Apr 4, 2015

Isoform-level Ribosome Occupancy Estimation Guided by Transcript Abundance with Ribomap

BioRxiv : the Preprint Server for Biology
Hao WangCarl Kingsford


Ribosome profiling is a recently developed high-throughput sequencing technique that captures approximately 30 bp long ribosome-protected mRNA fragments during translation. Because of alternative splicing and repetitive sequences, a ribosome-protected read may map to many places in the transcriptome, leading to discarded or arbitrary mappings when standard approaches are used. We present a technique and software that addresses this problem by assigning reads to potential origins proportional to estimated transcript abundance. This yields a more accurate estimate of ribosome profiles compared with a naϊve mapping. Ribomap is available as open source at [http://www.cs.cmu.edu/∼ckingsf/software/ribomap][1]. [1]: http://www.cs.cmu.edu/%E2%88%BCckingsf/software/ribomap

  • References
  • Citations


  • We're still populating references for this paper, please check back later.
  • References
  • Citations


  • This paper may not have been cited yet.

Mentioned in this Paper

Computer Software
Repetitive Region
Protein Biosynthesis
RNA Splicing
probe gene fragment
Protein Isoforms
High-Throughput RNA Sequencing

About this Paper

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Alternative splicing

Alternative splicing a regulated gene expression process that allows a single genetic sequence to code for multiple proteins. Here is that latest research.