Microbial Genomics Scientist III Job at Department of Public Health, Contra Costa County, CA

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  • Department of Public Health
  • Contra Costa County, CA

Job Description

Job Description and Duties

Incumbents in one of these classifications, where a Master’s Degree is required to meet the minimum qualifications, shall receive an educational pay differential equivalent to 2% of their monthly base pay. Those where a Doctoral Degree is required to meet the minimum qualifications, shall receive an educational pay differential equivalent to 3% of their monthly base pay. Individuals with both a Master’s and Doctoral Degree will be given the best benefit in relation to salary shall only be eligible for only one amount.

This position supports the California Department of Public Health’s (CDPH) mission and strategic plan by performing quality, timely, highly complex public health laboratory testing for the diagnosis and epidemiologic investigation of microbial diseases of public health importance in the State of California.

The RS III focuses on whole genome sequencing (WGS) of microbial isolates including expansion, testing, and validation of bioinformatics pipelines for analyzing data from various sequencing platforms. Additionally, the RS III assists with development of new workflows for sequencing and data reporting.  Advanced-level experience with next-generation sequencing technologies, bioinformatics workflows, and data analysis software is highly preferred.

The RS III conducts routine laboratory testing, complies with safety and quality assurance/quality control (QA/QC) practices, provides and documents technical training and competency assessments (as assigned). The RS III may be delegated Clinical Laboratory Improvement Amendments (CLIA) Technical and/or General Supervisory responsibilities by the CLIA laboratory director if qualifications are met. The RS III prepares, reviews, and updates laboratory standard operating procedures (SOPs) in addition to designing, conducting, and overseeing validation and verification studies for new procedures to identify and/or characterize microbial pathogens. The RS III works with CDPH colleagues to make improvements to the Laboratory Information Management System (LIMS) as applicable to the Unit.  

The RS III plans, designs, and carries out scientific research studies related genomic identification and characterization of infectious pathogens; makes independent decisions in their specific scientific field of expertise; may serve as scientific advisor or consultant to lower-level scientists conducting scientific studies and to internal and external stakeholders and clients. The RS III assists with grant writing and communicates with internal and external partners, presents scientific research or investigations to public health experts and the community, publishes research in scientific journals, and performs other related work. The RS III participates in providing workshops or trainings on WGS to CDPH and non-CDPH microbiologists and research scientists.

The incumbent works under the general direction of the Research Scientist Supervisor I of the Molecular Characterization Unit.

Please let us know how you heard about our position by taking this brief survey:

You will find additional information about the job in the .

Working Conditions


Telework Information

This position may be eligible for telework up to three (3) days per week and is required to report in-person to the designated headquarters office location a minimum of two (2) days per week. The amount of telework permitted is at the discretion of the Department and is subject to change, consistent with CDPH’s Telework Program. All employees who telework are required to be California residents in accordance with Government Code 14200. Candidates who reside outside of the state of California may be interviewed; however, the selected candidate must have a primary residency in the state of California prior to appointment (and continue to maintain California residency) as a condition of employment. Failure to meet this requirement may result in the job offer being rescinded.


Business travel may be required, and reimbursement considers an employee’s designated headquarters office subject to regulations and bargaining unit contract provisions. All commute expenses to the designated headquarters office will be the responsibility of the selected candidate.

The headquarters office location for this position is identified in the attached duty statement.

Special Requirements

In order to be considered for this position, you must submit a copy of your college transcripts official or un-official and/or Degree for education verification.

For experience/education to qualify during the application screening process, and to ensure that minimum qualifications can be determined, applicants should include all employment history on the Employment Application (STD 678) and/or Resume, including detailed job descriptions,  hours worked per week , and start/end dates (MM/DD/YYYY) .  Application packages without this information will experience delayed processing times and your eligibility for this position may be impacted.

A completed State application (STD. 678) and any other relevant documents (e.g. unofficial transcript, copy of degree, resume, etc.) should be submitted electronically via your CalCareers Account. Please reference  Job Control # (464347)  and indicate the basis of your eligibility in the Examination(s) or Job Title(s) section. SROA and surplus candidates should submit a copy of their letter with their application. Please remove any confidential information (i.e. social security number, date of birth) from your documents prior to submission.

Complete Application Packages (including your Examination/Employment Application (STD 678) and applicable or required documents) must be submitted to apply for this Job Posting. Application Packages may be submitted electronically through your CalCareers Account at Submitting an electronic application through your CalCareers account is strongly recommended since electronic applications will be received/processed faster than other methods of filing. Please submit only one application.

If you are unable to submit your application electronically through your CalCareers account, please email  [email protected]  for assistance and a CDPH Human Resources Division staff member will contact you to assist with the online application process or,  a hard copy application package may be submitted through an alternative method as explained in the How to Apply section below. When submitting your application in hard copy, a completed copy of the Application Package listing must be included.

Desirable Qualifications

In addition to evaluating each candidate's relative ability, as demonstrated by quality and breadth of experience, the following factors will provide the basis for competitively evaluating each candidate:


The preferred candidate will have advanced-level experience and expertise in next generation sequencing laboratory methods and analysis (including phylogenetics / genomic epidemiology), development and/or validation of bioinformatics pipelines, and data analysis software. California Public Health Microbiologist certification and experience in a regulated clinical laboratory environment is desirable.

Benefits

Benefit information can be found on the CalHR website and the CalPERS website.

Statement of Qualifications (SOQ) Instructions

Statement of Qualification should include the following:

Briefly describe your qualifications for this position, including your education and specific experience performing next generation sequencing methods, and analyzing data using bioinformatics pipelines and data analysis software (limit 1 page, single spaced).  

PLEASE NOTE: Resumes, letters, Supplemental Questionnaire, transcripts, degrees, your state application, cover letters and other materials will not take the place of the Statement of Qualifications.   Simply copying and pasting your resume will also not be accepted. Applications received without an SOQ may be rejected.

Required Application Package Documents

The following items are required to be submitted with your application. Applicants who do not submit the required items timely may not be considered for this job:

  • Current version of the State Examination/Employment Application STD Form 678 (when not applying electronically), or the Electronic State Employment Application through your Applicant Account at All Experience and Education relating to the Minimum Qualifications listed on the Classification Specification should be included to demonstrate how you meet the Minimum Qualifications for the position.
  • Resume is required and must be included.
  • Statement of Qualifications -

    Please see Statement of Qualifications instructions below at end of posting .  Any applications received that  do not provide a written response to the SOQ will not be scored/reviewe d .

Job Tags

Permanent employment, Full time, Contract work, Remote job, 2 days per week, 3 days per week,

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