Institute of Theoretical Physics

Chinese Academy of Sciences

State Key Laboratory of Theoretical Physics

Seminar

Title

题目

RNA-sequencing to map transcription starts and RNA processing in bacteria

Speaker

报告人

Professor Erik Aurell

Affiliation

所在单位

Royal Institute of Technology (KTH), Stockholm, Sweden

Date

日期

15:30, Dec 07 (Monday), 2015

Venue

地点

ITP New Building 6420, 理论物理研究所新楼四层多媒体教室

Abstract

摘要

I will describe a method to separately investigate primary from processed RNA in bacteria by differentially ligating short sequences, or "tags", before RNA-sequencing. The method has made possible the mapping of many transcription start sites in the human pathogen Enterococcus faecalis and the discovery of complex transcriptional regulation and some forms of post-transcriptional modifications. The method is also useful as a reliable means to discover antisense transcript which may otherwise be confounded by artifacts of RNA-sequencing. Optimal tag design led us to the problem of finding minimal absent words (MAW) in genome sequences. A probabilistic model of reading words from a random text explains the distrubution of short MAWs while the distribution of long MAWs reflects biological differences from viruses and bacteria to complex multi-cellular organisms.

Contact person

所内联系人

Hai-Jun Zhou（周海军）