Bioinformatics Jobs

Senior Data Scientist (Biostatistics and Bioinformatics Core (BBC) University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school consistently ranks among the top 10 universities in the annual U.S. News & World Report survey. Penn has 12 highly-regarded schools that provide opportunities for undergraduate, graduate and continuing education, all influenced by Penn's distinctive interdisciplinary approach to scholarship and learning. As an employer Penn has been ranked nationally on many occasions with the most recent award from Forbes who named Penn one of America's Best Large Employers in 2023. Penn offers a unique working environment within the city of Philadelphia. The University is situated on a beautiful urban campus, with easy access to a range of educational, cultural, and recreational activities. With its historical significance and landmarks, lively cultural offerings, and wide variety of atmospheres, Philadelphia is the perfect place to call home for work and play. The University offers a competitive benefits package that includes excellent healthcare and tuition benefits for employees and their families, generous retirement benefits, a wide variety of professional development opportunities, supportive work and family benefits, a wealth of health and wellness programs and resources, and much more. Posted Job Title Senior Data Scientist (Biostatistics and Bioinformatics Core (BBC) Job Profile Title Research Analyst Job Description Summary The Biostatistics and Bioinformatics Core (BBC) in the Abramson Cancer Center (ACC) provides expert biostatistical, bioinformatics, and data management guidance in the design, conduct and analysis of research projects conducted by ACC members, and offers training in all aspects of design and analysis. Core personnel apply existing design and analysis methodologies, in addition to adapting or developing new methods to address novel design and analysis issues arising in cancer studies. A major BBC responsibility is to support the design and conduct of clinical trials. As such, the BBC plays a key role in the Protocol Review and Monitoring System, particularly through the Clinical Trials Scientific Review and Monitoring Committee (CSTRMC). Job Description This Senior Data Scientist will be a key member of the Biostatistics and Bioinformatics Core (BBC) in the Abramson Cancer Center (ACC) at the University of Pennsylvania Perelman School of Medicine. The primary responsibility of this position will be to provide statistical expertise to design, conduct, monitoring, and analysis of cancer studies in basic, translational, clinical, and/or population science research. The incumbent will also contribute to statistical review of clinical trial protocols submitted to the ACC Clinical Trials Scientific Review and Monitoring Committee (CTSRMC). The specific duties for this position may include protocol development, study design, analysis plan, sample size / power calculations, and interpretation of study data; develop, design and write new and/or revised statistical programs (say in SAS or R) and modeling based on requirements of ongoing research projects; conduct and interpret analyses of research data using descriptive statistics, inferential tests, and advanced statistical methods and models; evaluate and ensure statistical integrity, accuracy and validity of research data; compiles results and provides statistical summaries and reports to principal investigators; assist with grant proposal preparation in study design, sample size calculations, and development of statistical analysis plans; assist with preparation of journal articles, technical reports and other materials for publication and presentation; manage biomedical databases for assigned research projects; read and review appropriate biomedical and statistical papers; and attend project meetings. Position is contingent upon funding. Qualifications Master's degree in biostatistics, statistics or related quantitative field with 6+ years' experience in design, conduct, monitoring, and analysis of cancer clinical studies, in preparing and reviewing clinical trial protocols, and in preparing grant applications and writing research reports, or doctoral degree with 3+ years' experience in these areas. Working Conditions Office, library, computer room Physical Effort Typically sitting at a desk or table ; Occasional lifting 25 lbs. or less Job Location - City, State Philadelphia, Pennsylvania Hybrid Eligible - This position is eligible for a hybrid work schedule with a work week divided between working onsite and working remotely. Department / School Perelman School of Medicine Pay Range $74,476.00 - $100,000.00 Annual Rate Salary offers are made based on the candidate's qualifications, experience, skills, and education as they directly relate to the requirements of the position, as well as internal and market factors and grade profile. Affirmative Action Statement Penn adheres to a policy that prohibits discrimination on the basis of race, color, sex, sexual orientation, gender identity, religion, creed, national or ethnic origin, citizenship status, age, disability, veteran status, or any other legally protected class. Special Requirements Background check required after a conditional job offer is made. Consideration of the background check will be tailored to the requirements of the job. University Benefits • Health, Life, and Flexible Spending Accounts : Penn offers comprehensive medical, prescription, behavioral health, dental, vision, and life insurance benefits to protect you and your family's health and welfare. You can also use flexible spending accounts to pay for eligible health care and dependent care expenses with pre-tax dollars. • Tuition : Take advantage of Penn's exceptional tuition benefits. You, your spouse, and your dependent children can get tuition assistance here at Penn. Your dependent children are also eligible for tuition assistance at other institutions. • Retirement: Penn offers generous retirement plans to help you save for your future. Penn's Basic, Matching, and Supplemental retirement plans allow you to save for retirement on a pre-tax or Roth basis. Choose from a wide variety of investment options through TIAA and Vanguard. • Time Away from Work: Penn provides you with a substantial amount of time away from work during the course of the year. This allows you to relax, take vacations, attend to personal affairs, recover from illness or injury, spend time with family-whatever your personal needs may be. • Long-Term Care Insurance: In partnership with Genworth Financial, Penn offers faculty and staff (and your eligible family members) long-term care insurance to help you cover some of the costs of long-term care services received at home, in the community or in a nursing facility. If you apply when you're newly hired, you won't have to provide proof of good health or be subject to underwriting requirements. Eligible family members must always provide proof of good health and are subject to underwriting. • Wellness and Work-life Resources : Penn is committed to supporting our faculty and staff as they balance the competing demands of work and personal life. That's why we offer a wide variety of programs and resources to help you care for your health, your family, and your work-life balance. • Professional and Personal Development: Penn provides an array of resources to help you advance yourself personally and professionally. • University Resources: As a member of the Penn community, you have access to a wide range of University resources as well as cultural and recreational activities. Take advantage of the University's libraries and athletic facilities, or visit our arboretum and art galleries. There's always something going on at Penn, whether it's a new exhibit at the Penn Museum, the latest music or theater presentation at the Annenberg Center, or the Penn Relays at Franklin Field to name just a few examples. As a member of the Penn community, you're right in the middle of the excitement-and you and your family can enjoy many of these activities for free. • Discounts and Special Services : From arts and entertainment to transportation and mortgages, you'll find great deals for University faculty and staff. Not only do Penn arts and cultural centers and museums offer free and discounted admission and memberships to faculty and staff. You can also enjoy substantial savings on other goods and services such as new cars from Ford and General Motors, cellular phone service plans, movie tickets, and admission to theme parks. • Flexible Work Hours: Flexible work options offer creative approaches for completing work while promoting balance between work and personal commitments. These approaches involve use of non-traditional work hours, locations, and/or job structures. • Penn Home Ownership Services: Penn offers a forgivable loan for eligible employees interested in buying a home or currently residing in West Philadelphia, which can be used for closing costs or home improvements. • Adoption Assistance: Penn will reimburse eligible employees on qualified expenses in connection with the legal adoption of an eligible child, such as travel or court fees, for up to two adoptions in your household. To learn more, please visit: https://www.hr.upenn.edu/PennHR/benefits-pay To apply, visit https://wd1.myworkdaysite.com/en-US/recruiting/upenn/careers-at-penn/job/Blockley-Hall/Senior-Data-Scientist--Biostatistics-and-Bioinformatics-Core--BBC-_JR00054455-2 Copyright 2024 Jobelephant.com Inc. All rights reserved. Posted by the FREE value-added recruitment advertising agency jeid-6939099ba0f9364f9d5607396f3af144

Job Details Job Title: Bioinformatics Engineer I PT Hrly Number of Positions: 1 Remaining Positions: 1 Client: CHP State: Pennsylvania Philadelphia 19146 Date Created: 03/12/2024 Date Pending: 03/19/2024 Schedule Notes Hybrid, Primarily Remote Occasional Onsite PT, Minimum 20 Hrs/ Week Average 25/ Week M-F, Normal Working Hours 9-5 EST (Flexible Working Hours Coordinated with the Department Staff) Extension/ Temp to Perm Possible - dependent on grant funding, staffing, approval, dept, performance, etc The grant is open for renewal towards the end of the year, if additional funding is provided there could be a discussion of making this a permanent position Required Skills: • SPECTROMETRY • CLONING • GENOMICS • DATA MANAGEMENT • CELL CULTURE Job Description • See full job description attached* The Bioinformatics Engineer I position is an entry-level position in the support of computational environments focused on the management, transfer, formatting, and general processing of complex data types associated with genomics and proteomics. Whereas the Bioinformatics Scientist is primarily focused on the outcome of an analysis in terms of the scientific endpoint, the Bioinformatics Engineer is primarily focused on the outcome of an analysis in terms of validity, efficiency, and robustness. The focus of the position is basic systems implementation of data manipulation and analysis pipelines, applications, general hardware configurations, and bioinformatics-specific hardware configurations. Bioinformatics programming activities are also included. The Bioinformatics Engineer I primarily operates in a local environment as opposed to enterprise-level. The position allows for a wide variety of activities described within the job responsibilities and encompasses positions within both research and clinical environments. Activities occur with a high degree of supervision with low latitude for independent judgment. The Bioinformatics Engineer I will be introduced to the concepts of best practices in scripting, pipeline workflow development, hardware and software configurations, change controls, quality, sustainability, and documentation. The Bioinformatics Engineer I is primarily focused on supporting bioinformatics analytical groups and individuals as an engineering resource. Job Responsibilities Computational Environment Development and Optimization (70%): Contribute to the maintenance and development of bioinformatics tool portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provide efficient data management support. Implement and maintain commercial and open-source software for common bioinformatics and genomics data analysis. • Work with bioinformatics group members to develop functioning pipelines upstream of customized analysis workflows. • Maintain pipelines by staying current with evolving algorithms and standards and incorporating into pipeline • Execute robust development testing for commonly used applications such as data processing pipelines • Optimize performance of applications by working with scientific computing and information systems groups to optimize hardware/software parameters • Define and prioritize requirements for pipeline development over time to incorporate new technologies and platforms via functional communication with bioinformatics group members and bioinformatics end users • Identify appropriate open-source and commercial products that serve needs of pipeline and/or customized analyses of end users.Implement, update and maintain locally stored data resources required for various analysis tasks. • Provide efficient data management support including file transfers, data formatting and manipulation, and basic integration of data from a variety of experimental and reference resources. Strong UNIX/LINUX expertise required. Experience With R Strongly Preferred. Experience with Python, Perl, or other languages preferred. Experience With Pipeline Or Workflow Development Frameworks Preferred. Experience with data management preferred. Familiarity with open source and commercial bioinformatics resources and software preferred. Experience With Genomic Data Analysis Preferred. Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture preferred. Knowledge of the working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies and awareness of their strengths and weaknesses, as well as applicability to a specific biological problem is preferred. Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases is preferred. Accountability and attention to timelines. Excellent organization and communication skills with an emphasis on strong presentation skills. Ability to work in a team environment. Required Education: Bachelor's Degree Preferred Education, Experience & Cert/Lic Preferred Education: Master's Degree in biological or computational discipline Preferred Experience: Previous experience in applied bioinformatics, computational, and genomics/proteomics areas Level 2A, Covid Vaccination Not Required

Johnson & Johnson Innovative Medicine is recruiting for a Senior Principal Scientist, Bioinformatics, located in Spring House, PA or Titusville, NJ, San Diego, CA, Cambridge, MA At Johnson & Johnson,  we believe health is everything. Our strength in healthcare innovation empowers us to build a  world where complex diseases are prevented, treated, and cured,  where treatments are smarter and less invasive, and  solutions are personal. Through our expertise in Innovative Medicine and MedTech, we are uniquely positioned to innovate across the full spectrum of healthcare solutions today to deliver the breakthroughs of tomorrow, and profoundly impact health for humanity. Learn more at https://www.jnj.com/ . This role is on the Immune Pathway Discovery (IPD) team which is part of Immunology Discovery in the Immunology Therapeutic Area. IPD is a team of bioinformaticians who analyze high dimensional molecular ‘omics data to identify new targets, build disease rationales, predict safe and effective combination regimens and identify patient stratification approaches. IPD supports discovery projects from idea, through preclinical testing and up to the transition to clinical trials. We partner closely with biologists to formulate questions, interpret results and apply the insights we generate to influence the strategic direction of the program. The role will be responsible for traditional analysis projects and leading strategic initiatives with the potential for people management. The successful candidate will have a strong technical background in bioinformatics and established track record of using bioinformatics to drive business impact. Due to the interdisciplinary nature of this role, a mix of outstanding technical, collaboration and communication skills will be critical. The successful candidate will also have strong experience leading interdisciplinary projects in a matrixed environment. Key Responsibilities: • Builds, aligns and executes technical and strategic plans to achieve long-term objectives across multiple programs with complete independence • Substantially impacts discovery strategy through technical expertise and matrixed leadership • Mentors and supports junior scientists and peers • Manages people either directly or through matrixed relationships • Experience and interpersonal skills establish candidate as an therapeutic area-wide subject-matter expert • Effectively communicates technical information to broad audiences • Leverages a strong scientific network to drive portfolio impact

Philadelphia, PA Cabaletta Bio (Nasdaq: CABA) is a clinical-stage biotechnology company focused on the discovery and development of engineered T cell therapies that have the potential to provide a deep and durable, perhaps curative, treatment for patients with autoimmune diseases. The CABA platform encompasses two strategies: the CARTA (chimeric antigen receptor T cells for autoimmunity) strategy, with CABA-201, a 4-1BB-containing fully human CD19-CAR T, as the lead product candidate being evaluated in the RESET (REstoring SElf-Tolerance) clinical trials in systemic lupus erythematosus, myositis, systemic sclerosis and generalized myasthenia gravis, and the CAART (chimeric autoantibody receptor T cells) strategy, with multiple clinical-stage candidates, including DSG3-CAART for mucosal pemphigus vulgaris and MuSK-CAART for MuSK myasthenia gravis. The expanding CABA platform is designed to develop potentially curative therapies that offer deep and durable responses for patients with a broad range of autoimmune diseases. Cabaletta Bio's headquarters and labs are located in Philadelphia, PA. For more information, visit www.cabalettabio.com and follow us on LinkedIn and X (Twitter). Uniquely Differentiated. Rapid. Elegant. At Cabaletta, we are driven by the shared mission of developing cures, where a patients' own cells are used to fight disease. We are building a culture grounded in the knowledge that successful cures can be achieved for patients if every member of the Cabaletta is focused on the success of the team. To nurture this, we make an active commitment to the well-being and continuous growth of each employee who joins the team. In this way, we are not only working to improve the lives of patients, but of everyone involved. #CabalettaCrew. We're proud to be a Great Place to Work-Certified company! #GPTWcertified Check out what our employees say makes working here so great: Working at Cabaletta Bio Inc | Great Place to Work About the Position: Reporting to the Scientist, Computational Biology, we are seeking a highly motivated Computational Biology, Bioinformatics intern. Under scientific and technical supervision, the candidate will assist in analyzing and interpreting biological data, such as high-throughput genomics or transcriptomic data, using statistical methods. The position offers growth in additional areas such as collaborating with cross-functional teams with a common goal to develop life changing therapeutics. Responsibilities: • Process and analyze experimental datasets to extract meaningful insights. • Develop and implement computer programs for data manipulation and analysis. • Write and optimize scripts to streamline bioinformatics workflows. • Engage in programming tasks using languages such as R and Python. • Create visual representations of data to aid in interpretation and presentation. • Collaborate with cross-functional teams to support research objectives. • Regularly communicate with supervisor on progress and obstacles. Qualifications: • Currently enrolled in a BS or MS degree program in a STEM field. • Proficiency in one or more programming languages (R, Python, MATLAB, etc.). • Some experience with in data processing, manipulation, and visualization techniques. • Familiarity with bioinformatics tools and databases is a plus. • Excellent problem-solving abilities and attention to detail. • Effective communication skills and the ability to work in a team environment. Our name - Cabaletta - is derived from the operatic term that represents a rapid, repetitive, and technically challenging section of an operatic aria, designed to showcase the skills of the lead singer. Analogously, Cabaletta Bio strives to achieve rapid and repetitive product development, building on our indication prioritization and biologic platform that targets the driver of specific autoimmune diseases without the need for long-term immunosuppression. For more information, please visit https://www.cabalettabio.com/join-our-crew Our most important asset is our people, and we offer competitive benefits, PTO, and stock option plans. Cabaletta Bio is an equal opportunity employer. We do not discriminate on the basis of race, color, gender, gender identity, sexual orientation, age, religion, national or ethnic origin, disability, protected veteran status or any other basis protected by applicable law. Cabaletta Bio, Inc. does not accept unsolicited resumes from recruiters, employment agencies, or staffing firms. To conduct business with Cabaletta, a Master Services Agreement (MSA) must be executed and confirmed prior to submitting any information relating to a potential candidate. Without a signed MSA, Cabaletta shall not be responsible to any individual or entity for any payment relating to any form of fee or compensation. And, if a resume or candidate is submitted by a recruiter, an employment agency, or a staffing firm without a fully executed MSA, Cabaletta has the unrestricted right to pursue and hire any of those candidate(s) without any legal or financial responsibility to the recruiter, agency, and/or firm.

Not more than 4 years of experience in bioinformatics, data engineering with cloud computing platform.

SHIFT: Day (United States of America) Seeking Breakthrough Makers Children’s Hospital of Philadelphia (CHOP) offers countless ways to change lives. Our diverse community of more than 20,000 Breakthrough Makers will inspire you to pursue passions, develop expertise, and drive innovation. At CHOP, your experience is valued; your voice is heard; and your contributions make a difference for patients and families. Join us as we build on our promise to advance pediatric care—and your career. CHOP’s Commitment to Diversity, Equity, and Inclusion CHOP is committed to building an inclusive culture where employees feel a sense of belonging, connection, and community within their workplace. We are a team dedicated to fostering an environment that allows for all to be their authentic selves. We are focused on attracting, cultivating, and retaining diverse talent who can help us deliver on our mission to be a world leader in the advancement of healthcare for children. We strongly encourage all candidates of diverse backgrounds and lived experiences to apply. A Brief Overview The Genomic Diagnostic Laboratory (GDL) of the Children’s Hospital of Philadelphia is seeking Bioinformatics Engineer I with an interest in laboratory diagnostics to join our team. This is an exciting opportunity to work collaboratively within the bioinformatics team and together with our laboratory directors, supervisors, analysts, genetic counselors, and wet bench team to develop and improve pipelines and other tools to support accurate, timely diagnostic testing that has a direct impact on establishing the diagnosis, prognosis, treatment, and management plan for our patients. The team also supports cutting edge R&D efforts including new clinical test development and clinical research. The position is temporarily remote with the potential for long term remote flexibility. Seasoned professional and new graduate are welcome to apply and will be considered for the position commensurate with their experience. The ideal candidate will have experience in the following: • Software development in Python (including working with Git and writing unit tests) • BASH scripting/Unix command line • Reading and comprehending SQL An ideal candidate will have experience in some of the following: • Developing ETL (Extract/Transform/Load) workflows between SQL databases • Deploying and troubleshooting of Virtual Machines (specifically ones running RHEL OS) • Developing and/or utilizing APIs (either REST-ful or GraphQL-based) • Submission + troubleshooting of HPC jobs via scheduler (slurm, qsub, etc) • Use of open-source tools for processing NGS data (preferably in a reproducible manner via a workflow language such as Snakemake or WDL) • Backend programming (devops) • Full stack development • Ansible and deployment, server management • Human genetics data (next generation sequencing data) The Bioinformatics Engineer II position is a 2nd stage position for those with a moderate level of experience in the support of computational environments focused on the management, transfer, formatting, and general processing of complex data types associated with genomics and proteomics. Whereas the Bioinformatics Scientist is primarily focused on the outcome of an analysis in terms of the scientific endpoint, the Bioinformatics Engineer is primarily focused on the outcome of an analysis in terms of validity, efficiency, and robustness. The focus of the position is implementation of data manipulation and analysis pipelines, applications, general hardware configurations, and bioinformatics-specific hardware configurations. The Bioinformatics Engineer II operates in a mostly local computing environment but may also is also represent the needs of largescale bioinformatics in strategic discussions where those local environments are mapped to enterprise solutions. The position allows for a wide variety of activities described within the job responsibilities and encompasses positions within both research and clinical environments. Activities occur with a moderate degree of supervision with moderate latitude for independent judgment. The Bioinformatics Engineer II will have some experience in best practices as a bioinformatics engineer resource. The Bioinformatics Engineer II is primarily focused on supporting bioinformatics analytical groups and individuals as an engineering domain resource and operational data resource. The Bioinformatics Engineer II must be able to perform all responsibilities listed in the Bioinformatics Engineer I job description. All responsibilities listed in this description are additional. What you will do • Computational Environment Development and Optimization (60%): • Independently manage and evolve local large-scale bioinformatics pipelines. • Independently manage and evolve large-scale bioinformatics high performance computing (HPC) capability primarily at a local level. • Independently manage and evolve process for effectively using enterprise-provided large-scale bioinformatics storage frameworks. • Work with IS and data center staff to ensure the appropriate installation, maintenance, and support of bioinformatics-dedicated hardware, software, and data storage. • Work with IS staff to establish and maintain appropriate levels of availability, response time, and performance of bioinformatics software and systems. • Establish and implement integration and testing procedures following industry best practices for production bioinformatics systems integration and deployment. • Facilitate efficient transfer of bioinformatics data from data sources to data users with benchmarking and data quality checks. • Operationally manage and evolve a robust heterogeneous UNIX, LINUX, OSX environment, including integration with enterprise resources. • Contribute to structured benchmark-based evaluation of new technologies. • Ensure the appropriate installation, maintenance, and support of bioinformatics-dedicated hardware, software, and data storage by collaborating with information systems and data coordination staff. • Implement bioinformatics processing, storage, and manipulation of bioinformatics data in a primarily local environment. • Engage with and participate in discussions related to endor-purchased systems and services usually under supervision. • Provide continuous assessment of commercial and open-source bioinformatics data processing solutions by applying structured benchmark evaluation. • Identify and test application/pipeline defects and fixes. • Troubleshoot data discrepancies. • Collaboration and Mentorship (20%): • Serve as engineering resource on a variety of bioinformatics-focused projects. • Serve as engineering facilitator by assessing all stakeholders, including bioinformatics management, bioinformatics scientists, information systems staff, and principal investigators • Mentor lower tier engineering individuals and groups as needed • Advocate for developed solutions in discussions with external technology owners in order to ensure that enterprise systems allow for freedom of operation. • Documentation and Standardization (20%): • Under supervision, contribute to the development of a formal bioinformatics engineering plan and development roadmap. • Adopts and implements policies and standards for data quality, completeness, and reproducibility. • Adopts and implements policies and standards for performance benchmarking and system stability. • Maintain and audit all documentation required for transparency and reproducibility of operations and any relevant regulations (e.g., CAP, CLIA). Documentation may include configuration, processes, service records, asset inventories, topologies, admin manuals, job instructions, support contacts, and bug/issue tracking. • Install, maintain, and provide technical support for all software installations and associated hardware. Education Qualifications • Bachelor's Degree Required • Master's Degree computational discipline or systems engineering Preferred Experience Qualifications • At least three (3) years production, clinical or research bioinformatics data experience. Required • At least four (4) years production, clinical or research bioinformatics data experience Preferred Preferred Experience: • Four (4) or more years of experience in a production clinical or research bioinformatics data processing role • Experience with backend programming (devops) is preferred • Experience with full stack development is preferred • Experience with Ansible and deployment, server management is preferred • Experience working with human genetics data is preferred Skills and Abilities • Proficient programming in python, Django, SQL and Postgres/MySQL is required. • Strong UNIX/LINUX expertise required • Extensive knowledge of CPU- and IO-intensive bioinformatics data analysis applications • Demonstrated track record of optimizing systems to meet changing performance and load requirements • Extensive knowledge of HPC systems, job management applications, including methods for profiling performance, benchmarking, and optimizing multiple job types and scenarios in bioinformatics data processing • Knowledge and experience with WDL, airflow, buildbot and JavaScript is a plus. • Ability to independently engineer systems relative to larger enterprise framework required • Demonstrated ability to develop and implement best practices for bioinformatics systems integration, testing, and deployment is required • Expert knowledge with cloud computing concepts and applications is required. • Ability to lead discussions with various information systems and technology owners to achieve desired bioinformatics outcomes is required. To carry out its mission, CHOP is committed to supporting the health of our patients, families, workforce, and global community. As a condition of employment, CHOP employees who work in patient care buildings or who have patient facing responsibilities must be fully vaccinated against COVID-19 and receive an annual influenza vaccine. Learn more. Employees may request exemptions for valid religious and medical reasons. Start dates may be delayed until candidates are immunized or exemption requests are reviewed. EEO / VEVRAA Federal Contractor | Tobacco Statement

SHIFT: Day (United States of America) Seeking Breakthrough Makers Children’s Hospital of Philadelphia (CHOP) offers countless ways to change lives. Our diverse community of more than 20,000 Breakthrough Makers will inspire you to pursue passions, develop expertise, and drive innovation. At CHOP, your experience is valued; your voice is heard; and your contributions make a difference for patients and families. Join us as we build on our promise to advance pediatric care—and your career. CHOP’s Commitment to Diversity, Equity, and Inclusion CHOP is committed to building an inclusive culture where employees feel a sense of belonging, connection, and community within their workplace. We are a team dedicated to fostering an environment that allows for all to be their authentic selves. We are focused on attracting, cultivating, and retaining diverse talent who can help us deliver on our mission to be a world leader in the advancement of healthcare for children. We strongly encourage all candidates of diverse backgrounds and lived experiences to apply. A Brief Overview The Bioinformatics Scientist III position is an intermediate level position for a PhD level professional and a final stage position for those with high experience without a PhD. The focus of the position is collaboration-level application of bioinformatics tools and methods to bench and clinical research problems in various biomedical domains. The position allows for a wide variety of activities described within the job responsibilities and encompasses positions within both research and clinical environments. Activities occur with a low degree of supervision with expectation for highly independent judgment, development of bioinformatics workflows and processes, and presentation of results. The Bioinformatics Scientist III will apply best practices in collaborative science as a bioinformatics domain scientific collaborator. Academic output is a focus of this position and is expected with a low degree of supervision. The Bioinformatics Scientist III is primarily focused on taking a lead, proactive scientific role in teams and projects as a bioinformatics domain expert. The Bioinformatics Scientist III must be able to perform all responsibilities listed in the Bioinformatics Scientist II job description. All responsibilities listed in this description are additional. What you will do • Pre-Analysis (10%): Actively participate in the development of application portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provide efficient data management support. • Lead development of additional pipeline functionality and changes by providing knowledge of both collaboration-specific requirements and bioinformatics discipline advances • Coding (10%): Code and generally support code and applications on behalf of collaborative project and/or team. • Master best practices for project-based code development, QC, and execution consist with the expectations of specific collaborations • Lead peer-to-peer code reviews by participating in informal and formal critical code reviews • Data Analysis (30%): Analyze data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data primarily under the direction of the collaborative project team • Lead regular peer-to-peer review of analysis plans in both informal and formal settings • Develop multiple specialty analytical areas that serve one or more collaborative teams • Lead adoption of best practices in specialty analytical or biomedical areas by the bioinformatics group and peers • Collaboration (30%): Lead bioinformatics portion of scientific collaborations as the primary bioinformatics resource • As bioinformatics point, assume management role for projects of low-to-moderate complexity, including all aspects of timelines, risk identification and mitigation strategies, and communication mechanisms • Directly manage all elements of project satisfaction and performance relative to scientific project aims • Promote continual objective, hard discussions about overall health of project and relationship • Develop new collaborations with moderate degree of supervision • Academic Output (20%): Lead project-based presentations, grant sections, and manuscript sections with subsequent review by peers and mentors • Regularly coordinate and write bioinformatics-focused manuscripts and publications • Regularly coordinate and lead podium presentations and posters • Proactively contribute to entire bioinformatics and other sections of grant and award proposals Education Qualifications • Master's Degree Required • Doctorate biological or computational discipline Preferred Experience Qualifications • At least five (5) years experience in applied bioinformatics, genomics, and computational work. This experience can be inclusive of a relevant PhD dissertation. Required Skills and Abilities • Ability to, under supervision, conceive of, plan, implement, validate, and disseminate entire research projects is required. • Ability to assume principal investigator or similar role in academic research is preferred. • Strong UNIX/LINUX expertise required. • Proficiency in R or similar commonly used bioinformatics language required • Experience with Python, Perl, or other languages required. • Experience with pipeline or workflow development frameworks preferred. • Experience with management and analysis of complex data types required. • Proficiency in various open source and commercial bioinformatics resources and software required. • Experience with genomic/proteomic data analysis methods required. • Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture required. • Knowledge of the working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies and awareness of their strengths and weaknesses, as well as applicability to a specific biological problem is required. • Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases is required. • Ability to correctly select and perform statistical tests for most types of genomic data, and to properly interpret their results in the scenario of a specific study is required. • Ability to leverage unique knowledge of bioinformatics, applied biostatistics, molecular biology, and measurement platforms for effective scientific discussion with biologists and clinicians is required. • Ability to determine most favorable academic output as a primary research outcome is preferred. • Ability to objectively critique results and present as valid or questionable, taking into account all aspects of study design, technical issues, and limitations of workflows is required. • Accountability and attention to timelines. • Excellent organization and communication skills with an emphasis on strong presentation skills • Ability to independently plan and execute analyses of moderate complexity required • Ability to provide objective validation of results required • Ability to work in a team environment. To carry out its mission, CHOP is committed to supporting the health of our patients, families, workforce, and global community. As a condition of employment, CHOP employees who work in patient care buildings or who have patient facing responsibilities must be fully vaccinated against COVID-19 and receive an annual influenza vaccine. Learn more. Employees may request exemptions for valid religious and medical reasons. Start dates may be delayed until candidates are immunized or exemption requests are reviewed. EEO / VEVRAA Federal Contractor | Tobacco Statement

This Position is Fully Grant Funded School of Medicine Established in 1930, Duke University School of Medicine is the youngest of the nation's top medical schools. Ranked sixth among medical schools in the nation, the School takes pride in being an inclusive community of outstanding learners, investigators, clinicians, and staff where interdisciplinary collaboration is embraced and great ideas accelerate translation of fundamental scientific discoveries to improve human health locally and around the globe. Composed of more than 2,600 faculty physicians and researchers, nearly 2,000 students, and more than 6,200 staff, the Duke University School of Medicine along with the Duke University School of Nursing, and Duke University Health System comprise Duke Health, a world-class academic medical center. The Health System encompasses Duke University Hospital, Duke Regional Hospital, Duke Raleigh Hospital, Duke Health Integrated Practice, Duke Primary Care, Duke Home Care and Hospice, Duke Health and Wellness, and multiple affiliations. Bioinformatician II Summary We are looking for a talented and motivated individual to work with teams of Researchers and Scientists providing bioinformatics expertise, consulting, application development, and support as part of the Duke Predictive Modeling Center (PMC), an NHGRI-funded center with the Impact of Genomic Variation on Function (IGVF) Consortium. Work performed • Contribute to the design, development, adaptation, implementation, and testing of neural networks that are used for predictive modeling of genomic data. Work involved with require increased independence of identifying and implementing solutions with some leadership and supervisory activities. (30%) • Train predictive models using machine learning approaches and technologies. This might include not only writing new code but repackaging and documenting existing scripts to make them reusable and easy to maintain. Work will include training increasingly complex models and will require navigating dynamic computing environments. (25%) • Collaborate and consult with researchers individually or in small groups to analyze problems, recommend technology-based solutions, and design computational strategies for a wide range of biological research. Initiate interdisciplinary collaborations with other centers or departments within the Duke PMC and in collaboration with other research teams with the IGVF consortium. (20%) • Recommend new methods, strategies, and improvements to incorporate into existing models. Try latest tools and analysis methods for new non-conventional genomic data (e.g. CRISPR screens), evaluating their fit and gradually incorporating them into existing analysis pipelines. (15%) • Provide training on bioinformatics-related concepts, applications, and tools to researchers across the PMC and relevant teams within the IGVF. Design and participate in hands-on workshops to teach scientists how to use predictive models and associated neural networks so that these resources are accessible to other groups. (10%) Skills • Experience working with high throughput sequencing datasets (e.g. RNA-seq, ChIP-seq, ATAC-seq, etc.). • Strong and demonstrable programming skills in Python, Tensorflow, and/or R. • Experience with independently identifying solutions and ability to investigate and learn new approaches necessary to adapt existing or new models. • Experience with collaborative development environments, including management of shared repositories (github). • Good communication skills; run and deliver results in a clear and precise way. • Familiarity with High Performance Computing clusters (e.g. SLURM, PBS), including computing environments constructed with CPUs and GPUs. • Familiarity with workflow languages (e.g. CWL, WDL). Education Work requires a M.S. in Bioinformatics or the biological sciences with demonstrable computational skills or a M.S. in computer science with a strong interest in biology/genomics. PhD preferred. Experience Strong expertise with programming required. Minimum Qualifications Education Work requires a M.S. in Bioinformatics or the biological sciences with demonstrable computational skills or a M.S. in computer science with a strong interest in biology/genomics. PhD preferred. Experience Work requires at least 2 years of experience in bioinformatics. OR AN EQUIVALENT COMBINATION OF RELEVANT EDUCATION AND/OR EXPERIENCE Experience with web-based bioinformatics tools, public domain biological databases and software tools for sequence, domain and structural analysis. Extensive familiarity with and development of computational tools in biology that use genomic data to generate biological hypotheses. Experience with a procedural language, proficient in Java, Perl, 'C', web design, DNA genome informatics, proteomics informatics, statistics, and computer science. Experience with relational databases and SQL helpful. Duke is an Affirmative Action/Equal Opportunity Employer committed to providing employment opportunity without regard to an individual's age, color, disability, gender, gender expression, gender identity, genetic information, national origin, race, religion, sex, sexual orientation, or veteran status. Duke aspires to create a community built on collaboration, innovation, creativity, and belonging. Our collective success depends on the robust exchange of ideas—an exchange that is best when the rich diversity of our perspectives, backgrounds, and experiences flourishes. To achieve this exchange, it is essential that all members of the community feel secure and welcome, that the contributions of all individuals are respected, and that all voices are heard. All members of our community have a responsibility to uphold these values. Essential Physical Job Functions: Certain jobs at Duke University and Duke University Health System may include essentialjob functions that require specific physical and/or mental abilities. Additional information and provision for requests for reasonable accommodation will be provided by each hiring department.

The Agricultural Research Service (ARS) is the United States Department of Agriculture's chief scientific research agency and one of the world's premiere scientific organizations. ARS Postdoctoral Research Associates are hired to supplement a lead scientist's research on agricultural problems of high national priority affecting American agriculture. • *ANNOUNCEMENT IS OPEN UNTIL FILLED OR DECEMBER 14, 2024

The Senior Bioinformatics Research Scientist performs data analysis, data visualization, statistical analysis, experimental design, database development, mathematical modeling, and novel method development. Provides bioinformatics analysis for investigators and communicates analytical process and results. The lab of Jeremy Chase Crawford in the Department of Host-Microbe Interactions is seeking a highly skilled Sr. Bioinformatics Research Scientist focused on Integrative Analysis. This position will work at the cross-section of immunology, development of next-generation and multi-omic molecular methods, and integrative analytics to better our understanding of childhood immune development, immune perturbation from disease and treatment, and host-pathogen interactions. As a key stakeholder in these efforts, you will utilize your expertise in molecular, cellular, and computational biology to advance a multi-disciplinary and highly collaborative research program. One major focus of analysis will be on large NGS datasets obtained from single-cell approaches, with a particular emphasis on aligning data obtained from in-house R&D efforts to in-house generated gold-standard datasets; in that regard, you will work closely with wet lab scientists to design experiments, generate data, and develop and apply pipelines for rapid validation of novel molecular assays. Another key responsibility will be leading the integration and interpretation of multi-modal data (e.g., single-cell and bulk gene expression, single-cell and bulk proteomics, and genotypes) in close collaboration with research stakeholders. The ideal candidate will be highly motivated and detail-oriented with an interest in immunology, integrative biology, molecular assay development, and computational research infrastructure. Excellent communication and organizational skills are required. Success in this position also requires: the ability to multi-task, the ability to collaborate effectively, and working in tandem with multiple members of a culturally and scientifically diverse team to achieve assigned research objectives. Candidates with experience in the following are especially encouraged to apply: • Single-cell transcriptomics and/or multi-omics data generation and analysis • Multimodal analysis of large datasets • Database design and management Job Responsibilities: • Provide research support and deliver high-quality results by formulating an efficient analytical approach with the available data. • Deliver data files, and document the analytical process. May participate in manuscript preparation at project's conclusion. • Assist with establishing and documenting protocols or best practices for common research tasks, and in the formulation of analytical plans that use the best approach to address challenging data analysis questions. • Assist in the evaluation and testing of new methods and technologies. • Contribute ideas to automate or improve existing analysis methods. Implement the improvement or work with others to do so. • Participate in the department's developmental projects and interdepartmental team projects. • Perform other duties as assigned to meet the goals and objectives of the department and institution. • Maintains regular and predictable attendance. Minimum Education and/or Training: • Bachelor's degree in bioinformatics, cheminformatics, statistics/computer science (with a background in biological sciences or chemistry) or related field. • Master's degree or PhD preferred. Minimum Experience: • Minimum Requirement: Bachelor's degree with 7+ years of relevant post-degree work in bioinformatics, cheminformatics, statistics/computer science (with a background in biological sciences or chemistry). • Experience Exception: Master's degree with 5+ years of relevant post-degree experience (OR) PhD with 2+ years of relevant post-degree experience. • Significant experience in at least one programming or scripting language and at least one statistical package, with R preferred. Compensation In recognition of certain U.S. state and municipal pay transparency laws, St. Jude is including a reasonable estimate of the compensation range for this role. This is an estimate offered in good faith and a specific salary offer takes into account factors that are considered in making compensation decisions including but not limited to skill sets, experience and training, licensure and certifications, and other business and organizational needs. It is not typical for an individual to be hired at or near the top of the salary range and compensation decisions are dependent on the facts and circumstances of each case. A reasonable estimate of the current salary range is $104,000 - $186,160 per year for the role of Senior Bioinformatics Research Scientist – Integrative Analysis (Crawford Lab). Explore our exceptional benefits! Diversity, Equity and Inclusion St. Jude Children’s Research Hospital has a diverse, global patient population and workforce, built on the principles of diversity, equity and inclusion. Our founder Danny Thomas envisioned a hospital that would treat children of the world—regardless of race, religion or a family’s ability to pay. Learn more about our history and commitment. Today, we continue the mission to advance cures and means of prevention for pediatric catastrophic diseases through research and treatment. As we accelerate this progress globally, we believe our legacy of diversity, equity and inclusion is foundational to success. With the commitment of leaders at all levels of the organization, we strive to ensure the St. Jude culture, leadership approaches and talent processes are equitable and culturally responsive. View our Diversity, Equity and Inclusion Report to learn about the hospital’s roots in diversity, equity and inclusion, where we are today and our aspirations for an even better future. St. Jude is an Equal Opportunity Employer No Search Firms St. Jude Children's Research Hospital does not accept unsolicited assistance from search firms for employment opportunities. Please do not call or email. All resumes submitted by search firms to any employee or other representative at St. Jude via email, the internet or in any form and/or method without a valid written search agreement in place and approved by HR will result in no fee being paid in the event the candidate is hired by St. Jude.