Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 158

1.

GPU-based acceleration of an RNA tertiary structure prediction algorithm.

Jeon Y, Jung E, Min H, Chung EY, Yoon S.

Comput Biol Med. 2013 Sep;43(8):1011-22. doi: 10.1016/j.compbiomed.2013.05.007. Epub 2013 May 22.

PMID:
23816173
2.

CPU-GPU hybrid accelerating the Zuker algorithm for RNA secondary structure prediction applications.

Lei G, Dou Y, Wan W, Xia F, Li R, Ma M, Zou D.

BMC Genomics. 2012;13 Suppl 1:S14. doi: 10.1186/1471-2164-13-S1-S14. Epub 2012 Jan 17.

3.

Multicore and GPU algorithms for Nussinov RNA folding.

Li J, Ranka S, Sahni S.

BMC Bioinformatics. 2014;15 Suppl 8:S1. doi: 10.1186/1471-2105-15-S8-S1. Epub 2014 Jul 14.

4.

Comparison of P-RnaPredict and mfold--algorithms for RNA secondary structure prediction.

Wiese KC, Hendriks A.

Bioinformatics. 2006 Apr 15;22(8):934-42. Epub 2006 Feb 10.

PMID:
16473869
5.

[A method for prediction of conserved RNA secondary structures].

Mironov AA.

Mol Biol (Mosk). 2007 Jul-Aug;41(4):711-8. Russian.

PMID:
17936993
6.
7.

Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars.

Sükösd Z, Knudsen B, Vaerum M, Kjems J, Andersen ES.

BMC Bioinformatics. 2011 Apr 18;12:103. doi: 10.1186/1471-2105-12-103.

8.

Multilign: an algorithm to predict secondary structures conserved in multiple RNA sequences.

Xu Z, Mathews DH.

Bioinformatics. 2011 Mar 1;27(5):626-32. doi: 10.1093/bioinformatics/btq726. Epub 2010 Dec 30.

9.

MrBayes tgMC³: a tight GPU implementation of MrBayes.

Ling C, Hamada T, Bai J, Li X, Chesters D, Zheng W, Shi W.

PLoS One. 2013 Apr 9;8(4):e60667. doi: 10.1371/journal.pone.0060667. Print 2013.

10.

taveRNA: a web suite for RNA algorithms and applications.

Aksay C, Salari R, Karakoc E, Alkan C, Sahinalp SC.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W325-9. Epub 2007 May 8.

11.

Counting RNA pseudoknotted structures.

Saule C, Régnier M, Steyaert JM, Denise A.

J Comput Biol. 2011 Oct;18(10):1339-51. doi: 10.1089/cmb.2010.0086. Epub 2011 May 6.

12.

iFoldRNA v2: folding RNA with constraints.

Krokhotin A, Houlihan K, Dokholyan NV.

Bioinformatics. 2015 Sep 1;31(17):2891-3. doi: 10.1093/bioinformatics/btv221. Epub 2015 Apr 24.

13.

On developing B-spline registration algorithms for multi-core processors.

Shackleford JA, Kandasamy N, Sharp GC.

Phys Med Biol. 2010 Nov 7;55(21):6329-51. doi: 10.1088/0031-9155/55/21/001. Epub 2010 Oct 12.

PMID:
20938071
14.

Efficient RNA pairwise structure comparison by SETTER method.

Hoksza D, Svozil D.

Bioinformatics. 2012 Jul 15;28(14):1858-64. doi: 10.1093/bioinformatics/bts301. Epub 2012 May 18.

PMID:
22611129
15.

Parallelized computation for computer simulation of electrocardiograms using personal computers with multi-core CPU and general-purpose GPU.

Shen W, Wei D, Xu W, Zhu X, Yuan S.

Comput Methods Programs Biomed. 2010 Oct;100(1):87-96. doi: 10.1016/j.cmpb.2010.06.015. Epub 2010 Jul 31.

PMID:
20674066
16.

GAMUT: GPU accelerated microRNA analysis to uncover target genes through CUDA-miRanda.

Wang S, Kim J, Jiang X, Brunner SF, Ohno-Machado L.

BMC Med Genomics. 2014;7 Suppl 1:S9. doi: 10.1186/1755-8794-7-S1-S9. Epub 2014 May 8.

17.

Fine-grained parallel RNAalifold algorithm for RNA secondary structure prediction on FPGA.

Xia F, Dou Y, Zhou X, Yang X, Xu J, Zhang Y.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S37. doi: 10.1186/1471-2105-10-S1-S37.

18.

Evolutionary solution for the RNA design problem.

Esmaili-Taheri A, Ganjtabesh M, Mohammad-Noori M.

Bioinformatics. 2014 May 1;30(9):1250-8. doi: 10.1093/bioinformatics/btu001. Epub 2014 Jan 8.

PMID:
24407223
19.

CMSA: a heterogeneous CPU/GPU computing system for multiple similar RNA/DNA sequence alignment.

Chen X, Wang C, Tang S, Yu C, Zou Q.

BMC Bioinformatics. 2017 Jun 24;18(1):315. doi: 10.1186/s12859-017-1725-6.

20.

Computational analysis of RNA structures with chemical probing data.

Ge P, Zhang S.

Methods. 2015 Jun;79-80:60-6. doi: 10.1016/j.ymeth.2015.02.003. Epub 2015 Feb 14. Review.

Supplemental Content

Support Center