Level of expression of most transcription factor genes in lymphoblastoid cell line GM12878

Range <10 protein copies/cell
Organism Human Homo sapiens
Reference Marinov GK et al., From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing. Genome Res. 2014 Mar24(3):496-510. doi: 10.1101/gr.161034.113 p.501 right column bottom paragraphPubMed ID24299736
Method Abstract:"Here [investigators] apply the SMART-seq single-cell RNA-seq protocol to study the reference lymphoblastoid cell line GM12878."
Comments p.501 right column bottom paragraph:”Because transcriptional regulators play a crucial role in defining the gene expression state of cells, [investigators] examined the expression of several well-known general transcription factors as well as major regulators of B-cell differentiation (Fig. 3E). Remarkably, except for IRF4, which was usually expressed at several dozen copies, most factors were detected at <10 copies per cell, and were often not detected at all. [Investigators] stress that this does not mean that they are not expressed. Given the 10% psmc of the protocol, these observations are consistent with simple technical failure to detect them. It is also possible that there are no mRNA copies in some cells at the moment of harvest, especially if they are infrequently transcribed.” Psmc=the number of cells pooled and the single molecule capture efficiency
Entered by Uri M
ID 111779