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Clinical Genome Analysts (Bioinformatics Research Scientist/Sr. Bioinformatics Analyst)

Employer
St. Jude Children's Research Hospital
Location
St. Jude Children's Research Hospital

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Administrative Jobs
Academic Affairs, Research Staff & Technicians
Jobs Outside Higher Education
Software & Technology
Employment Type
Full Time
Institution Type
Four-Year Institution

Job Details

Overview

St. Jude Children's Research Hospital is seeking highly motivated individuals to join our Cancer Genomics team at the forefront of the application of NGS technologies to the clinical management of cancer patients and wants to make a difference in the lives of children with catastrophic illnesses. New team members will analyze and classify somatic and germline genetic alterations in pediatric cancer patients ascertained from whole genome, whole exome, and transcriptome sequencing and present findings to pathologists, oncologists, and genetic counselors. They will work closely with our bioinformatics pipeline and visualization teams to help develop or refine novel analytical approaches that aid molecular classification of cancer and clinical reporting in pediatric cancer patients. Successful candidates may also contribute to bioinformatic research projects concerning the pediatric cancer genome. Ideal candidates will have a deep understanding of cancer biology and expertise in genomic and transcriptomic variant analysis through NGS. We are interested in individuals with expertise in the classification of germline variation in the context ACMG guidelines for clinical variant interpretation, as well as somatic variation. Prior experience within a CAPCLIA clinical environment and experience in clinical test development and validation is desirable. Recognized as a world leader in deciphering the genetic landscape of pediatric cancer, St Jude Children’s Research Hospital has developed state-of-art computational infrastructure, well-established analytical pipelines, and deep genomic analysis expertise applied comprehensively to all of its cancer patients. This position may be eligible for the possibility of remote work.

 

Bioinformatic Research Scientist (Clinical Variant Analyst)

The Bioinformatics Research Scientist will work as part of a team of genomic analysts who evaluate and interpret comprehensive NGS data from whole genomes, whole exomes, and transcriptomes of pediatric cancer patients to assist clinicians in deriving diagnoses and treatment plans. Expertise in the recognition and interpretation of somatic and germline variation is essential, and knowledge of cancer biology is preferred. The incumbent performs data analysis and data visualization using existing analytical pipelines for NGS data processing to characterize pediatric cancer patients' tumor and germline genomes and reports results to a team of Molecular Pathologists. Pathogenic genomic variants are deposited in the patient's medical records for use by Oncologists in the clinical management of the patient. The successful candidate must also participate in software testing of routine pipeline improvements and the development of novel analytical approaches to tumor genome characterization. This individual will also provide bespoke bioinformatic analyses as required to decipher unusual tumor genomes and communicates analytical results to clinicians. Occasionally the incumbent will participate in preparing and submitting manuscripts for publication. The successful candidate must contribute ideas to automate or improve existing analytical methods and innovative algorithm development. The Bioinformatics Research Scientists assist with establishing and documenting protocols and standard operating procedures to ensure that clinical genomics testing meets CAPCLIA requirements for accreditation and reporting.

 

Sr.Bioinformatics Analyst

The successful candidate will be part of a team composed of genomics scientists and bioinformaticists responsible for maintaining and extending computational genomics pipelines to analyze and characterize tumor and germline genomes of cancer patients at St. Jude Children’s Hospital. The incumbent must have the facility of reading extant programs written in a variety of languages for troubleshooting or refactoring legacy code, as well as developing new pipelines to take advantage of cutting-edge cancer genomics research. The incumbent is responsible for advanced analysis of biomedical data produced from next-generation sequencing platforms including WGS, whole exome and deep sequencing capture array, and whole transcriptomes. The successful applicant will develop, improve, modify, and operate data analysis pipelines with minimal supervision. The bioinformatics analyst will develop bioinformatics pipelines or use extant software to conduct data analysis of biomedical datasets. Works closely with genomics analysts, scientists, and clinicians to provide technical consultation, generate/provide analysis results and reports, project reports and perform requested custom analyses. Perform statistical analysis of results and interprets results under supervision. Ability to evaluate and recommends software tools to meet the growing needs of St Jude Children's Research Hospital SJCRH) is critical. Excellent written and oral communication skills are required.


Responsibilities

Bioinformatic Research Scientist (Clinical Varient Analyst)

  • Provides high-quality clinical characterization and interpretations of genomic data
  • Identifies clinically relevant genomic alterations that may influence clinical treatment and patient management
  • Formulates an efficient analytical approach with NGS data for clinical and research purposes
  • Helps document the analytical processes.
  • May participate in manuscript preparation concerning interesting patient’s who are consented for research.
  • Participates in establishing and documenting standard operating procedures, analytical processes
  • Formulates analytical plans using the best approach to address data analysis questions in challenging patients.
  • Participates in the evaluation and testing of new methods and technologies.
  • Contributes ideas to automate or improve existing analytical methods.
  • Implements the improvement or works with programmers and computational biologists to do so.
  • May develop reusable code and pipeline components
  • Upon occasion participates in the department's independent research and interdepartmental team projects.
  • Performs other duties as assigned to meet the goals and objectives of the department and institution
 

Sr. Bioinformatics Analyst

  • Analyzes genomic data produced from next-generation sequencing systems.
  • Performs advanced statistical analysis, algorithm implementation, and bioinformatics programming.
  • Evaluates data for quality assurance, and mine bioinformatics databases.
  • Is proficient with national and international genomics data repositories such as the UCSC Genome Browser, the Genomic Data Commons, the ICGC Data Portal, dbGaP, the National Center of Biotechnology Information, PubMed, and others.
  • Proven experience in developing analytical pipelines with both local compute clusters and cloud computing.
  • Is proficient in one or more scripting languages for manipulation of large data sets such as R, Python, Java, Ruby
  • Performs analysis and develops software support requirements.
  • Assists senior analysts and scientists in the courses and training in biological computing, data mining, and analysis.
  • Establishes protocols or best practices for common research tasks
  • Documents standard operating procedures (SOPs) on wiki pages.
  • Makes these protocols available to other group members and to interdepartmental investigators.
  • Assists with the preparation of graphs, charts, and figures for documentation of software validation and presentations.

Minimum Education

  • Bachelor's degree is required

  • Minimum Experience

    Senior Bioinformatic Research Scientist

    • Ten (10) years of relevant post-degree work experience is required
    • Eight (8) years of relevant post-degree work experience is required with a Master's degree
    • Five (5) years of relevant post-degree work experience is required with a PhD
     

    Bioinformatics Research Scientist

    • Seven (7) years of relevant post-degree work experience is required
    • Five (5) years of relevant post-degree work experience is required with a Master's degree
    • Two (2) years of relevant post-degree work experience is required with a PhD
    • Genomics Experience Strongly Prefered
    • Clinical Genomics Experience desired
     

    Sr. Bioinformatics Analyst

    • Four (4) years of relevant experience is required.
    • One (1) year of relevant experience may be acceptable with a Master’s degree
     


    Other Information

    St. Jude is an Equal Opportunity EmployerNo Search Firms:St. Jude Children's Research Hospital does not accept unsolicited assistance from search firms for employment opportunities. Please do not call or email. All resumes submitted by search firms to any employee or other representative at St. Jude via email, the internet or in any form and/or method without a valid written search agreement in place and approved by HR will result in no fee being paid in the event the candidate is hired by St. Jude.COVID-19 vaccine:St. Jude Children’s Research Hospital has mandated the COVID-19 vaccine for all employees, excluding those with an approved medical or religious accommodation, as a condition of employment. F1455

    Organization

    About St. Jude

    St. Jude Children's Research Hospital, located in Memphis, Tennessee, is one of the world's premier research and treatment centers for pediatric cancer and catastrophic childhood diseases. Scientists and clinicians work together daily to translate laboratory discoveries into clinical trials and new therapies for patients. The environment at St. Jude is highly interactive, with opportunities to collaborate with investigators across the campus. All investigators have access to state-of-the-art core facilities, including proteomics, gene-editing, bioinformatics, imaging, protein production, molecular synthesis, and high throughput small molecule screening.

    For more information about postdoc life at St. Jude, visit www.stjude.org/postdoc

    St. Jude is an Equal Opportunity Employer. St. Jude does not discriminate based on race, national origin, sex, genetic information, sexual orientation, age, religion, disability, veteran’s status, or disabled veteran’s status with respect to employment opportunities. All qualified applicants will be considered for employment. St. Jude engages in affirmative action to increase employment opportunities for minorities, women, veterans, and individuals with disabilities.

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