Bilkent University
Department of Computer Engineering


Genome Scaffolding Using Pooled Clone Sequencing


Elif Dal
MSc Student
Computer Engineering Department
Bilkent University

The technique of DNA sequencing holds great promise in generating information that will guide scientists to learn more about how the genome affects health, evolution and the genetic relationships between individuals and species.The process of generating raw genome sequence data become cheaper, faster, but more error prone. Assembly of such data into high-quality, finished genome sequences remains challenging. Many genome assembly tools are available, but they differ in terms of their performance (speed, scalability, hardware requirements, acceptance of newer read technologies) and in their final output (composition of assembled sequence). More importantly, it remains largely unclear how to best assess the quality of assembled genome sequences. We have two different types of data generated from the genome of an individual named NA12878 :i) whole genome shotgun sequencing, ii) pooled clone sequencing. In this talk, I am going to present some of those assembly and scaffolding tools that I used on this data, limited to chromosome 20.


DATE: 23 December, 2013, Monday @ 15:40