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Bioinformatics Data Scientist

G

Genomic Testing Cooperative, LLC

Bioinformatics Data Scientist

Irvine, CA
Full Time
Paid
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  • Responsibilities

    Job Description

    Job Description

    Full Job Description

    Job Description

    Genomic Testing Cooperative (GTC) is seeking a highly motivated and talented individual to expand the Bioinformatics and Data Science Team. GTC is a cutting edge advanced next generation sequencing (NGS)-based clinical laboratory with a focus on innovation and advancement of the science of diagnostics. The successful candidate will be working in a highly multi-disciplinary, multi-task, and fast-paced environment. He/She will be involved in all aspects of NGS workflow, Bioinformatics pipeline management and development, data cleaning and processing, archiving, and server-filesystem administration. He/She is expected to participate actively in improving the operations and workflow in different departments of the company.

    General Accountabilities

    • Maintains the Bioinformatics Pipeline and keep it up to date. Add features and capabilities to improve the quality of the deliveries, and simplify operations.
    • Maintains Laboratory Adherence to industry and government standards regarding handling of data.
    • Maintains Laboratory Adherence Clinical Laboratory regulations including CAP, CLIA and state regulations.
    • Work with other departments to improve operations, data processing workflow.
    • Willingness to learn other aspects of the laboratory operations (Wet lab protocols, accessioning, setup devices and user accounts, archiving data, etc.).
    • Interact and collaborate with external partners in research projects, sequencing services, data processing. Interact with Technical Support from vendors to deal with incidents occurring in the lab in a timely manner.
    • Expected to share knowledge with lab members, and work with a team-oriented mindset.
    • *The company reserves the right to add or change duties at any time.

    Job Qualifications

    • Minimum Requirements: Ph.D. in Bioinformatics, Computational Biology, Computer Science, Genetics, Physics, or related field, with hands on experiences in NGS data analysis for clinical or research purposes.
    • Minimum 2 years related experience; or equivalent combination of education and experience.
    • Working knowledge in Linux/Windows server administration and maintenance. Basic knowledge in virtual machines deployment (HyperV and qemu) and filesystems (DELL EMC Isilon) configuration. Basic knowledge with remote monitoring and management tools such as NinjaRMM, and other tools like Ansible and Puppet.
    • Familiarity with scripting languages in Linux such as BASH, awk, sed, and basic commands in PowerShell in Windows.
    • Familiarity with Cloud Computing Environment such as AWS, Azure, BaseSpace, etc.
    • Proficiency in one or more Programming/Computing Languages such as R, Python, Rust, Go,Java, Scala, HTML, JavaScript, C/C++, SQL, MySQL, etc.
    • Working knowledge in versioning control (GitHub, GitLab), Task Management tools (JIRA, Monday, Weka).
    • Familiarity with bioinformatics tools for DNA/RNA commonly used in academia and industry such as: FASTQC, SAMtools, BEDtools, Picard, GATK, Nirvana, vcftools, Salmon, etc. Aligners: dragen, bwa, novoalign, STAR, bowtie, Sentieon. Variant Callers: dragen, VarDict, GATK, Strelka, VarScan.
    • Familiarity with genomic databases such as NCBI, COSMIC, ClinVar, OMIM, ExAC, etc.
    • Knowledge of Docker, Nextflow, Kubernetes, and GUI development is a plus.

    Company Description

    "Genomic Testing Cooperative (GTC), is a Limited Cooperative Association, that offers multiple laboratory-developed genomic profiling tests for hematologic and solid tumors using next-generation sequencing (NGS) technology. The co-op provides a first of its kind platform for cooperation between commercial, hospital-based, and academic laboratories. “In the era of precision medicine, we at the Genomic Testing Cooperative, believe that every patient with cancer has the right to affordable molecular profiling of their cancer so clear treatment options can be explored.” At this time, 8 different cancer genomic profiling tests are available."

    Company Description

    "Genomic Testing Cooperative (GTC), is a Limited Cooperative Association, that offers multiple laboratory-developed genomic profiling tests for hematologic and solid tumors using next-generation sequencing (NGS) technology. The co-op provides a first of its kind platform for cooperation between commercial, hospital-based, and academic laboratories. “In the era of precision medicine, we at the Genomic Testing Cooperative, believe that every patient with cancer has the right to affordable molecular profiling of their cancer so clear treatment options can be explored.” At this time, 8 different cancer genomic profiling tests are available."