Study Sessions on Bioinformatics and Related Topics - Dr. Hideya KAWAJI

[Alexis Vandenbon]

Dear All,

We are planning to have the fifth presentation in our series on bioinformatics as follows. Please note that this presentation will be held next week.

Speaker: Dr. Hideya Kawaji (RIKEN)
Title: "Precise annotation of TSS peaks uncovering complexity in state-dependent activation of transcription initiation"
Time: June 29th, from 10:00 AM
Place: Meeting Room 1 on the 2nd floor of the IFReC Building
Language: English
See also: http://sysimg.ifrec.osaka-u.ac.jp/bioinfo/ (abstract and title will soon be added)

Abstract:

Recent progress of technology development in high-throughput sequencing, for example CAGE (Cap Analysis Gene Expression), enabled us to identify transcription starting sites (TSSs) and quantify their activities experimentally across the genome. In the FANTOM5 project (Forrest et al. Nature 507, 462–470, 2014), we profiled TSS activities in nearly one thousand human samples including diverse range of primary cells, to understand transcriptome states encoded in the genomes. Here we developed a new method to identify TSS peaks empirically as a reference from such diverse range of TSS profiles. The result successfully discriminated proximal TSS regions differentially used, while the other approaches failed. We found that our approach defines TSS peaks precisely, that is, covering known genes extensively with a quite limited amount of genome coverage (~0.5% of the genome). Additionally we found almost a half of the genes have multiple promoters activated in different contexts. The resulting data represent the most advanced baseline to understand complexity of transcription initiation.

Best,

Alex