Estimated RNA half-lives for different transcript classes in K562 cells

Range Figure - link min
Organism Human Homo sapiens
Reference Schwalb B et al., TT-seq maps the human transient transcriptome. Science. 2016 Jun 3 352(6290):1225-8. doi: 10.1126/science.aad9841. p.1227 figure 3PubMed ID27257258
Primary Source [4] Materials and methods are available as supplementary materials on Science Online link
Method Abstract: "[Investigators] developed transient transcriptome sequencing (TT-seq), a protocol that uniformly maps the entire range of RNA-producing units and estimates rates of RNA synthesis and degradation. Application of TT-seq to human K562 cells recovers stable messenger RNAs and long intergenic noncoding RNAs and additionally maps transient enhancer, antisense, and promoter-associated RNAs."
Comments P.1226 middle column bottom paragraph: "Kinetic modeling of TT-seq and RNA-seq data enabled [investigators] to estimate rates of RNA synthesis and degradation (Fig. 3 and fig. S7A) (primary source). [They] estimated rates of phosphodiester bond formation or breakage at each transcribed position and averaged these within TUs [transcriptional units], thus obtaining estimates of relative transcription rates and RNA stabilities (primary source).[They] found that mRNAs and lincRNAs had the highest synthesis rates and longest halflives." See note & abbreviations beneath figure
Entered by Uri M
ID 112682