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RRS specifications

Information


Unique identifier OMICS_20309
Name RRS
Alternative name Ribosome Release Score
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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  • person_outline Eric Lander <>
  • person_outline Mitchell Guttman <>

Publication for Ribosome Release Score

RRS in publications

 (8)
PMCID: 5699049
PMID: 29087317
DOI: 10.1073/pnas.1708433114

[…] ribo-lncrnas contained at least one sorf encoding ≥10 aa, but only 397 met the threshold of ≥1 rpkm for rfs on at least one sorf of ≥30 nt (). to seek evidence of sorf translation, we determined the ribosome release score (rrs) () (), which quantifies the decline in rf number (drop-off) seen after the termination codon (). comparison of te and rrs values of protein-coding and ribo-lncrna orfs […]

PMCID: 5538645
PMID: 28763438
DOI: 10.1371/journal.pbio.2002176

[…] for the lncrna analysis, we employed the multiexonic lncrna catalog (approximately 1,500 lncrnas) established in our earlier work, which was stringently filtered by phylocsf score, cpc analysis, and ribosome release score []. hierarchical clustering analysis of mrna expression profiles demonstrated that samples within each condition tightly clustered with each other (). notably, the clustering […]

PMCID: 5562443
PMID: 28820723
DOI: 10.7554/eLife.23468.032

[…] we designated linc1281 as ephemeron (eprn). ribosomal profiling analysis indicated that eprn is indeed a non-coding rna, with the longest predicted open reading frame (80 amino acids) possessing a ribosome release score typical of a non-coding sequence (). eprn is located in a region of high transposable element (te) content, with its exons comprised of 76.4% annotated te sequences (including […]

PMCID: 5138193
PMID: 27999563
DOI: 10.3389/fendo.2016.00151

[…] that many lncrnas were, in fact, ribosome-bound while high sensitivity mass spectrometry failed to identify those small peptides from supposed “lncrna orfs” (). with the help of bioinformatics, ribosome release score has been calculated for protein-coding and non-coding rnas. ribosome release score is produced by using ribosome dissociation and association values of given part of rna. using […]

PMCID: 4739325
PMID: 26838501
DOI: 10.1186/s13059-016-0880-9

[…] lncrnas, such as malat1, tug1, miat, that are often excluded due to significant coding-potential scores (additional file : figure s2c); and (5) our set of lncrnas have a significantly reduced ribosome release score (rrs) [], a measure that accurately predicts coding potential from ribosome profiling data, than protein-coding genes (73-fold, p <2.2 × 10−16, t-test) (fig. )., together, […]


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RRS institution(s)
Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA; Department of Embryology, Carnegie Institution for Science, Baltimore, MD, USA; Howard Hughes Medical Institute, Department of Cellular and Molecular Pharmacology, University of California, San Francisco, CA, USA; Department of Systems Biology, Harvard Medical School, Boston, MA, USA

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