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    BACKGROUND

    The Max Planck Institute for Plant Breeding Research (MPIPZ) is one of the world's premier sites for research into fundamental processes in plant biology. Around 400 staff from all over the world work at the institute, which consists of four scientific departments, several independent research groups, and specialist support. The Department of Plant Microbe Interactions at the MPIPZ is a global leader in research that seeks to define the principles as well as consequences of plant interactions with harmful and beneficial microorganisms.

    RESPONSIBILITIES

    The successful applicant will develop and apply computational tools for the analysis of high-throughput amplicon sequencing, and (meta)genome and (meta)transcriptome data from experiments designed to deepen our understanding of the evolution and functions of the plant microbiota and the host immune system. Candidates are expected to interact closely with computer scientists and experimental biologists in a multidisciplinary environment.

    REQUIREMENTS

    We seek a creative and motivated candidate with a PhD in computer science, bioinformatics, statistics, biology, or a related field. The applicant should be proficient in the use of Linux / Unix and have proven experience in the analysis of next-generation sequencing data. Proficiency in scripting and software development (e.g., Python, C / C++, Java, R) is desired. The ability to work in an environment at the interface of biology and computer science, in addition to good communication skills, is essential. Knowledge of plant biology and/or microbiology and a strong interest in solving biological questions would be advantageous.

    This position is available immediately, and the initial contract is for a duration of two years with the possibility for extension.

    The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. Further, the Max Planck Society seeks to increase the percentage of women in those areas where they are underrepresented and therefore explicitly encourages female candidates to apply.

    COMPENSATION

    Salary and social benefits will be in accordance with the regulations of the German TVöD Bund (E 13; salary agreement for public service employees)

    HOW TO APPLY

    Applicants are requested to submit a motivation letter and CV (in English as a single PDF file) including the names and affiliations of two referees through the online system: jobs.mpipz.mpg.de/en/j[...]epage

    DEADLINE

    October 31st, 2021

    BACKGROUND

    EMBL's European Bioinformatics Institute (EMBL-EBI) is seeking a Senior Programme Manager to lead strategic initiatives and projects to support the effective long-term management and delivery of the EMBL-EBI data services portfolio.

    These services make a variety of data openly available to support life sciences research, and are accessed millions of times each day. Many of the resources are delivered in partnership with international collaborators and operate under diverse funding and governance models. The resources play key roles in large international research projects, European data infrastructures, and within the EMBL 2022-2026 scientific programme.

    On a technical level, the resources have deep interdependencies and are run by a staff of around 600 people, organised into teams and larger sections. This is a complex organisation that also has many outward facing responsibilities, for example, providing input and leadership in a variety of forums on matters relating to data management, data reuse, and open science.

    RESPONSIBILITIES

    Your role:
    As Senior Programme Manager you will have the opportunity to develop and deliver integrated programme plans and to support activities aligned with the EMBL-EBI services strategy. These activities will feed directly into future strategy development, which will be coordinated across the EMBL-EBI data resources.

    A key part of this multifaceted role, you will utilise your strategic approach, building relationships and collaborating with internal/external stakeholders, including international funders, collaborators and other aligned organisations on a regular basis.

    This is an excellent opportunity for someone who is motivated by delivering open infrastructure in support of life sciences research in an organisation with a public service mission.

    Reporting to the EMBL-EBI Associate Directors for Services, your responsibilities will include:
    • Developing a strategy to engage with key stakeholders on core areas of impact to the EMBL-EBI services, such as data sharing and data quality, open science requirements and sustainability of open infrastructure
    • Policy and position development on matters central to the operation of the EMBL-EBI services
    • Mapping external and internal information relating to services management and strategic activities (e.g. operational planning, strategy days, funding opportunities, budget reviews, internal policy reviews)
    • Overseeing the organisation of key strategic events
    • Line management of Associate Directors' Office staff which includes both administrative and scientific staff
    • Coordinating EMBL-EBI activities within pan-service collaborations such as the ELIXIR infrastructure
    • Representing the EMBL-EBI services in workshops, panels, conferences and other appropriate situations
    • Developing and managing institutional responses to requests from governments, funding agencies, societies pertaining to the EMBL-EBI service mission
    • Horizon scanning and analysis of external drivers that impact EMBL-EBI services overall
    • Coordinating and collaborating on the above activities with colleagues at both EMBL-EBI and broadly across EMBL, as appropriate

    REQUIREMENTS

    You have:
    • Preferably a PhD in a relevant field e.g. bioinformatics or engineering
    • At least five years experience in a related profession (for example, in research management, grants management or research infrastructure management roles)
    • Management experience
    • Proven ability to self start, prioritise, organise and deliver complex projects with multiple stakeholders
    • Policy development experience, demonstrating strategic, problem solving and creative thinking
    • Ability to synthesis diverse observations and inputs into coherent narratives
    • Demonstrated analytical skills, financial awareness and attention to detail
    • Strong communication skills (written and verbal) and ability to engage with stakeholders as diverse as software developers, bioinformaticians, funders, senior management and administrative colleagues
    • Excellent networking skills and the ability to build strong working and collaborative relationships
    • A collaborative spirit
    You might also have:
    • Working/user knowledge of EMBL-EBI resources and tools
    • Formal project management experience
    • Negotiating skills

    TERMS

    Contract duration: This position is a 3 year contract, renewable to a maximum of 9 years.

    COMPENSATION

    Why join us:
    Enjoy lots of benefits:
    • Financial incentives: Monthly family, child and non-resident allowances, annual salary review, pension scheme, death benefit, long-term care, accident-at-work and unemployment insurances
    • Flexible working arrangements
    • Private medical insurance for you and your immediate family (including all prescriptions and generous dental & optical cover)
    • Generous time off: 30 days annual leave per year, in addition to eight bank holidays
    • Relocation package including installation grant (if required)
    • Campus life: Free shuttle bus to and from work, on-site library, subsidised on-site gym and cafeteria, casual dress code, extensive sports and social club activities (on campus and remotely)
    • Family benefits: On-site nursery, 10 days of child sick leave, generous parental leave, holiday clubs on campus and monthly family and child allowances
    • Benefits for non-UK residents: Visa exemption, education grant for private schooling, financial support to travel back to your home country every second year and a monthly non-resident allowance.

    LOCATION

    This role is based in Hinxton, UK and you will be required to relocate once it is safe to do so, if you are currently based abroad. Read more about how we are recruiting during the pandemic.

    HOW TO APPLY

    To apply please submit a cover letter and a CV through our online system (www.ebi.ac.uk/careers). We aim to provide a response within two weeks after the closing date: 27th October 2021

    What else you need to know:
    • International applicants: We recruit internationally and successful candidates are offered visa exemptions. Read more on our page for international applicants.
    • Diversity and inclusion: At EMBL-EBI, we strongly believe that inclusive and diverse teams benefit from higher levels of innovation and creative thought. We encourage applications from women, LGBTQ+ and individuals from all nationalities.
    • DORA - EMBL is a signatory of DORA and is committed to hiring and training outstanding research, service, and administrative personnel.

    DESCRIPTION

    Lawrence Berkeley National Lab's (LBNL, www.lbl.gov), Biosciences Area Office (biosciences.lbl.gov) has an opening for a Senior Research Associate (Lab Operations).

    The Senior Associate will perform various tasks to assist the Emery Station East (ESE) Director of Laboratory Operations to achieve the Lab Operations group's overall goal of providing the service, equipment, and supplies that ESE researchers need to accomplish their research. This will require general instructions by the supervisor, providing guidance to other employees, and helping make decisions on managing the designated laboratory spaces at ESE. In addition, the Senior Research Associate will maintain and coordinate the ESE microbial strain archive, including archiving new materials and material transfer of requested materials to external entities.

    The Senior Research Associate will be located at the ESE Operations Center in Emeryville, CA; a satellite facility of Lawrence Berkeley National Laboratory (LBNL) and part of the Biosciences Area, which houses the Joint BioEnergy Institute (JBEI), Advanced Biofuels Process Demonstration Unit (ABPDU), Agile BioFoundry (ABF), and many other complimentary research programs.

    RESPONSIBILITIES

    What You Will Do:
    • Onboard and train new hires into the lab including giving lab tours, orientation presentations, as well as assigning and tracking desks, lab, and cold spaces.
    • Collaborate with stakeholders to resolve issues related to research operations in the laboratory, communicating progress as appropriate. Assist with developing and implementing plans to organize and improve laboratory operations for optimal use by researchers.
    • Assist with the operation and regular maintenance of laboratory resources. Manage equipment service agreements and work with LBNL and vendors to upgrade/replace as needed. Organize onsite activities by service providers, ensuring they comply with applicable safety policies.
    • Work with the Laboratory Operations (Lab Ops) team to create and maintain standard operating procedures for all routine processes performed by the team.
    • Assist with chemical inventory management and related projects.
    • Act as custodian of the JBEI/ABF Strain Archive, a collection of approximately 30,000 microbial strains and plasmids unique to these programs.
    • Follow standard operating procedures to prepare long-term storage stocks for deposition into the JBEI/ABF archives and ensure each newly archived strain is documented in the ICE Registry database with updated publication and intellectual property information.
    • Retrieve, grow, and deliver a high volume of strain samples from the archive as requested for research.
    • Collaborate with LBNL and UC Berkeley legal staff to prepare and distribute relevant Material Transfer Agreements (MTAs) pertaining to the Strain Archive for outside institutions.
    • In collaboration with ESE principal investigators, informatics, researchers, and ICE registry software developers work to develop, improve, and implement protocols for microbial strain storage, distribution, and documentation.

    REQUIREMENTS

    What is Required:
    • Bachelor's degree in Biology, Molecular Biology, Microbiology, or related field, plus 2-5 years related experience in lab operations, or an equivalent combination of education and experience
    • Demonstrated knowledge of classical microbiology skills such as aseptic technique, bacterial and yeast strain storage protocols, preparation of media with antibiotics, streaking for isolation, and use of life science laboratory equipment
    • Ability to work within defined procedures and practices to produce consistent and reproducible results
    • Exhibits leadership, time management, organizational, and project management skills
    • Ability to work independently. Excellent organizational and multitasking skills. Ability to evaluate multiple inputs and prioritize tasks and achieve outstanding productivity. Critical thinking skills to devise solutions to complex challenges.
    • Ability to work as part of a team; and to work collaboratively with a large and diverse set of customers and service providers in a professional manner
    • Excellent communication (verbal and written) skills
    • Attention to detail and careful record keeping
    • Proficiency in maintaining laboratory notes, reports, and operating procedures
    • Strong computer skills, especially M.S. Office/Google Suite (Word, Excel, Powerpoint) and web-based data systems
    • Awareness of safety issues in the work environment and basic knowledge of lab and workplace safety requirements
    Desired Qualifications:
    • Master's degree in Biology, Molecular Biology, Microbiology, or related field preferred.

    TERMS

    • This is a full time career appointment, exempt (monthly paid) from overtime pay.
    • This position is represented by a union for collective bargaining purposes.
    • This position will be hired at a level commensurate with the business needs; and skills, knowledge, and abilities of the successful candidate.
    • This position may be subject to a background check. Any convictions will be evaluated to determine if they directly relate to the responsibilities and requirements of the position. Having a conviction history will not automatically disqualify an applicant from being considered for employment.
    • Diversity, equity, and inclusion are core values at Berkeley Lab. Our excellence can only be fully realized by faculty, students, and staff who share our commitment to these values. Successful candidates for our faculty positions will demonstrate evidence of a commitment to advancing equity and inclusion.

    LOCATION

    Work will be primarily performed at: Emeryville Station (ESE) – Bldg. 978, 5885 Hollis St., 4th floor, Emeryville, CA.

    HOW TO APPLY

    Apply directly online at 50.73.55.13/coun[...]07914 and follow the on-line instructions to complete the application process.

    Organization: BS-BioSciences Area Office

    ABOUT US

    Biosciences Area:
    Enabled by Berkeley Lab's world-class user facilities and complementary research programs, our scientists and engineers contribute groundbreaking discoveries and innovative solutions to complex scientific and societal challenges.

    Vision: Berkeley Lab's Biosciences Area will lead the nation in using biology to solve energy and environmental challenges.
    Mission: Use integrated research teams to solve national challenges in energy, environment, health and biomanufacturing.

    Berkeley Lab:
    Berkeley Lab (LBNL, www.lbl.gov) addresses the world's most urgent scientific challenges by advancing sustainable energy, protecting human health, creating new materials, and revealing the origin and fate of the universe. Founded in 1931, Berkeley Lab's scientific expertise has been recognized with 13 Nobel prizes. The University of California manages Berkeley Lab for the U.S. Department of Energy's Office of Science.

    Working at Berkeley Lab has many rewards including a competitive compensation program, excellent health and welfare programs, a retirement program that is second to none, and outstanding development opportunities. To view information about the many rewards that are offered at Berkeley Lab – Click Here (www.lbl.gov/HR/h[...].html).

    POLICY

    Equal Employment Opportunity: Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status. Berkeley Lab is in compliance with the Pay Transparency Nondiscrimination Provision (www.dol.gov/ofcc[...].html) under 41 CFR 60-1.4. Click here (www.dol.gov/ofcc[...]t.htm) to view the poster and supplement: "Equal Employment Opportunity is the Law."

    Lawrence Berkeley National Laboratory encourages applications from women, minorities, veterans, and other underrepresented groups presently considering scientific research careers.

    DESCRIPTION

    Lawrence Berkeley National Lab (LBL, lbl.gov) has an exciting new opening for a Program Manager – Computational Biology. The selected candidate will be a co-member of the Biosciences Strategic Programs Development Group (SPDG, biosciences.lbl.gov/2020[...]roup/) and the Computing Sciences Area Office (cs.lbl.gov). The Program Manager will be responsible for identifying and developing strategic research portfolios to advance the lab's scientific impact.

    This successful candidate will primarily drive research program development activities for new project topics on areas of interest to lab researchers, including some of the following topics: quantum technologies for biology, biological imaging, biomanufacturing, environmental biology, sensors and controls for automated experimentation, machine learning, data management, and high-performance computing. The Program Manager will be responsible for managing and executing a variety of activities, including idea generation and visioning, planning and facilitation of workshops, drafting and editing white papers, and developing ongoing relationships with a variety of internal and external stakeholders. The successful candidate will be building new research capabilities at Berkeley Lab in a growing areas of research for the Department of Energy.

    This position will be hired at a level 2 or 3 contingent upon the level of experience, skills, knowledge, and abilities of the successful candidate.

    RESPONSIBILITIES

    What You Will Do:
    • Manage a portfolio of program development projects based at the intersection of biosciences and computing sciences core capabilities, particularly in partnership with the Computational Biology Group and other interested researchers and managers across the Biosciences and Computing Sciences Areas.
    • Work to identify new strategic opportunities to increase the Areas' scientific impact.
    • Lead and assist in the planning, execution, and facilitation of workshops with internal and external stakeholders.
    • Assist researchers in drafting, editing, and revising workshop reports resulting from strategic workshops.
    • Network and arrange meetings with possible sponsors and collaborators. Expand and build networks with possible collaborators and sponsors, serving as an integral team member for relationship management with stakeholders..
    • Identify and secure additional funds for the execution of program development activities.
    • Utilize and improve tracking tools to measure progress and to provide analysis on successes, gaps, and new strategic directions for the Biosciences and Computing Sciences partnership.
    • Serve as the main point of contact for Area Management Leads for tracking progress towards meeting goals on a regular schedule.
    Additional Responsibilities:
    • Identify, develop, and lead opportunities to increase collaboration between researchers in both Areas
    • Work with Area Management Leads to establish and implement frameworks and best practices for program development activities shared by Biosciences and Computing Sciences

    REQUIREMENTS

    What is Required:
    • Bachelor's degree/advanced degree in a related field and/or equivalent training experience with preferably a minimum of 5 years work experience with increasing responsibility in program administration and planning
    • Experience working with researchers at all levels on collaborative, multidisciplinary projects
    • Strong project management, coordination, and tracking experience
    • Demonstrated experience developing and executing projects of moderate scope
    • Strong problem-solving skills; ability to resolve diverse range of complex technical problems and issues using good judgment and decision-making
    • Effective interpersonal skills necessary for working in a diverse and distributed team environment, including developing and managing relationships and networks
    • Ability to work independently as well as with groups of scientists and managers
    • Ability to multitask and prioritize complex competing problems and assisting in development of action plans leading to successful completion of tasks
    • Detail oriented, excellent record keeping, organization and communication skills, and follow through
    Desired Qualifications:
    • M.S or Ph.D. in a biology, computational biology, or computational field
    • Experience with computational biology or computational research
    • Experience with philanthropic organizations
    • Federal or state government experience
    • Demonstrated experience leading stakeholder engagement activities, including workshops or other scientific meetings
    • Experience in strategic planning, program management, and/or program development
    • Experience interacting with sponsors
    • Private sector work experience
    • Familiarity with information systems, such as computerized program tracking databases
    • Knowledge of federal funding principles and decision-making

    TERMS

    • This is a full time 2 year term appointment with the possibility of extension or conversion to Career appointment based upon satisfactory job performance, continuing availability of funds and ongoing operational needs.
    • This position will be hired at a level commensurate with the business needs; and skills, knowledge, and abilities of the successful candidate.
    • This position may be subject to a background check. Any convictions will be evaluated to determine if they directly relate to the responsibilities and requirements of the position. Having a conviction history will not automatically disqualify an applicant from being considered for employment.

    LOCATION

    This position will be remote initially, but limited to individuals residing in the United States tentatively until 2021 due to COVID-19. Once the Bay Area shelter-in-place restrictions are lifted, work will be primarily performed at: West Berkeley Biocenter (Potter St.) – Bldg. 977, 717 Potter St., Berkeley, CA.

    HOW TO APPLY

    Apply directly online at 50.73.55.13/coun[...]07918 and follow the on-line instructions to complete the application process.

    To be considered please provide the following materials in your application:
    1) Curriculum Vitae​ or Resume
    2) Cover letter; please address the following: Why are you interested in this position and how is your professional work experience related?

    Organization: BS-BioSciences Area Office

    ABOUT US

    Biosciences Area:
    Enabled by Berkeley Lab's world-class user facilities and complementary research programs, our scientists and engineers contribute groundbreaking discoveries and innovative solutions to complex scientific and societal challenges.

    The Computational Research Division (crd.lbl.gov/about/) conducts research and development in mathematical modeling and simulation, algorithm design, data storage, management and analysis, computer system architecture and high-performance software implementation. We collaborate directly with scientists across LBNL, the Department of Energy and industry to solve some of the world's most challenging computational and data management and analysis problems in a broad range of scientific and engineering fields, including materials science, biology, climate modeling, astrophysics, fusion science, and many others.

    Berkeley Lab:
    Berkeley Lab (LBNL, www.lbl.gov) addresses the world's most urgent scientific challenges by advancing sustainable energy, protecting human health, creating new materials, and revealing the origin and fate of the universe. Founded in 1931, Berkeley Lab's scientific expertise has been recognized with 13 Nobel prizes. The University of California manages Berkeley Lab for the U.S. Department of Energy's Office of Science.

    Working at Berkeley Lab has many rewards including a competitive compensation program, excellent health and welfare programs, a retirement program that is second to none, and outstanding development opportunities. To view information about the many rewards that are offered at Berkeley Lab – Click Here (www.lbl.gov/HR/h[...].html).

    POLICY

    Equal Employment Opportunity: Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status. Berkeley Lab is in compliance with the Pay Transparency Nondiscrimination Provision (www.dol.gov/ofcc[...].html) under 41 CFR 60-1.4. Click here (www.dol.gov/ofcc[...]t.htm) to view the poster and supplement: "Equal Employment Opportunity is the Law."

    Lawrence Berkeley National Laboratory encourages applications from women, minorities, veterans, and other underrepresented groups presently considering scientific research careers.

    DESCRIPTION

    The Center for Renal Precision Medicine (CRPM) at the University of Texas Health San Antonio is seeking a dynamic, independent, and creative computational biology postdoctoral researcher or research scientist to join the team. You will develop novel computational methods to integrate Spatial Omics datasets produced in-house as well as publicly available datasets across a range of projects in nephrology, cancer and other metabolic diseases.

    The CRPM, directed by Dr. Kumar Sharma (Vice Chair of Research in Medicine and Division Chief of Nephrology), has recently pioneered breakthrough technical advances in Spatial Metabolomics to unravel mechanisms of disease in nephrology, cancer and metabolic diseases. As a result, you will have the opportunity to build a diverse range of expertise and skill sets from working with cutting-edge technology, and partner in CRPM's extensive national and international collaborative network of leading researchers at prominent institutions across multiple fields and disciplines. Dr. Sharma and the CRPM team are well-recognized in the field and consistently publish in high-impact journals.

    You will apply computational biology techniques and statistical methodologies to analyze and visualize data primarily generated through spatial and bulk metabolomics experiments. You will perform all steps of data analysis including data quality checks, normalization, statistical tests, correction for multiple testing, as well as further downstream analyses such as biochemical and bioenergetic pathway analysis and integrating results from varied experiments. Together with our scientific team, you will work with and improve upon existing data analysis pipelines and be involved in various collaborative projects. The candidate will also collaborate with various wet lab researchers to aid in experimental and statistical design of projects, and in the biological interpretation and integration of the resulting complex data sets. Knowledge of biochemistry and machine learning is highly valued for this position.

    For the right candidate, who is well-organized and motivated, it may be possible for the employee to work remotely from within the US.

    REQUIREMENTS

    • PhD in Bioinformatics, Biostatistics, Computational Biology, Biochemistry or similar
    • Strong computational skills and knowledge in programming, statistics, biology
    • Experience with statistical analysis and presentation of results using Python and R
    • Understanding of large-scale metabolomics, proteomics and other omics data and placing it in a biological or spatial context
    • Familiarity with biological networks, their analysis and display
    • Knowledge of Biochemistry is a huge plus.
    • Application and validation of machine learning methods to complex data
    • Knowledge of biological network analysis, and experience with visualization tools such as Cytoscape
    • Team player who can thrive working on large collaborative projects
    • US citizen or permanent resident preferred.

    TERMS

    Start Date: Immediate
    Part-time or Full-time possibility

    HOW TO APPLY

    Apply by sending the following to Blanca Sandoval, Business Manager to Professor Kumar Sharma (sandovalb3[at]uthscsa.edu):
    • Current CV
    • Cover Letter
    • Two Reference Contacts
    We are looking forward to hearing from you!

    DESCRIPTION

    The UCSD Hemophilia and Thrombosis Treatment Center has a wide-ranging clinical, translational and basic research program, involving genomic and proteomic analysis, in the field of thrombosis and hemostasis.

    This role involves developing and utilizing computational tools to analyze and interpret biological or other research data. Utilizes and develops algorithms, computational techniques, and statistical methodologies. Helps in the design of new experiments. Implements end-user needs in database searching and integration. Maintains the computational infrastructure and tracks the flow of samples and information for large-scale studies. Provides web-based bioinformatics and access to public and proprietary databases.

    Uses skills as an advanced, specialized bioinformatics programming professional with an in-depth understanding of computational algorithms to identify and resolve a wide range of highly complex issues/software bugs where analysis of situations or data requires an in-depth evaluation of variable factors. May lead and/or mentor a team of bioinformatics programming professionals and/or provide independent consultation regarding analytical approach for studies requiring complexity and scope in bioinformatics, to doctors, residents, fellows, postdocs and others involved in research. Prepares data for publication and presentation.

    REQUIREMENTS

    Minimum qualifications:
    • Bachelor's Degree in biological science, computational/programming, or related area; and/or equivalent experience/training
    • A minimum of five (5+) or more years of relevant bioinformatics programming or scripting experience. Knowledge of modern biology and applicable field of research
    • Experience and proven success in bioinformatics methods, applications programming, web development and data structures
    Preferred qualifications:
    • Master or PhD preferred.
    • Knowledge of R programming language
    • Familiarity with proteomics field
    Special conditions:
    • Employment is subject to a criminal background check.
    • Must be able to work various hours and locations based on business needs
    Job offer is contingent on successful engagement in the UC COVID-19 Vaccination program (fully vaccinated with documented proof or approved exception/deferral).

    COMPENSATION

    Salary Range: Commensurate with Experience

    HOW TO APPLY

    Apply online: 50.73.55.13/coun[...]07204

    DEADLINE

    Filing Deadline: Thu 9/16/2021, thereafter Open Until filled

    ABOUT US

    UC San Diego Health is the only academic health system in the San Diego region, providing leading-edge care in patient care, biomedical research, education, and community service. Our facilities include two university hospitals, a National Cancer Institute-designated Comprehensive Cancer Center, Shiley Eye Institute, Sulpizio Cardiovascular Center, and several outpatient clinics. UC San Diego Medical Center in Hillcrest is a designated Level I Trauma Center and has the only Burn Center in the county. We invite you to join our dynamic team!

    POLICY

    Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached.

    UC San Diego Health is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, age, protected veteran status, gender identity or sexual orientation. For the complete University of California nondiscrimination and affirmative action policy see: www-hr.ucsd.edu/saa/nondiscr.html

    The Sheltzer Lab at Yale University is seeking a computational biologist for a for a cutting-edge project analyzing the genomic aberrations found in cancer.

    DESCRIPTION

    Our laboratory is broadly interested in identifying the genetic changes that occur during tumorigenesis and influence drug sensitivity, metastasis, and patient outcomes. We apply a number of high-throughput approaches, including CRISPR screening, RNA-Seq, single-cell sequencing, and copy number profiling, to generate comprehensive data on cancer physiology in vitro and in vivo. Through this work, we seek to improve our understanding of the genetic drivers of aggressive tumors and identify cancer-specific alterations that create therapeutic vulnerabilities. We are particularly interested in uncovering the role of aneuploidy, or chromosome copy number changes, in cancer-related processes. We are looking to hire a computational biologist who will work closely with other scientists in the Sheltzer Lab to aid in the design and analysis of high-throughput experimental results. Initial responsibilities will include conducting copy number analysis on cancer specimens, identifying patterns of transcriptional alterations following drug treatments, and contributing to the analysis of CRISPR screening data. More information on research in the Sheltzer Lab can be found on our website, www.sheltzerlab.org, and in our recent publications:

    Schukken, K.M., and Sheltzer, J.M. (2021). Extensive protein dosage compensation in aneuploid human cancers. bioRxiv. doi: 10.1101/2021.06.18.449005.

    Smith, J.C., and Sheltzer, J.M. (2021). Genome-wide identification and analysis of prognostic features in human cancers. bioRxiv. doi: 10.1101/2021.06.01.446243.

    Lukow, D.A., Sausville, E.L., Suri, P., Chunduri, N.K., Leu, J., Kendall, J., Wang, Z., Storchova, Z., Sheltzer, J.M. (2021). Chromosomal instability accelerates the evolution of resistance to anti-cancer therapies. Developmental Cell. Aug 2; S1534-5807(21)00592-X.

    REQUIREMENTS

    • A bachelor's degree in computer science, bioinformatics, mathematics, molecular biology, or a related field is required. A master's degree or a PhD is preferred but not mandatory.
    • Proficiency in Python, R, Linux, and command line tools.
    • A strong background in genomics, including WGS, RNA-Seq, and single-cell approaches.
    • Excellent oral and written communication skills including the ability to effectively generate data visualizations suitable for presentation and publication.

    HOW TO APPLY

    Candidates who are interested in applying to this position should send a CV and cover letter to Dr. Sheltzer at Jason.Sheltzer[at]yale.edu.

    ABOUT US

    The Sheltzer Lab is a highly-collaborative environment that values rigorous research and that welcomes scientists from all backgrounds. We are located at Yale University, an internationally-renowned research university located in the historic city of New Haven, Connecticut. Yale University is an EO/AA Employer.

    POLICY

    All qualified applicants will receive consideration for employment and will not be discriminated against on the basis of race, color, religion, sex, sexual orientation, gender identity, national origin, age, disability or protected veteran status.

    The Max Planck Institute for Plant Breeding Research (MPIPZ) is one of the world's premier sites for research into fundamental processes in plant biology. Around 400 staff from all over the world work at the institute, which consists of four scientific departments, several independent research groups, and specialist support. The Department of Plant Microbe Interactions at the MPIPZ is a global leader in research that seeks to define the principles as well as consequences of plant interactions with harmful and beneficial microorganisms.

    We are inviting applications for a

    Systems engineer / Control engineer (m/f/div)

    BACKGROUND

    Human actions are driving rapid changes to the ecological environment at a global scale, reducing biodiversity by causing extinctions and altering the population sizes of surviving species. This has motivated research efforts aimed at a deeper understanding of how natural and anthropogenic environmental changes influence biodiversity and impact ecosystem functions. However, current research is mainly limited to collection and analysis of observational data and modelling approaches. In the next four years, we will develop an alternative approach to explore the stability and dynamics of terrestrial ecosystems by constructing synthetic ecosystems of increasing complexity, which are amenable to reproducible and controlled perturbation, high-resolution monitoring, and genetic manipulation.

    THE PROJECT

    The aim of this project is to design and build small scale synthetic ecosystems in gnotobiotic chambers inspired by naturally occurring terrestrial ecosystems which will include small communities of plants, microbes (i.e., bacteria, fungi) and small animals (i.e., nematodes). These 'eco chambers' need to be designed to allow for control of environmental parameters (e.g., light, humidity, temperature) and real-time monitoring of relevant parameters such as atmosphere composition, plant biomass through imaging approaches, etc. The selected candidate will join a team of researchers with expertise in ecology, molecular biology, and bioinformatics, dedicated to the development and use of these synthetic ecosystems for hypothesis-driven ecological research.

    YOUR QUALIFICATIONS

    We seek a creative and motivated candidate with a master's degree in Electrical Engineering, Mechatronics, Process Engineering, Automation Engineering, Chemical Engineering, Physical Engineering, Scientific Instrumentation or comparable qualification. The ideal candidate will be expected to work in an international, multi-disciplinary team of scientists and be able to carry out the following tasks:
    • Development, construction, support and optimization of experimental setups and sensor technology for ecosystem research.
    • Design of equipment for the acquisition and manipulation of ecological processes, together with scientific collaborators.
    • Programming of the automation and data transmission of the devices and installations.
    • Supervision of modern gas analysis and environmental measurement technology.
    • Organization and implementation of projects in the laboratory and field.
    • Documentation of experimental setups and evaluation of measurement data.

    OUR OFFER

    This position is available immediately, and the initial contract is for a duration of two years with a possibility for extension. Salary and social benefits will be in accordance with the regulations of the German TVöD Bund (E 13; salary agreement for public service employees). The successful applicant will join a dedicated research team lead by the head of department, Prof. Dr. Paul Schulze-Lefert and the group leader, Dr. Ruben Garrido-Oter.

    The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. Further, the Max Planck Society seeks to increase the percentage of women in those areas where they are underrepresented and therefore explicitly encourages female candidates to apply.

    Applicants are requested to submit a motivation letter and CV (in English as a single PDF file) including the names and affiliations of two referees through the online system, by October 10th, 2021.

    COMPENSATION

    German TVöD Bund (E 13; salary agreement for public service employees)

    HOW TO APPLY

    Through the online system: jobs.mpipz.mpg.de/en/j[...]epage

    DEADLINE

    October 10th, 2021.

    BACKGROUND

    The Yeast Natural Products group at DTU Biosustain is seeking a skilled computational biologist to join the group's translational project on manufacturing plant natural products in yeast.

    At DTU Biosustain we develop the next generation of biosustainable technologies using synthetic biology. We create novel methods and technologies as a foundation for development of new environment-friendly products, better and less energy consuming manufacturing processes, new medical treatments, climate-friendly farming, etc. In other words, we try to solve some of the biggest challenges in the history of humankind, and you will get the chance to add your mark to this.

    The Yeast Natural Products group is focusing on refactoring plant biosynthetic pathways for natural products manufacturing in yeast. The competencies in our laboratory, led by Prof. Jay D. Keasling and Dr. Jie Zhang, focus on the use of synthetic biology to engineer microbes for production of difficult to source bioactives. To strengthen our team's translational R&D activities, and further advance our visions for delivery of new supply chains for bioactive natural products we seek a computational biologist with a focus on:
    • Plant genome and transcriptome de novo assembly
    • Differential gene expression analysis and biosynthetic gene mining
    • Metabolomics multivariate analysis
    • Integrative analysis of multi-omics datasets
    • Gene & protein sequence and structural analysis

    RESPONSIBILITIES

    The candidate will be responsible for all aspects related to data management and analysis. The candidate will closely collaborate with a team of about 10 researchers with expertise in synthetic biology, metabolic engineering, protein engineering, analytical chemistry and bio-process engineering. Key responsibilities will include:
    • QC, process and annotate omics data
    • Setup data analysis pipeline
    • Perform integrated multivariate analysis
    • Maintain database infrastructure
    • Assist in structure-guided protein engineering
    • Disseminate results to team

    REQUIREMENTS

    The ideal candidate will have:
    • Proactive attitude, enthusiasm, responsibility, flexibility, team spirit and collaboration skills
    • Strong skills in R & Python programming
    • Solid omics data analysis background
    • Experience with parallel computing
    • Proven track-record of data management skills
    • Strong communication skills in English
    The Yeast Natural Products group – your new team:
    Our environment is characterized by openness, knowledge sharing and helpfulness. We offer an exciting, collaborative, hard-working, and entrepreneurial team, focusing on translational research and innovation with both societal and environmental impacts. The position offers a unique possibility of being a part of a team working on a truly translational project involving close collaboration with business developers and entrepreneurial experts. We place emphasis on a high level of professionalism in our team, so skills development and knowledge-transfer are integral parts of our agile well-resourced organization.

    TERMS & COMPENSATION

    The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union.

    Please note that the contract will end by 2022 December, so we hope you can join us as soon as possible.

    LOCATION

    The project's main location is at the BioInnovation Institute in central Copenhagen. We can offer the opportunity of remote work days.

    HOW TO APPLY

    Please submit your online application no later than 30 September 2021.

    Apply at www.career.dtu.dk

    Applications must be submitted in English as one PDF file containing all materials to be given consideration including CV, cover letter, diploma, list of publications including patents, if you have such.

    If you would like additional information about the position, please contact Jie Zhang (jzha[at]biosustain.dtu.dk) or Lea Gram Hansen (leahan[at]biosustain.dtu.dk). If necessary, we will set up a phone/Zoom call to ensure your understanding of the job and your many opportunities.

    ABOUT US

    The Novo Nordisk Foundation Center for Biosustainability (DTU Biosustain):
    Recent progress in our ability to read and write genomic code, combined with advances in automation, analytics and data science, has fundamentally changed the scope and ambition of harnessing the potential of biological systems. Big data approaches and analysis of biological systems are key research instruments at the Center. DTU Biosustain utilizes these advances for microbial cell factory design to foster sustainable lifestyles in relation to three application areas: Sustainable Chemicals, Natural Products, and Microbial Foods. Learn more at biosustain.dtu.dk

    Technology for people:
    DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN's 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear vision to develop and create value using science and engineering to benefit society. That vision lives on today. DTU has 12,900 students and 6,000 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. DTU has campuses in all parts of Denmark and in Greenland, and we collaborate with the best universities around the world.

    POLICY

    All interested candidates, irrespective of age, gender, race, disability, religion or ethnic background, are encouraged to apply.

    Submitter

    DESCRIPTION

    St. Jude Children's Research Hospital is seeking a Bioinformatics Research Scientist to study the role of genome and other nuclear organization in pediatric cancers. Recognized for state-of-the-art computational infrastructure, well-established analytical pipelines, and deep genomic analysis expertise, St. Jude offers a work environment where you will directly impact the care of pediatric cancer patients. As a Bioinformatics Research Scientist, your responsibilities include analyzing data generated from a variety of second- and third-generation sequencing applications that interrogate a broad range of human gene regulatory biology.

    The Abraham lab studies gene expression-regulation mechanisms in healthy and diseased mammalian cells. We are recruiting computational biologists to collaboratively develop computational tools and frameworks to analyze high-throughput sequencing (-omics) data. We build analytical software pipelines to find answers to biological questions about gene regulation in big datasets, usually from applied sequencing experiments like ChIP-Seq, RNA-Seq, and Hi-ChIP. Our interests center on enhancers and super-enhancers. Specifically, we seek to understand how these regulatory elements establish gene expression programs in healthy cells, and how enhancers are altered by mutation, abused by mistargeting, and targetable with drugs in diseased cells. We focus on characterizing the core regulatory circuitries driving disease-relevant cells, and on understanding how mutations in the non-coding DNA of such cells can drive disease, including cancers, through gene misregulation.

    The successful candidate will become a fundamental component of a multidisciplinary, inter-institutional team assembled to study how genome structures meaningfully differ between normal and pediatric cancer cells.

    Ideal candidates will have experience building, tailoring, and deploying analysis pipelines using widely available genomic analysis toolkits (e.g. bedtools, samtools), as well as experience managing large numbers of datasets. The successful candidate will be tasked with collaborative research within and beyond the lab, so strong communication and interpersonal skills are essential. Additional experience in fundamental understanding of gene expression mechanisms (e.g. transcription factors, enhancers, genome structure, and transcriptional condensates), and experience building succinct, clear figures using R are preferred.

    The department of Computational Biology provides access to high performance computing clusters, cloud computing environment, innovative visualization tools, highly automated analytical pipelines and mentorship from faculty scientists with experience in data analysis, data management and delivery of high-quality results for competitive projects. We encourage first author, high profile publications to share this element of discovery. Take the first step to join our team by applying now!

    Relevant Papers:
    Abraham BJ, Hnisz D, Weintraub AS, Kwiatkowski N, Li CH, Li Z, Weichert-Leahey N, Rahman S, Liu Y, Etchin J, Li B, Shen S, Lee TI, Zhang J, Look AT, Mansour MR, Young RA. Small genomic insertions form enhancers that misregulate oncogenes. Nat Commun. 2017 Feb 9;8:14385. doi: 10.1038/ncomms14385. PubMed PMID: 28181482; PubMed Central PMCID: PMC5309821.

    Hnisz D, Abraham BJ, Lee TI, Lau A, Saint-André V, Sigova AA, Hoke HA, Young RA. Super-enhancers in the control of cell identity and disease. Cell. 2013 Nov 7;155(4):934-47. doi: 10.1016/j.cell.2013.09.053. Epub 2013 Oct 10. PubMed PMID: 24119843; PubMed Central PMCID: PMC3841062.

    Dowen JM, Fan ZP, Hnisz D, Ren G, Abraham BJ, Zhang LN, Weintraub AS, Schujiers J, Lee TI, Zhao K, Young RA. Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes. Cell. 2014 Oct 9;159(2):374-387.

    REQUIREMENTS

    Minimum education:
    • Bachelor's degree is required
    Minimum experience:
    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.
    Lead Bioinformatics Analyst:
    • Six (6) years of relevant experience is required.
    • Four (4) years of relevant experience may be acceptable with a Master's degree.
    • No experience may be acceptable with a PHD in Computer Science or Bioinformatics, with a background in the biological sciences.
    • Experience in programming (Python, Java, C/C++, perl or other programming/scripting languages) under linux/unix environment is required.
    • Experience with and the ability to deal with a wide range of users is required.
    • Experience of independent data analyses and project management is required.

    LOCATION

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]mp%5D

    Submitter

    BACKGROUND

    M. Madan Babu's Group at the Center of Excellence for Data-Driven Discovery and the Department of Structural Biology is seeking a highly driven, full-time human geneticist. This post will be part of a newly established Centre for Adipocyte Signaling (ADIPOSIGN) funded by a major grant from the Novo Nordisk Foundation. This position is available immediately with four years of funding. ADIPOSIGN is run by four partners with highly complementary expertise in the fields of adipocyte biology, transcriptional regulation, signal transduction, physiology, and computational systems biology:

    Susanne Mandrup, Prof., Dept. Biochemistry and Molecular Biology, SDU, DK
    Jan-Wilhelm Kornfeld, Prof., Dept. Biochemistry and Molecular Biology, SDU, DK
    Madan Babu, Member, Dept. of Structural Biology SJCRH, USA
    Zach Gerhart-Hines, Assoc. Prof., NNF Center for Basic Metabolic Research, University of Copenhagen, DK

    The ideal candidate may have extensive expertise and a proven track record in statistical genetics, population genetics, computational analysis of human genetics and large-scale phenotype data and interpreting genome variation data (coding and non-coding variant effects). Your primary role as a computational human geneticist will be to identify, develop, implement and use computational genetics methods to integrate, mine, visualize and analyze multiple large-scale molecular omics and natural variation datasets for hypothesis generation, polygenic risk score calculation, and creation of molecular network models of obesity. You will develop computational pipelines and machine learning approaches to analyse genome sequences in order to quantify obesity risk and predict its effects. When submitting your application, please include a cover letter.

    This position requires relocation to Memphis, TN. When possible, it will involve travel for collaborative purposes to Denmark. You will be working in a highly dynamic and collaborative environment, and will be expected to communicate complex informatics principles, methods, analyses and results to scientists from diverse backgrounds in the consortium. Excellent interpersonal and communication skills are a must, as you will interact directly with both Computational Biologists and Experimentalists in a highly interdisciplinary environment.

    Ranked #1 in the U.S. in Pediatric Cancer, St. Jude Children's Research Hospital is a NCI-designated Comprehensive Cancer Center, and home to the Pediatric Cancer Genome Project. The St. Jude campus is a truly unique research environment, encompassing state-of-the-art HPC facilities, world-leading oncology basic research, outstanding Shared Resources and Core Facilities and a dedicated translational Chemical Biology and Therapeutics department. The $412M Advanced Research Center, opened in 2021, doubles the campus' research space and adds support for an additional 1000 employees. There is a vibrant Data Science community at St. Jude, with opportunities to interact with researchers in the Biostatistics and Computational Biology Departments, and tremendous support from the Center for Applied Bioinformatics.

    RESPONSIBILITIES

    • To undertake cutting-edge research aimed at understanding the molecular basis of obesity phenotypes and how genetic variation contributes to the occurrence and development of obesity
    • To develop and employ state-of-the-art computational genetics and genomics methods for the integrative analysis of whole genome, whole exome, transcriptome, miRNA, proteome and SNP genotype datasets within the framework of the ADIPOSIGN consortium
    • To lead the analyses aimed at the identification of candidate genes and variants linked with obesity for further computational analysis and experimental validation
    • To discover, develop and maintain network models of obesity and the effect of naturally occurring variants via a community database and make it available to the scientific community
    • Establish computational pipelines and develop machine learning approaches to analyse genome sequences in order to quantify obesity risk and predict its effects
    • To identify, develop and apply a broad range of techniques and data resources to pursue the research objectives
    • To maintain collaborative interactions with all the other partners involved in ADIPOSIGN and provide general bioinformatics support for data analysis, interpretation and presentation of variation datasets
    • To travel and present scientific work at seminars within the lab, consortium meetings, progress report meetings and at external meetings
    • To collaborate with other members of Madan's group and contribute to lab-wide discussions on developments in the area of computational genetics and genomics
    • To draft scientific papers, and contribute to the overall preparation of research for publication
    • To contribute to the mission of SJCRH and ADIPOSIGN in the public engagement of science, and the dissemination and translation of research findings into improvements in health care
    • To assist in the training of PhD Students, post-docs and other members of the Group and ADIPOSIGN consortium

    REQUIREMENTS

    Minimum education:
    • Bachelor's degree is required.
    • Master's degree or PHD is preferred.
    • A PhD in computational human genetics or computational genomics preferred.
    If you have a PhD in statistical genetics, the ideal candidate preferably will have an extensive research experience working with human genetics datasets with a good molecular understanding of the basis of phenotypic diversity.

    Minimum experience:
    • Four (4) years of relevant experience is required.
    • One (1) year of relevant experience may be acceptable with a Master's degree.
    • Experience in programming (Python, Java, C/C++, Perl or other programming/scripting languages) under Linux/Unix environment is required.
    • Experience with and the ability to deal with a wide range of users is required.
    • Experience of data analyses and project management is required.
    • Extensive expertise and proven publication history in human population genetics and statistical genetics preferred.
    • Extensive experience in working with human genetics and genomics datasets preferred (e.g., 1000 Genomes project data, gnomAD, GTEX, Genomics England 100K Genomes Project, UK/FINNGEN/All of US Biobank datasets, etc.)
    • Proven track record of experience in analysing diverse datasets (i.e., molecular and clinical data, different data types) and in interpreting and estimating the functional impact of variants (coding and non-coding) preferred.
    • Experience in performing Genome-Wide Association Studies on novel genomic datasets, including data quality control, imputation, statistical study and data interpretation preferred.
    • Good knowledge of omics datasets, molecular biology, systems biology and network biology approaches and methods preferred.
    • Extensive programming in a general purpose or specialized statistical programming language such as Python and/or R preferred.
    • Strong visualization skills as well as written and oral communication skills preferred.
    Preferred skills and experience:
    • Experience with GWAS data analysis, QTL, eQTL analysis, and other methods of linking genotype and epigenetics information to phenotype
    • Experience with development, implementation and application of Polygenic Risk Score estimation for phenotypes
    • Experience with diverse statistical data analysis approaches (Bayesian and non-Bayesian statistical methods)
    • Interest and expertise in adipocyte biology, human physiology, or other areas relevant to the study of obesity
    • Interest or expertise in GPCR signalling, transcription, metabolic pathways, and/or nuclear receptors is desirable.
    • Experience with writing reports, developing web interfaces for data analysis and/or data dissemination
    • Experience with developing and maintaining databases (ideally graph databases)
    • Experience with novel data visualisation methods

    LOCATION

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]mp%5D

    DESCRIPTION

    A highly motivated individual with experience in biostatistics and bioinformatics is sought to join an interdisciplinary collaborative research group of highly successful investigators that span disciplines of proteomics, biochemistry, neurology, neuroscience, biostatistics, and bioinformatics. The candidate will work on NIH-funded and other projects analyzing proteomic and multi-omics data to uncover new insights into Alzheimer's disease and related neurodegenerative diseases. The candidate will also aid in the preparation of scientific manuscripts under the direction of the principal investigators.

    The ideal candidate must be able to work independently with minimal guidance. Presentations will be expected internal group meetings. Expected to keep meticulous records of his/her data analysis and code. Responsible for backing up of scientific data. Also expected to teach others about analytic approaches when needed.

    REQUIREMENTS

    Minimum qualifications:
    • Demonstrable experience analyzing -omics data
    • Proficiency in using R, Python and Linux command line
    • Excellent communication skills
    • Ability to work collaboratively with colleagues
    Preferred qualifications:
    • Knowledge of proteomics, RNA-seq and related multi-omic data outputs
    • M.S., Ph.D. or equivalent degree in biostatistics, statistics, bioinformatics, or basic science discipline
    • Programming experience in Perl/Python or C/C++
    Candidates that have a strong interest and demonstrated experience in working with large biological datasets are encouraged to apply, regardless of specific training background or qualifications.

    TERMS

    Full-Time
    Regular

    LOCATION

    Operating Unit/Division:
    Emory University, School Of Medicine
    Department of Neurology

    COMPENSATION

    Salary will be commensurate with training and level of experience at the time of hire.

    HOW TO APPLY

    Applicants should submit a Resume to:

    Nicholas T Seyfried, PhD
    Associate Professor
    Departments of Biochemistry and Neurology
    Emory School of Medicine
    nseyfri[at]emory.edu

    Submitter

    DESCRIPTION

    M. Madan Babu's Group at the Center of Excellence for Data-Driven Discovery and the Department of Structural Biology is seeking a highly driven, full-time Principal/Senior Bioinformatics Research Scientist to serve as the Web Development and Design lead to support the Kalodimos and Babu Groups on the Blue Sky Initiative "Seeing the Invisible in Protein Kinases." This project is supported by $35 million in institutional funding (more information in the St. Jude Strategic Plan 2022--2027). This is a joint project between the Kalodimos Lab and the Babu Group at St Jude.

    The project will extend the ultra-high field NMR spectroscopy and biochemistry approaches developed recently by the Kalodimos lab (Science 370, eabc2754, 2020) to study the human kinome. This is a large-scale project that aims to detect and structurally characterize the distinct conformational states populated by kinases, and to dissect the mechanisms of allosteric regulation and those underpinning oncogenic and drug-resistance mutations. This strategy will be integrated with and complemented by data-science and computational approaches developed by the Babu lab (Nature 587, 650, 2020), to systematically characterize the conformational landscape of the human kinome.

    The ideal candidate will be an expert in UX/UI design and back-end development of web applications to help scientists visualize, analyze and understand high-dimensional biological data. You will have a strong background in computer science, web development, bioinformatics, or computational biology and truly exceptional skills in designing visualizations to render complex, multi-dimensional biological data interpretable and understandable. You should be able to present or provide links to a strong work portfolio that demonstrates your expertise in designing, building, and deploying insightful web-based applications. You will be a team player and will work as part of an interdisciplinary team of 40 scientists including biochemists, NMR spectroscopists, data scientists and bioinformaticians. Exceptional communication (written and verbal) and critical thinking skills are a must.

    When submitting your application, please include your CV and a cover letter, which includes information or a link to a portfolio of past projects. If you do not meet the minimum years' experience for your degree level, but believe you are a truly exceptional candidate, please contact Ben Leslie (bleslie[at]stjude.org) for more information.

    RESPONSIBILITIES

    In this role, the successful candidate will work independently to assist, and where relevant, lead ongoing projects on the Blue Sky Kinase Project. The Principal/Senior Bioinformatics Research Scientist is expected to work efficiently to manage concurrent projects, collaborate extensively, and meticulously document work (e.g., through written reports, presentations, etc.) and code. In addition, this person will be responsible for instructing and managing junior members of the team and delegating tasks to them.
    • Build the UI and back-end of high-complexity yet responsive web applications to both internally and public facing networks
    • Develop web-based visualization tools and UI design that identify patterns emerging from data analyses that combine information from sequence, expression, genome variation, disease mutations, and 3D structural information
    • Work with Blue Sky database engineer and members of Babu Group to integrate and manage currently existing and new datasets in the Babu Group into a platform that can easily be accessed, analyzed and visualized by Blue Sky Kinase Project members
    • Work with data scientists and experimentalists to understand interesting domain-specific datasets and build new high-performance tools to extract new insights from those data; teach other members how to use these tools

    REQUIREMENTS

    Preferred Skills and Experience:
    • Exceptionally strong background and skills in the development of web sites and applications
    • Expertise working with biological data (structural data, sequences, expression, network, genomic data, etc.) or a strong willingness to acquire the required knowledge
    • Proven expertise in successfully deploying web applications to internal or public-facing networks
    • A strong understanding and ability to work with SQL datasets, and familiarity with next-gen ORMs that abstract these data types (e.g., SQLAlchemy, GraphQL, Prisma, Apollo, etc.)
    • Strong proficiency with the different cloud services (e.g., AWS, Azure, Google Cloud) as well as hybrid cloud technologies
    • Strong adherence to using version control software, functionality testing, reviewing and debugging code
    • Drive and enthusiasm to stay current with technological advances in the field, apply them to the Team's workflows, and teach other team members
    • Ability to contribute new ideas to automate or improve existing analysis methods. Independently implement improvements or help others to do so. Participate in manuscript preparation
    • Ability to work in a computational biology-oriented lab, collaborate with other members (experimental and computational) of the groups, supervise others, analyze areas of weakness, and schedule training sessions accordingly
    • Periodically organize meetings and update all relevant team members of progress
    • Our preference is for candidates who have demonstrated proficiency working with large biological datasets. However, we will be happy to other consider candidates if they can demonstrate experience working with large datasets from multiple fields outside of biology
    Minimum Education:
    • Bachelor's degree is required
    • Master's or PhD is preferred
    Minimum Experience:
    • Demonstrated expertise in designing, building, and securely deploying powerful web-based interactive applications that interface with internally or cloud-hosted data
    • Demonstrated proficiency in both front-end and back-end development
    • Ability to work with large, complex, and diverse data sets in a very fast-paced, intellectually curious environment
    • Expert in at least one modern web-framework: React, Angular, Vue, or Django
    • Expert in at least one modern visualization application such as D3.js, Three.js
    • Expertise building, curating, and managing databases using state-of-the-art frameworks and a strong willingness to integrate currently existing and continually created data within the group
    • Our preference is for candidates who have demonstrated proficiency working with large biological datasets, but we will be happy to consider other candidates who have diverse experience working with large datasets from multiple fields outside of biology
    • A minimum of five (5) years of relevant experience as a web developer is required
    Principal Bioinformatics Research Scientist:
    • Thirteen (13) years of relevant post-degree work experience is required
    • Eleven (11) years of relevant post-degree work experience is required with a Master's degree
    • Eight (8) years of relevant post-degree work experience is required with a PhD
    Senior Bioinformatics 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

    LOCATION

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]mp%5D

    ABOUT US

    Ranked #1 in the U.S. in Pediatric Cancer, St. Jude Children's Research Hospital is a NCI-designated Comprehensive Cancer Center, and home to the Pediatric Cancer Genome Project. The St. Jude campus is a truly unique research environment, encompassing state-of-the-art HPC facilities, world-leading oncology basic research, outstanding Shared Resources and Core Facilities and a dedicated translational Chemical Biology and Therapeutics department. The $412M Advanced Research Center, opened in 2021, doubles the campus' research space and adds support for an additional 1000 employees. There is a vibrant Data Science community at St. Jude, with opportunities to interact with researchers in the Biostatistics and Computational Biology Departments, and tremendous support from the Center for Applied Bioinformatics.

    The Department of Structural Biology is building one of the world's most comprehensive research center for defining molecular structures to understand health and disease at the molecular level. The Department is home to multiple Technology Core Centers (Cryo-EM and Tomography, X-ray, NMR, Single-Molecule Imaging, and Protein Technologies) ready to characterize Data Driven Discoveries.

    Submitter

    DESCRIPTION

    The department of Computational Biology is seeking a highly motivated Sr. Bioinformatics Research Scientist to serve as the scientific lead for St. Jude Cloud, a cloud-based ecosystem for data sharing, cloud-computing and dynamic visualization of the world's largest pediatric cancer genomic data set. The candidate will be a part of an interdisciplinary team consisting of scientists and engineers from St. Jude and our external partners at DNAnexus and Microsoft. Specific responsibilities include providing scientific guidance for the engineering team, organizing pilot studies to evaluate collaborative research initiatives, developing prototypes of workflow and designing new concepts for data visualization, performing curation on data releases, and participating in presentation and training of St. Jude Cloud platform to the biomedical community.

    Candidates with a strong background in bioinformatics, computational biology, and cancer genomics are highly encouraged to apply for this position. Successful candidates shall have well-established track record in cancer genomic research, in-depth experience in data analysis, excellent critical thinking and communication skills, as the St. Jude Cloud project is an institutional strategic initiative and this position will frequently interact with senior scientists from departments across the institution, as well as external partners and collaborators.

    Recognized as a world leader in mapping the genetic landscape of pediatric cancers, the St. Jude department of Computational Biology has developed state-of-art computational infrastructure, well-established pipelines, and deep genomic analysis expertise with a track record of high-impact publications in top-tier biomedical journals such as Nature, NEJM, JAMA, Nature Genetics and Nature Methods. The department provides a highly interactive environment with collaborative opportunities across basic and clinical departments, access to high performance computing clusters, cloud computing environment, innovative visualization tools, highly automated analytical pipelines and mentorship from faculty scientists with deep experience in data analysis, data management and delivery of high-quality results for highly collaborative projects. This position is located in Memphis, TN, and relocation assistance is available.

    REQUIREMENTS

    Minimum Education:
    • Bachelor's degree is required
    Minimum Experience:
    Senior Bioinformatics 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

    LOCATION

    Memphis, TN

    HOW TO APPLY

    Apple online: bs.serving-sys.com/Serv[...]mp%5D

    Submitter

    DESCRIPTION

    The Department of Computational Biology is seeking a highly motivated Bioinformatician to develop and apply computational and systems biology approaches to dissect the molecular circuits that drive tumorigenesis, tumor immune-escape and drug resistance, and identifying novel immunotherapy targets, biomarkers and combination therapies (particularly with immunotherapy) for the treatment of pediatric cancers. This analyst/scientist will analyze and integrate high-throughput omics data, at bulk and single-cell levels, including transcriptomic, genomic, epigenomic, functional genomic, chemical genomic and proteomic data to model context-specific cellular/molecular networks and to identify actionable targets, biomarkers or compounds that could be translated into clinic for the development of precision medicine in pediatric cancer. The scientist will report to Dr. Jiyang Yu and will work closely with our collaborators in the departments of Immunology and Oncology for experiment design and data generation, and with our pipeline and visualization teams to explore novel analysis approaches for single-cell RNA-Seq, NGS-based RNAi/CRISPR screening, immune-profiling and proteomics data for molecular network inference and target identification.

    Candidates with a strong interest in cancer immunotherapy, cancer precision medicine and expertise in oncology, immunology, computational biology, bioinformatics are encouraged to apply. The successful candidate will also have an opportunity to participate in research projects involved in the analysis of the cancer genome, epigenome, transcriptome or proteome. Experience with omics data analysis using R or Python and familiarity with linux/unix is required. Experience and knowledge in immunology and/or immuno-oncology is highly desirable. Expertise in systems biology, network biology, parallel computing, web development, visualization and databases is also highly desirable.

    The Yu Lab provides a highly interactive environment with projects involving basic and clinical research collaborators, access to high performance computing clusters, cloud computing environment, innovative visualization tools, highly automated analytical pipelines and teamwork with scientists who have deep experience in data analysis, data management and delivery of high-quality results for highly competitive projects. This position is located in Memphis, TN, and relocation assistance is available.

    REQUIREMENTS

    Minimum Education:
    • Bachelor's degree is required.
    • Master's degree or PHD is preferred
    Minimum Experience:
    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.
    Lead Bioinformatics Analyst:
    • Six (6) years of relevant experience is required.
    • Four (4) years of relevant experience may be acceptable with a Master's degree.
    • No experience may be acceptable with a PHD in Computer Science or Bioinformatics, with a background in the biological sciences.
    • Experience in programming (Python, Java, C/C++, perl or other programming/scripting languages) under linux/unix environment is required.
    • Experience with and the ability to deal with a wide range of users is required.
    • Experience of independent data analyses and project management is required.
    • End user support and training experience is required.

    LOCATION

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]mp%5D
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