[BBC] One week left to apply: PhD position in bioinformatics for haplotype assembly - @DelftBL - @TUDelft

[Thomas Abeel - EWI]

We have a Bioinformatics PhD position available at The Delft 
Bioinformatics Lab at TU Delft.

Project:

Your goal in this project is to create novel algorithms that resolve 
haplotypes in microbial genomes. Haplotypes refer to the sequence of all 
individual chromosome copies typically inherited together from a parent. 
This within-species genetic heterogeneity is one of the missing pieces 
in many microbial comparative genomics studies aiming to associate 
genotypes with phenotypes of interest. For many organisms, we poorly 
understand the contribution of the diversity within an individual, and 
one of the key reasons is that we don't have the computational tools to 
study this diversity.

With the continued improvements in third generation sequencing 
technology, combined with the vast quantity of data being deposited 
publicly, this problem is ready for a solution.

You will have three aims:
• Implement reference-guided haplotyping from pangenome reference 
sequence graphs
• Explore de novo haplotyping from 3rd generation sequencing data
• Investigate copy-number detection at the gene and chromosome scale, 
and intra-chromosomal DNA variation.


Candidate:

The ideal candidate has an MSc degree in bioinformatics, computer 
science, or applied mathematics. Affinity with or experience in biology, 
genomics and/or sequence analysis are desirable. He/she must be able to 
work effectively in a multidisciplinary team. The candidate shares our 
view that communication skills are important, as is the ability to 
interact with peers, students, and technical staff. Programming and 
scripting experience is required. Experience in microbial genomics is an 
advantage.

Apply before January 15, 2018

https://www.academictransfer.com/employer/TUD/vacancy/43973/lang/en/


kind regards,

Thomas