SciLifeLab seminar series-Campus Solna, Kristoffer Sahlin
Tuesday, 3 March, 2020 at 15:15 in Air and Fire
SciLifeLab Fellow, Stockholm University, Sweden
Kristoffer has recently been recruited as an Assistant Professor at the Department of Mathematics at Stockholm University and as a SciLifeLab Fellow at the national center for molecular biosciences, Science for Life Laboratory. He obtained his Ph.D. in Computer science from KTH Royal Institute of Technology and has worked as a Postdoctoral researcher at Pennsylvania State University and at the University of Helsinki. Before that, he obtained a bachelor’s degree in mathematics and a master’s degree in mathematical statistics from Stockholm University.
Title: Computational methods for analysis of genome and transcriptome sequencing data
In our cells, DNA and RNA hold information to answer questions about evolution, diseases, and traits. We are now able to assay this sequence information at large scale using various high-throughput sequencing techniques. The rapid advances in sequencing technologies require parallel advances in bioinformatic algorithms. Today, fast and accurate tools are the bottleneck that stands between raw data and biological discovery. Reducing the time spent on analysis can be achieved by improving either runtime or accuracy of bioinformatic algorithms, both of which are best solved through algorithmic design. In this talk, I will present my research on algorithms to reduce the computational bottleneck in some common bioinformatic problems encountered in genome and transcriptome sequence analysis. I will first briefly present my doctoral work on algorithms related to genomic problems such as genome assembly and structural variation detection. I will then continue to describe my recent and ongoing algorithmic work on analyzing long-read transcriptome sequencing data.
Host: Mats Nilsson