Question: Transcriptional Complexity for Human Adult Tissue and Stem Cells
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gravatar for Shicheng Guo
3.2 years ago by
Shicheng Guo7.4k
Shicheng Guo7.4k wrote:

Hi All,

Anybody have the knowledge that the Transcriptional complexity for each Human Adult Tissue and Stem Cells? I mean How many transcript or genes were expressed in each tissues or each cells?

Thanks

Nature Methods - 5, 613 - 619 (2008) Transcriptional complexity in ESCs and EBs

Given that short sequence tags can only truly be used to interrogate single discrete regions of a transcript, these data could not be used to define the complete exon content of every individual full-length mRNA. Instead, we developed a method that profiles complexity by the recognition of 'diagnostic' exonic and exon-junction sequences. These are sequences within individual mRNAs that are unique, against the background of all mRNA transcripts currently described in public mRNA data repositories. To create this diagnostic sequence set, we used the latest version of AceView20, a curated, comprehensive and non-redundant representation of public mRNA and EST sequences, which is also available through the UCSC Genome Browser. The September 2007 build of AceView contains 173,008 non-redundant transcripts from 65,363 loci in the mouse; 45.7% (78,791) of these have one or more diagnostic junction sequence, and 79.9% (138,156) contain a diagnostic exonic sequence. A comparison of SQRL tags with these diagnostic sequence annotations yielded evidence for 53,056 transcripts from 31,872 ESC loci and 50,881 mRNAs from 29,606 EB loci (Supplementary Table 7 online).

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