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Portail > Offres > Offre FR2424-BARRAF-016 - Ingénieur Bioinformaticien - assemblage de génomes (H/F)

Bioinformatician in genome assembly (M/F)

This offer is available in the following languages:
Français - Anglais

Date Limite Candidature : vendredi 16 décembre 2022

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General information

Reference : FR2424-BARRAF-016
Workplace : ROSCOFF
Date of publication : Tuesday, November 15, 2022
Type of Contract : FTC Technical / Administrative
Contract Period : 18 months
Expected date of employment : 2 January 2023
Proportion of work : Full time
Remuneration : from 2768.35 € to 3270.24 € according to the experience
Desired level of education : PhD
Experience required : 1 to 4 years

Missions

The main responsibility of the engineer will be to work on genome assembly projects of fungi and bacteria associated with the alga (A. nodosum whose genome is already available) . The work will include genome assembly using long reads (mainly PacBio HiFi), but also structural and functional annotation of genomes, pipeline development.

Activities

The engineer may be involved in comparative and/or population genomics projects.
Responsibilities include performing analyses, communicating with partners, monitoring current developments in the field, writing reports and potentially teaching.

Skills

A PhD or at least three years of engineering experience , both in bioinformatics, molecular biology, computer science, or related fields considers relevant to the project position.
At least three years of experience using long-read sequencing data (PacBio or Nanopore) for eukaryotic genome and procaryotic genome assembly, as well as expertise in the use of currently used genome assemblers and assembly QC tools, including a thorough understanding of how to interpret the results. Experience with assembly curation is also required.

Ability to work effectively in a Linux command line environment.
Good communication skills, both oral and written, are required, as well as the ability to collaborate with scientists from a wide range of backgrounds.
Emphasis will be placed on personal qualities, such as the ability to lead projects and work in a collaborative environment.
A willingness to learn new methods and the ability to acquire new skills are essential for this position.
Knowledge of genome annotation of non-model organisms and proficiency in comparative and population genomics.
Strong skills in R or scripting languages such as Python are considered.
Experience with tools used to ensure reproducibility, such as Git, containers, and workflow managers.

Work Context

This work will be carried out in the context of the SEABIOZ ANR project with both academic partners (Roscoff Biological Station, IRISA Rennes, Natural History Museum Paris) and an industrial partner (Agro Innovation International, CMI Roullier, St. Malo). This contract is part of a multidisciplinary approach at the crossroads between massive sequence data mining, metabolomics and system biology.
Ascophyllum nodosum is a common brown alga found along the coasts of the North Atlantic Ocean. A unique feature of this alga is its mutualistic association with the fungal endophyte “Mycophycias ascophylli” and other fungi and bacteria. Very little is known so far about the importance of these symbionts for the alga, except that they are believed to protect A. nodosum germlings from desiccation and benefit their fitness.

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