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CDS Seminar (5th May 2021): Algorithms and AI methods in complete genome reconstruction

05 May @ 11:00 AM -- 12:00 PM

Department of Computational and Data Sciences
Research Seminar (Online)

Speaker: Mile Sikic, Genome Institute of Singapore, ASTAR

Title: “Algorithms and AI methods in complete genome reconstruction”

Venue: Online

Date & Time: May 5, 2021, 11 AM – 12 PM



Progress in the development of long-read sequencing technologies opens opportunities to develop a new generation of de novo assemblers – tools for the reconstruction of unknown genomes. The ultimate goal for de novo assemblers are building telomere-to-telomere assembly of chromosomes. Challenges in achieving this goal are (i) sequencing artefacts such as chimeric reads and (ii) reads which come from long repetitive regions in the genome.

The talk will start off with a brief introduction to the de novo assembly problem and posed challenges for researchers. After that, the talk will focus on contemporary methods and algorithms for building high-quality genomes. The presentation will finish with the opportunity of using AI methods such as graph neural networks for solving remaining problems.


Short bio

Mile Šikić is a group leader at the Genome Institute of Singapore, ASTAR. He is also a professor in computer science at the University of Zagreb. At the same university, he obtained a PhD in computer science in 2008.

At the beginning of his career, he was involved, as a system integrator, consultant and project manager, in more than 70 projects with industry in the fields of computer and mobile networks. In 2009 he became an Assistant Professor. His research interests include developing new algorithms, data structures and AI methods on strings and graphs and their application in genome sequence analysis.


Host: Chirag Jain


05 May
11:00 AM -- 12:00 PM