To lead in the organization, management and scientific activities of the Genotyping Core lab (GT), in the Genomics Division of ICBR . To become an active member of the team of ICBR Core lab directors, by overseeing all activities in the Genotyping Core and by contributing to the overall ICBR mission.
Essential/Functional Requirements of the Job:
The ICBR Genomics Division performs contract genomics-related analysis for scientists primarily at the University of Florida, and occasionally for other public and commercial entities. Its main core labs include: Nextgen DNA Sequencing, Sanger Sequencing, Gene Expression, Quantitative PCR , and Genotyping. The Genotyping Core Director (Assistant Scientist) requires an experienced molecular biologist with a thorough working knowledge of recombinant DNA technology, large-scale genotyping methodologies, automated DNA fragment analysis, digital and quantitative PCR , and an effective knowledge of currently available nextgen DNA sequencing systems. The successful candidate will be working under the supervision of the director of the ICBR Genomics Division (currently, Dr. David Moraga Amador), and indirectly under the supervision of the ICBR Director (Dr. Rob Ferl). Essential management skills for this position include (but are not limited to) the ability to: organize and prioritize the laboratory work flow in the GT core lab; supervise staff; coordinate, schedule and oversee genotyping on equipment such as the AdvanCE FS96, the ABI 3730 DNA Sequencer, the Illumina BeadArray Reader, the ABI 7500 Real Time PCR , the ABI 7900HT Real Time PCR , and future analytical equipment acquisitions; analyze results of experiments; interpret scientific data; identify problems; devise and implement solutions; and prepare written reports of laboratory activities, data findings and conclusions.
Key responsibilities and Accountabilities:
The GT lab director is responsible for overseeing the daily operation of the GT lab, as well as enabling and collaborating with other ICBR labs and personnel through delegation and training when demand for GT services warrants. As the Director of the Genotyping Core, the chosen candidate will devise methods and implement procedures to carry out genotyping, DNA fragment analysis, and real-time PCR analysis projects for the Genotyping Laboratory (GT), Genomics Division, of the Interdisciplinary Center for Biotechnology Research ( ICBR ). The GT core lab director also has the responsibility for developing, promoting, and routinely employing DNA (or RNA ) analytical and sequencing based approaches as they apply to genotyping projects. In order to meet these expectations, the incumbent will have leadership responsibility to:
• Develop a well-defined end-to-end experience for clients requesting genotyping services, including instances in which data analysis is demanded.
o Define for clients a well-articulated service agreement document that spells out what will be delivered in each service category and with expected costs.
o Define a clearly articulated set of deliverables for each project or service. This should include any basic analyses, approximate time for project completion, full delivery of raw data and initially processed data, as well as the form and format for the data.
o Define for the client a set of clear value-added analyses pathways that include the analysis options and software options that are available online, under contract with UF or ICBR and further services that are available at ICBR or at other entities within UF.
o Develop a user education program that engages experts around UF in the articulation of genotyping experiment design and analysis.
• Develop an appreciation for the increasing impact NextGen analysis has on the discovery of genetic variation. Develop and integrate new processes and procedures for ICBR that recognize this impact.
o Carefully follow the scientific literature as it reports current methods for NextGen technology.
o Understand the strengths and limitations of NextGen as a genotyping research tool.
• Make regular presentations (formal & informal) to ICBR colleagues, reporting technical and scientific aspects of NextGen genetic variation detection and genotyping.
• Travel to scientific conferences for professional development activities, including oral presentations and reporting scientific findings.
• Participate in regular organizational training and development activities.
The GT core director will carry out its functions within the following general guidelines as related to distribution of efforts:
30% Genotyping Core Laboratory Supervision and Administration: Responsible for routine operation of the GT Core. Formulate policies and procedures, supervise staff, determine work priorities, assign tasks, and ensure that tasks are properly completed. Evaluate equipment performance, identify equipment needs and resources, and negotiate purchases with vendors. Ensure implementation and compliance with ICBR’s Core Facility Management System (iLab) within the GT lab.
40% Project Research Implementation: Conduct experiments, analyze results, and interpret data from microsatellite libraries, qPCR and digital PCR experiments, and SNPs or other genotyping procedures. Develop, analyze and test procedures and protocols. Perform literature reviews in relation to Core lab technical approaches and solutions as needed. Organize, record and maintain documentation of experimental results. Develop custom microsatellite libraries using nextgen sequencing data. Prepare data in graphical or tabular format for publication and/or internal Core lab use as requested or needed.
30% Project Administration: Interact with clients to develop projects and provide project-oriented genotyping services. Act as a liaison between the GT core and clients requesting project-oriented genotyping services. This requires maximization of the efficiency of current equipment in the GT facility, as well as devising options for increasing genotyping capacity, and obtaining additional automated equipment as necessary. Assist with grant writing and other funding proposals as requested by ICBR Director or in collaboration with UF faculty in order to secure funding for expansion of the GT services.
The GT core director is responsible for:
• Assessing personnel needs and hiring technicians assigned to the Genotyping core lab.
• Supervising all technical personnel in the Genotyping core laboratory.
The applicant must have received a Ph.D. degree in the natural sciences and have a broad familiarity with plant, insect, and animal molecular genetics research. The successful candidate must have experience in molecular laboratory management, demonstrated organizational skills, and basic experience with the design, implementation and management of methods for end-to-end genotyping services, including template evaluation and preparation, qPCR quantitation, and other genotyping procedures. He/she must possess a solid, working understanding of the theory and techniques used in the molecular biology laboratory. Preference is given to candidates who also have experience in high throughput genotyping, array-based gene expression and sequencing technologies (specifically 454, Illumina, PacBio and IonTorrent platforms). Qualifications should include but are not limited to:
A) Laboratory and research skills.
1) Automated and semi-automated genotyping techniques ( DNA fragment size analysis using the the AdvanCE FS96; the ABI 3730 DNA Sequencer; the Illumina BeadArray Reader, and other systems as needed. Basic knowledge and experience in 454, PacBio, Ilumina, and IonTorrent sequencing is also desired.
2) Recombinant DNA skills – restriction enzyme digestion, DNA purification methods, polymerase chain reaction ( PCR ), reverse transcription, quantitative RT- PCR , and oligonucleotide primer design.
3) Laboratory maintenance – organization of equipment and supplies. Maintenance and proper storage of biological samples
B) Computer skills — Familiar with MS Office suite (spreadsheet apps), and any LIMS for high throughput genotyping data tracking and management. A working knowledge of UNIX and programming skills (e.g., Java, C#, XML , Perl, C, C++, Python, R, SQL , CUDA , and MATLAB , etc.) are desirable. The successful candidate will also have basic familiarity with DNA sequence data analysis algorithms such as BLAST , etc.
C) Communication, management and supervision — The incumbent must: have significant organization skills and experience in the integration and coordination of end-to-end processes from sample receipt to data delivery and analysis; be able to communicate effectively both orally and in written media; and have experience in evaluating technical processes, assembling necessary equipment, interviewing and recommending personnel for hire, training personnel in molecular techniques, maintaining production statistics and developing a budget.
The successful candidate is:
• Primarily self-driven and self-directed with respect to program management and implementation, as well as in development and execution of protocols, relying upon prior training and ongoing experience;
• Results-oriented with a positive outlook, and a clear focus on high quality service delivery in accordance to ICBR’s values and mission;
• A visionary planner who critically assesses his/her own performance;
• Mature, credible, and comfortable in dealing with coworkers and administrative entities;
• Reliable, tolerant, and a good listener; able to get along with others and be a team player.
Health Assessment Required:
Special instructions to applicants:
Apply via GatorJobs and attach CV, cover letter and three letters of recommendation/reference.
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