
34. On the importance of cotranscriptional RNA structure formation. Lai D; Proctor JR; Meyer IM RNA; 2013 Nov; 19(11):1461-73. PubMed ID: 24131802 [TBL] [Abstract][Full Text] [Related]
35. Transient RNA structure features are evolutionarily conserved and can be computationally predicted. Zhu JY; Steif A; Proctor JR; Meyer IM Nucleic Acids Res; 2013 Jul; 41(12):6273-85. PubMed ID: 23625966 [TBL] [Abstract][Full Text] [Related]
36. COFOLD: an RNA secondary structure prediction method that takes co-transcriptional folding into account. Proctor JR; Meyer IM Nucleic Acids Res; 2013 May; 41(9):e102. PubMed ID: 23511969 [TBL] [Abstract][Full Text] [Related]
37. Efficient procedures for the numerical simulation of mid-size RNA kinetics. Aviram I; Veltman I; Churkin A; Barash D Algorithms Mol Biol; 2012 Sep; 7(1):24. PubMed ID: 22958879 [TBL] [Abstract][Full Text] [Related]
38. Predicting folding pathways between RNA conformational structures guided by RNA stacks. Li Y; Zhang S BMC Bioinformatics; 2012 Mar; 13 Suppl 3(Suppl 3):S5. PubMed ID: 22536903 [TBL] [Abstract][Full Text] [Related]