Literature DB >> 12824414

RNA-related tools on the Bielefeld Bioinformatics Server.

Alexander Sczyrba1, Jan Krüger, Henning Mersch, Stefan Kurtz, Robert Giegerich.   

Abstract

We present four tools for the analysis of RNA secondary structure. They provide animated visualization of multiple structures, prediction of potential conformational switching, structure comparison (including local structure alignment) and prediction of structures potentially containing a certain kind of pseudoknots. All are available via the Bielefeld University Bioinformatics Server (http://bibiserv.techfak.uni-bielefeld.de).

Mesh：

Substances：

Year:  2003        PMID： 12824414      PMCID： PMC168982          DOI： 10.1093/nar/gkg576

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  4 in total

1.  Prediction and visualization of structural switches in RNA.

Authors:  R Giegerich; D Haase; M Rehmsmeier
Journal:  Pac Symp Biocomput       Date:  1999

2.  RNA movies: visualizing RNA secondary structure spaces.

Authors:  D Evers; R Giegerich
Journal:  Bioinformatics       Date:  1999-01       Impact factor: 6.937

3.  A dynamic programming algorithm for RNA structure prediction including pseudoknots.

Authors:  E Rivas; S R Eddy
Journal:  J Mol Biol       Date:  1999-02-05       Impact factor: 5.469

4.  Molecular dissection of the pseudoknot governing the translational regulation of Escherichia coli ribosomal protein S15.

Authors:  C Philippe; L Bénard; C Portier; E Westhof; B Ehresmann; C Ehresmann
Journal:  Nucleic Acids Res       Date:  1995-01-11       Impact factor: 16.971
  4 in total
  8 in total

1.  RDfolder: a web server for prediction of RNA secondary structure.

Authors:  Xiaomin Ying; Hong Luo; Jingchu Luo; Wuju Li
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

Review 2.  Computational methods in noncoding RNA research.

Authors:  Ariane Machado-Lima; Hernando A del Portillo; Alan Mitchell Durham
Journal:  J Math Biol       Date:  2007-09-04       Impact factor: 2.259

3.  A benchmark of multiple sequence alignment programs upon structural RNAs.

Authors:  Paul P Gardner; Andreas Wilm; Stefan Washietl
Journal:  Nucleic Acids Res       Date:  2005-04-28       Impact factor: 16.971

4.  ViennaRNA Package 2.0.

Authors:  Ronny Lorenz; Stephan H Bernhart; Christian Höner Zu Siederdissen; Hakim Tafer; Christoph Flamm; Peter F Stadler; Ivo L Hofacker
Journal:  Algorithms Mol Biol       Date:  2011-11-24       Impact factor: 1.405

Review 5.  Post-transcriptional nucleotide modification and alternative folding of RNA.

Authors:  Mark Helm
Journal:  Nucleic Acids Res       Date:  2006-02-01       Impact factor: 16.971

6.  Next Generation Sequencing for Long Non-coding RNAs Profile for CD4+ T Cells in the Mouse Model of Acute Asthma.

Authors:  Zhengxia Wang; Ningfei Ji; Zhongqi Chen; Chaojie Wu; Zhixiao Sun; Wenqin Yu; Fan Hu; Mao Huang; Mingshun Zhang
Journal:  Front Genet       Date:  2019-06-07       Impact factor: 4.599

7.  Mechanistic Roles of Noncoding RNAs in Lung Cancer Biology and Their Clinical Implications.

Authors:  Katey S S Enfield; Larissa A Pikor; Victor D Martinez; Wan L Lam
Journal:  Genet Res Int       Date:  2012-07-18

8.  A comprehensive comparison of comparative RNA structure prediction approaches.

Authors:  Paul P Gardner; Robert Giegerich
Journal:  BMC Bioinformatics       Date:  2004-09-30       Impact factor: 3.169
  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.