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Sr. Research Data Analyst, BKI

Company: The Johns Hopkins University
Location: Baltimore
Posted on: November 26, 2022

Job Description:

Press Tab to Move to Skip to Content Link The Bloomberg Kimmel Institute is seeking a Sr. Research Data Analyst to lead single cell RNA sequencing and TCR sequencing analytics. At the Bloomberg-Kimmel Institute for Cancer Immunotherapy (BKI), we are integrating complex immunogenomics with big data to dissect the driving patterns for responsiveness to immunotherapy, as well as identifying novel biomarkers to guide treatment decisions. Over the past year, the Smith/Pardoll Labs have generated massive immunogenomics datasets consisting of single cell RNA-seq/TCR-seq of -3,000,000 cells from more than 100 specimens from non-small cell lung cancers and head and neck cancers with well-annotated clinical outcomes. In addition to this, we have generated bulk TCR sequencing data from > 2,500 specimens consisting of data from over 2,000,000 cells. A dedicated research analyst is required to work with immunologists, senior bioinformaticians, and clinicians to fully mine this extensive dataset and to push forward innovative, novel discovery platforms, and ultimately, accelerate our work to impact clinical decision-making and improving patient outcomes.
The Sr. Research Data Analyst will be active in the data pre-processing stages as well as analysis and interpretation of results. Will be involved in designing and developing analysis plans to address biological hypotheses in our bank of single cell data, mostly acquired from lung cancer patients treated with checkpoint blockade. Will interact daily with other data analysts within the Institute, as well as Immunologists, Genomics experts, and clinicians. This position requires collaboration with clinical and scientific investigators in research/study design, data analysis plans, algorithm development, grant applications, and preparation of presentations and publications. The candidate should work independently and in collaboration with faculty to solve problems posed by the clinical and laboratory investigators along the study design, data generation, collection and management process, interaction with bioinformatic experts, biostatistician program developers, computational scientists, health informatic experts as well as postdoc fellows from the Sidney Kimmel Comprehensive Cancer Center and the Bloomberg School of Public Health on our immunogenomic data mining initiatives with the goal of translating these findings into therapeutic modalities for cancer patients.Specific Duties & Responsibilities

  • Plan data management including determining type, format of data and types of documentation, considering privacy, confidentiality and other ethical issues.
  • Facilitate acquisition of single cell sequencing data from core facilities.
  • Clean data by coding missing data, fixing or deleting miscoded data, transforming variables into more useful formats, and annotating the data in proper way, use descriptive statistics to help characterize and summarize the data.
  • Generate plots representing dimensionality reduction.
  • Collaborate with clinical and scientific investigators in BKI to propose ideas for new projects, design research, develop data plan, and prepare analyses with general direction from investigators.
  • Apply different technical approaches to visualize the data and prepare publication-quality tables and graphs based on valid analysis.
  • Lead or participate actively in the team responsible for designing and validating analysis data sets, programs, and statistical output products.
  • Identify potential data problems from analytic queries and bring them to the attention of the team.
  • Demonstrate understanding of high dimensional data collection processes and data sets and share knowledge with collaborators.
  • Collaborate closely with investigators, project managers, and other team leadership to ensure that research study or project results and conclusions are presented accurately and without bias.
  • Demonstrate progress in ability to multi-task and manage time spent working with individual faculty members and on specific projects.
  • Participates in regularly schedule meetings with study investigators and team.
  • Prepares progress reports as needed. Maintain appropriate systems for data organization.
  • Assure data quality for documentation and dissemination of data. Conduct and track specific activities to accomplish project goals, including evaluating and reporting data and documenting analytic procedures.
  • Able to work collaboratively in a team environment with a high degree of initiative and self-motivation.Special Knowledge, Skills & Abilities
    • Must be detail-oriented, focused, creative, and independent.
    • Proficiency in both written and spoken English with excellent communication skills.
    • Able to work independently and collaboratively; making necessary connections with experts in various biological and clinical groups.

      Minimum Qualifications
      • Master's Degree in related discipline.
      • One year related experience.
      • Experience with single cell technologies.
        • Proficiency in R is required.
        • Knowledge and practical experience with other programming languages (e.g., Java, C or C++) and scripting languages (e.g., Perl, Python).
          • Familiarity with common computational biology tools and software packages, such as Bioconductor.
            • Experience with code development, optimization, and testing.
            • Demonstrated ability on significant graduate project or additional doctoral education may substitute for experience to the extent permitted by the JHU equivalency formula.

              Preferred Qualifications
              • PhD Preferred.
              • A thorough understanding and experience in statistics is strongly preferred.
                • Research experience in statistical genetics/genomics strongly preferred and a familiarity with next-generation sequence data and analysis tools is a plus.
                  • Familiarity with T cell receptor immunogenomics and immunology is preferred.Classified Title: Sr. Research Data Analyst -
                    Working Title: -Sr. Research Data Analyst, BKI
                    Role/Level/Range: ACRP/04/MD
                    Starting Salary Range: $54,080 - $74,390/Annually (Commensurate with experience)
                    Employee group: Full Time -
                    Schedule: M-F 8:30am- 5:00pm -
                    Exempt Status: -Exempt -
                    Location: Hybrid/School of Medicine Campus -
                    Department name: SOM Onc Cancer Immunology Lab Research -
                    Personnel area: School of Medicine -Please refer to the job description above to see which forms of equivalency are permitted for this position. If permitted, equivalencies will follow these guidelines:
                    JHU Equivalency Formula: 30 undergraduate degree credits (semester hours) or 18 graduate degree credits may substitute for one year of experience. Additional related experience may substitute for required education on the same basis. For jobs where equivalency is permitted, up to two years of non-related college course work may be applied towards the total minimum education/experience required for the respective job.

                    **Applicants who do not meet the posted requirements but are completing their final academic semester/quarter will be considered eligible for employment and may be asked to provide additional information confirming their academic completion date.
                    The successful candidate(s) for this position will be subject to a pre-employment background check.The Johns Hopkins University values diversity, equity and inclusion and advances these through our key strategic framework, the JHU Roadmap on Diversity and Inclusion .Equal Opportunity EmployerAll qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, or status as a protected veteran.EEO is the Law
                    Learn more:
           Accommodation InformationIf you are interested in applying for employment with The Johns Hopkins University and require special assistance or accommodation during any part of the pre-employment process, please contact the Talent Acquisition -Office at . -For TTY users, call via Maryland Relay or dial 711. -For more information about workplace accommodations or accessibility at Johns Hopkins University, please visit .Johns Hopkins has mandated COVID-19 and influenza vaccines, as applicable. Exceptions to the COVID and flu vaccine requirements may be provided to individuals for religious beliefs or medical reasons. Requests for an exception must be submitted to the JHU vaccination registry. For additional information, -applicants for SOM positions should visit - and all other JHU applicants should visit - .The following additional provisions may apply, depending on campus. -Your recruiter will advise accordingly.The pre-employment physical for positions in clinical areas, laboratories, working with research subjects, or involving community contact requires documentation of immune status against Rubella (German measles), Rubeola (Measles), Mumps, Varicella (chickenpox), Hepatitis B and documentation of having received the Tdap (Tetanus, diphtheria, pertussis) vaccination. This may include documentation of having two (2) MMR vaccines; two (2) Varicella vaccines; or antibody status to these diseases from laboratory testing. Blood tests for immunities to these diseases are ordinarily included in the pre-employment physical exam except for those employees who provide results of blood tests or immunization documentation from their own health care providers. Any vaccinations required for these diseases will be given at no cost in our Occupational Health office.Note: Job Postings are updated daily and remain online until filled.

Keywords: The Johns Hopkins University, Baltimore , Sr. Research Data Analyst, BKI, Professions , Baltimore, Maryland

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