Thermo Fisher Scientific is a leader in promoting global health. As part of that mission, we are seeking a bioinformatics scientist to contribute to genotyping by sequencing (GBS) projects related to trait selection for plant and animal breeders. As a member of our team, the scientist will design panels for massively multiplexed amplification and targeted sequencing of specific variations of interest to customers within plant and animal genomes. The scientist will utilize and assist in the development of analysis pipelines for automating the design of custom genotyping panels and for analyzing GBS data. The scientist will work with an interdisciplinary team to develop and support next-generation sequencing-based products to that end. Our group also has an active program around microbial detection in Animal Health and the scientist may also contribute to those projects as needed. The scientist will communicate the results of bioinformatics analyses in oral presentations and written reports to biologists and others unfamiliar with computational tools and methods. The candidate must be self-motivated and independent and be able to manage time among a number of projects related to microbial detection.
- Provide bioinformatics support for genotyping by sequencing (GBS) projects related to trait selection for plant and animal breeding
- Establish and maintain local databases for housing data and metadata related to GBS projects
- Utilize existing pipelines for design of targeted sequencing panels and develop new pipelines related to identifying genome-wide patterns of genetic variation in plants and animals
- Design automated pipelines for next-generation sequencing analysis including variant calling
- Work with resident biologists to improve targeted sequencing panels based on customer requirements
- Effectively communicate results of computational analyses to biologists and others unfamiliar with bioinformatics tools
- Support bioinformatics for microbial detection projects as needed
REQUIREMENTS / EDUCATION:
- Masters or Ph.D. in bioinformatics, molecular biology, statistics or related field.
- Proficient in Linux/Unix work environment.
- Demonstrated expertise in a scripting language (Perl or Python).
- Demonstrated expertise in statistical programming (R, SAS)
- Relational database experience (MySQL, Oracle).
- Experience in next-generation sequencing analysis.
- Expertise with comparative genomics tools (BLAST, multiple alignment, phylogenetic analysis).
- Previous experience with variant calling (SNPs/indels) from next-generation sequencing data is highly desirable.
- Previous experience with whole genome genotyping, GWAS or QTL studies is highly desirable
- Previous experience with analysis/annotation of plant and/or animal genomes is highly desirable.
- Primer design experience highly desirable.
- Strong communication skills.
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