Bioinformatics scientist

Who we areGenomines is a young biotechnology company based in Paris and Saclay, specialized in the sustainable extraction of Nickel from plants. The mission of Genomines is to usher in a new era of sustainable mining by using genetically enhanced plants to extract metals from soil (agromining). Through synthetic biology and cutting-edge technology, we harness the power of nature to create bioengineered plants that can extract metals while decontaminating soils and creating cleaner lands for agriculture. Our ultimate goal is to become the world's first carbon-neutral mining group, using sustainable and environmentally friendly methods to extract the precious resources our society needs.What We're Looking For(we are not looking for people outside the plant domain)Education & BackgroundPhD degree in molecular biology, bioinformatics, or a related fieldFluent in English (both written and spoken); additional language skills are advantageousUnderstand best practices in reproducible science, including tool version control and crafting quality reports, along with developing data management plansExperienced in plant genetic engineering techniques such as CRISPR and bacterium-mediated transformation, with a focus on optimizationBioinformaticsDemonstrated experience in assembling non-bacterial and non-fungal genomes, preferably plant or animal genomesSkilled in RNAseq analysis, annotation, and database managementIT CompetenciesProficient with IT tools for independent process management, including familiarity with software licensing and usage rightsProficient in LinuxSkilled in Programming Tools and Languages (Competent with GitHub/GitLab for code versioning and Proficient in programming languages like Python and Shell/Bash)Knowledgeable in short reads/long reads sequencing technologiesFamiliar with computing and storage systems, including experience with computing clusters and data storage and backup solutions like OVHPersonal QualitiesCollaborative team player with effective communication skillsDemonstrates scientific rigor and meticulous attention to detailShows adaptability and a commitment to continuous learningPossesses humility and openness to growthPrincipal ResponsibilitiesGenome AssemblyConduct complex genome assemblies, focusing on non-bacterial and non-fungal organisms, with a preference for plant or animal genomesCapable of performing comprehensive plant genome assembliesExecute relevant quality control measuresGenomic Annotation and AnalysisPerform structural and functional annotation of transposable elementsCritically analyze automated processing workflowsTranscriptome AnalysisAssemble transcriptomes to explore differences between mutants and original organismsRNAseq and Data ProcessingApply RNAseq techniquesLead transcriptomic analyses across one or multiple factors, with or without a reference genomeEstablish and conduct quality control proceduresBioinformatics Pipeline and Development Environment ManagementUtilize pipeline managers like Snakemake or NextflowConfigure and manage isolated development environments, such as coding environments, modules, or Python virtual environmentsData and IT Process ManagementEnsure effective genomic data traceability and associated IT process backupsDocumentation and Reporting: Keep accurate documentation and produce research reportsTechnical Support: Assist in preparing data for analysis and managing databases(On-site position in Paris-Saclay, 91400) #J-18808-Ljbffr