Mots-Clés
genome sequencing
DNA pipelines
mutations
GATK
Description
Engineer in Bioinformatics / Computational Biology
Project Title: Precision Processing of Cancer Genomic & Transcriptomic Data
We are looking for a highly skilled Bioinformatics Engineer to contribute to a collaborative project aimed at modeling cancer using integrative patient data for novel precision medicine therapies. This critical role supports our research into damage-induced mutagenesis and the genetic mechanisms underlying hypermutation and DNA repair deficiencies.
Your crucial tasks:
Perform initial genomic analyses: process sequencing files, execute quality control, and generate essential mutation and copy number alteration lists.
Develop and implement components for cancer NGS data analysis, specifically focusing on genomic DNA and RNA applications.
Create and implement tools for accurate somatic variant detection from DNA sequencing.
Maintain and update our pipelines and genomic databases.
Implement tools for mutational signature analysis, copy number, and structural variant detection.
We’re looking for: A candidate with a strong background in Bioinformatics, Computational Biology, Data Science, or Biostatistics. You must have experience with standard genomics software (BWA, GATK, SAMTools) and experience in genomic analysis of NGS-based DNA or RNA assays. Proficiency in developing bioinformatics pipelines and tools for NGS is required. Experience in cancer genomics, cancer genomics software (e.g., Mutect2, FACETS, MANTIS), and familiarity with cancer databases (Cosmic, TCGA, PCAWG, HARTWIG) are strong advantages.
Why Gustave Roussy?
Join a world-renowned institution at the forefront of cancer research and patient care. You’ll be part of a vibrant scientific community, with opportunities to collaborate with leading experts and contribute to high-impact publications.
Recent highly-cited publications from our team:
Integrative pan-cancer genomic and transcriptomic analyses of refractory metastatic cancer. Cancer Discov (2023)
Genomic mutation landscape of skin cancers from DNA repair-deficient xeroderma pigmentosum patients. Nature Communications (2023)
Genomic analysis identifies novel drivers and progression pathways in skin basal cell carcinoma. Nature Genetics (2016)
APOBEC-induced mutations in human cancers are strongly enriched on the lagging DNA strand during replication. Genome Research (2016)
Somatic activating KRAS mutations in brain arteriovenous malformations. N Engl J Med (2018)
Exome sequencing identifies recurrent somatic MAP2K1 and MAP2K2 mutations in melanoma. Nature Genetics (2012)
For a complete list of our publications, visit: https://scholar.google.ch/citations?sortby=pubdate&hl=en&user=2pbz-i8AAAAJ&view_op=list_works
Learn more about our Cancer Genomics Group: https://www.gustaveroussy.fr/fr/genomique-des-cancers
Contract Type: Initial fixed-term 12-month (Postdoc) / 12-month (Engineer) contracts, with possible extension. Salary depends on experience.
For any queries about these positions, please contact: Sergey.Nikolaev@gustaveroussy.fr