Overall transcription error rate estimate

Range ~4e-6 error/site
Organism Nematode Caenorhabditis elegans
Reference Gout JF, Thomas WK, Smith Z, Okamoto K, Lynch M. Large-scale detection of in vivo transcription errors. Proc Natl Acad Sci U S A. 2013 Nov 12 110(46):18584-9. doi: 10.1073/pnas.1309843110. abstract & p.18586 right column 2nd paragraph & p.18588 left column 3rd paragraphPubMed ID24167253
Method P.18588 left column top paragraph: "To accurately identify transcription errors in RNA-seq data, [researchers] developed a unique cDNA library preparation technique. [They] start by tagging fragmented mRNAs at their 5' ends with bar codes made of random 8-mers (Fig. 1A). The tagged RNA fragments are then attached to beads and reverse transcribed three times (Fig. 1B). After each round of reverse transcription, the newly generated cDNAs are washed away (Fig. 1C) and characterized by Illumina paired-end sequencing. To simplify the following discussion, [they] denote a series of reads originating from a unique molecule of fragmented mRNA as a family. Two reads are considered as belonging to the same family if they share the same bar code and have identical 5' and 3' breakpoints introduced during the process of mRNA fragmentation."
Comments
Entered by Uri M
ID 111144