FoldAtlas : a repository for genome-wide RNA structure probing data

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

11 Scopus Citations
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Author(s)

  • Matthew Norris
  • Jitender Cheema
  • Matthew Hartley
  • Richard J. Morris
  • Sharon Aviran
  • Yiliang Ding

Detail(s)

Original languageEnglish
Pages (from-to)306-308
Journal / PublicationBioinformatics
Volume33
Issue number2
Online published22 Sep 2016
Publication statusPublished - 15 Jan 2017

Link(s)

Abstract

Most RNA molecules form internal base pairs, leading to a folded secondary structure. Some of these structures have been demonstrated to be functionally significant. High-throughput RNA structure chemical probing methods generate millions of sequencing reads to provide structural constraints for RNA secondary structure prediction. At present, processed data from these experiments are difficult to access without computational expertise. Here we present FoldAtlas, a web interface for accessing raw and processed structural data across thousands of transcripts. FoldAtlas allows a researcher to easily locate, view, and retrieve probing data for a given RNA molecule. We also provide in silico and in vivo secondary structure predictions for comparison, visualized in the browser as circle plots and topology diagrams. Data currently integrated into FoldAtlas are from a new high-depth Structure-seq data analysis in Arabidopsis thaliana, released with this work.

Research Area(s)

  • IN-VIVO, SEQ

Citation Format(s)

FoldAtlas : a repository for genome-wide RNA structure probing data. / Norris, Matthew; Kwok, Chun Kit; Cheema, Jitender; Hartley, Matthew; Morris, Richard J.; Aviran, Sharon; Ding, Yiliang.

In: Bioinformatics, Vol. 33, No. 2, 15.01.2017, p. 306-308.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

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