GenPhySE - INRA Toulouse
24, chemin de Borde-Rouge - Auzeville Tolosane
31326 Castanet Tolosan
A postdoctoral position is available within the context of the SeqOccin project (http://www.toulouse.inra.fr/en/All-the-news/SeqOccIn). This project aims to acquire advanced expertise of long fragment sequencing technologies and in particular its contribution to three thematic fields: genome polymorphism, epigenome and metagenomics. The postdoctoral project falls within the scope of the characterization of genome diversity and more precisely the detection of structural variation using long reads. The successful candidate will be part of a collaborative team of bioinformaticians, researchers as well as engineers, that are working together on the large scale analysis of sequencing data within the genome polymorphism axis of the project that focus on both genome assembly, single nucleotide and short indels variation as well as structural variation discovery. The successful applicant will be hosted in the Dynagen team (https://genphyse.toulouse.inra.fr/groups/dynagen), made of 5 researchers with skills in statistical genetics and in computational biology and working in mainly 3 scientific fields: population genomics, genome annotation and structural variation detection.
In this context, the SeqOccin project is seeking a postdoc to develop computational methods and pipelines for the detection of structural variants using cutting edge sequencing technologies (Chromium 10X genomics, Illumina Novoseq, Bionano, Long read Oxford Nanopore). One of the objectives will be to determine the best strategy for the detection of SV using long reads and to implement this strategy into ready to use pipelines. The strategy will be oriented towards the ultimate goal of an exhaustive characterization of genetic variability incorporating SNP, small indels, as well as larger structural variations, and hence towards the construction of a consistent set of variants (SNP, SV). For the purpose of characterizing the genetic variability within a population, the exploitation of the recently proposed variation graph (Garrisson et al. 2018) will be explored. The work will benefit from strong interactions with other components of the SeqOccin project dedicated to genome assembly or SNP detection.
The applicants should have a PhD degree in Computational Biology/Bioinformatics. An experience in the field of genomics and variant detection would be considered an advantage.