Bioinformatics Jobs

POSITION RESPONSIBILITIES We are looking for a motivated and experienced Bioinformatics Analyst to join Dr. Robert Burk’s research group. This role is critical for supporting our ongoing research projects focused in 2 areas- the human microbiome (gut, oral and cervicovaginal), and human papillomavirus related to cervix neoplasia. The ideal candidate will have a background in epidemiology, computer science, bioinformatics, or related disciplines, with practical demonstrated experience in processing next-generation sequencing (NGS) data. The successful candidate will demonstrate a willingness and eagerness to adapt to new approaches, as the field of bioinformatics is dynamic and constantly evolving. Key Responsibilities in order of priority: • NGS Data Handling: Perform demultiplexing and analysis of NGS data using barcoding primers for multiplex NGS runs. • Practical Experience: The candidate is expected to have practical experience with bioinformatics work (handling NGS reads off the machine, etc.) and be willing and eager to adapt to new approaches. This role will be facilitated with a proactive attitude towards learning and applying new bioinformatics methods and technologies. • Data Processing and Analysis: Utilize existing pipelines to process and analyze high-throughput sequencing data reads, including amplicon sequencing, bisulfite sequencing, metagenomics, and viral integration. • Data Management: Manage and organize bioinformatics sequencing data for our research group, including papillomavirus sequences, microbiome data (16S, ITS1 and shotgun metagenomics), and human genomic data. • Large Dataset Management: Download and handle large Fastq, BAM, and/or Fasta files for analyses. • Software Utilization and Script Modification: Use existing software tools and be able to modify R scripts to generate figures and perform epidemiological analyses. • Phylogenetic Analysis: Construct phylogenetic trees to support ongoing research projects. • Collaboration and Reporting: Work closely with and report directly to Robert D. Burk, M.D., Principal Investigator, and collaborate with other lab members generating NGS data. QUALIFICATIONS • Educational Background: Bachelor’s degree with at least one year of experience in epidemiology, computational biology, or bioinformatics. • Technical Skills: Proficiency in R or Python is required. Experience in microbiome bioinformatic processing is preferred. • Communication Skills: Ability to speak clearly and express oneself well in one-on-one conversations and groups. Develops effective written communications and uses them appropriately. Ability to present at weekly lab meetings using PowerPoint or other presentation programs. • Interpersonal Skills: Interacts and proactively shares information with internal and external contacts where appropriate. Develops effective professional relationships with peers, students, and employees. • Responsibility and Problem-Solving: Assumes responsibility to ensure issues/concerns are addressed and monitors them through to conclusion. Identifies, defines, and analyzes information and situations before recommending a course of action. • Time Management: Effectively manages own time and resources. • Innovation and Technology: Seeks to apply technology and innovation to improve efficiency and solve problems related to the goals of the research group. Minimum Salary Range USD $58,500.00/Yr. Maximum Salary Range USD $65,000.00/Yr.

Assistant Professor Tenure Track Immunogenetics and Bioinformatics at Childrens Hospital of Philadelphia (CHOP) Perelman School of Medicine - Pathology and Laboratory Medicine Location: Philadelphia, PA Open Date: Sep 28, 2021 Deadline: Sep 28, 2023 at 11:59 PM Eastern Time Children's Hospital of Philadelphia and the Department of Pathology and Laboratory Medicine at the Perelman School of Medicine at the University of Pennsylvania seek candidates for an Assistant Professor position in the tenure track. Expertise is required in the specific area of Immunogenetics and Bioinformatics, with demonstrated excellence in research, clinical service, and teaching. The successful applicant will develop and harness computational and big data approaches to drive biological discoveries and medical innovations. Computational biologists who incorporate wet lab research programs are welcome to apply. Applicants must be American College of Histocompatibility & Immunogenetics certified, or board eligible. Applicants must have an M.D. or equivalent degree. Teaching responsibilities may include establishing and maintaining an independent, extramurally funded research program, and teaching and mentoring graduate and medical students. Clinical responsibilities may include serving as Assistant Director for, and signing out cases in, the Clinical Immunogenetics Laboratory of the Children's Hospital of Philadelphia. Research or scholarship responsibilities may include advanced image analyses, machine learning approaches to laboratory data, and integration of disparate data sets into supervised learning models.". The position is affiliated with the newly founded Center for Computational and Genomic Medicine (CCGM) at the Children's Hospital of Philadelphia. CCGM is housed in the state-of-the-art Colket Translational Research Building. A generous recruitment package and lab space will be provided, together with excellent institutional and core research resources. The recruitment is part of a campus-wide initiative to promote innovative computational strategies for advancing human health and therapy development. We seek candidates who embrace and reflect diversity in the broadest sense. The University of Pennsylvania and Children's Hospital of Philadelphia are EOEs. Minorities/women/individuals with disabilities/protected veterans are encouraged to apply. To apply, visit https://apply.interfolio.com/94529 The University of Pennsylvania values diversity and seeks talented students, faculty and staff from diverse backgrounds. The University of Pennsylvania is an equal opportunity and affirmative action employer. Candidates are considered for employment without regard to 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. Questions or concerns about this should be directed to the Executive Director of the Office of Affirmative Action and Equal Opportunity Programs, University of Pennsylvania, 421 Franklin Building, 3451 Walnut Street, Philadelphia, PA 19104-6205; or (215) 898-6993 (Voice) or (215) 898-7803 (TDD). Copyright ©2021 Jobelephant.com Inc. All rights reserved. Posted by the FREE value-added recruitment advertising agency jeid-17f25d524152d542be0423e3549066e2

Job Description Please make sure you read the following details carefully before making any applications. At Genmab, we’re committed to building extra not ordinary futures together, by developing antibody products and pioneering, knock-your-socks-off therapies that change the lives of patients and the future of cancer treatment and serious diseases. From our people who are caring, candid, and impact-driven to our business, which is innovative and rooted in science, we believe that being proudly unique, determined to be our best, and authentic is essential to fulfilling our purpose. The Role The successful candidate will contribute to the mission of the global data engineering function and be responsible for many aspects of data including creation of data-as-a-product, architecture, access, classification, standards, integration, and pipelines. Although your role will involve a diverse set of data-related responsibilities, your key focus will be on the creation of bioinformatics pipelines to process bulk and single cell genomics and transcriptomics data for the enablement and downstream interpretation of Translational and Quantitative Sciences functions, including Data Science, Translational Medicine, Precision Medicine, and Translational Research. You will have a balance of subject matter expertise in life science data, terminology and processes and technical expertise for hands-on implementation. You will be expected to create workflows to standardize and automate data, connect systems, enable tracking of data, implement triggers and data cataloging. With your experience in the Research domain, you will possess knowledge of diverse assay types such as IHC, flow cytometry, cytokine data, but specialize in genomics and transcriptomics. Your ultimate goal will be to place data at the fingertips of stakeholders and enable science to go faster. You will join an enthusiastic, agile, fast-paced and explorative global data engineering team. Responsibilities • Design, implement and manage ETL data pipelines that process and transform vast amounts of scientific data from public, internal and partner sources into various repositories on a cloud platform (AWS) • Incorporate bioinformatic tools and libraries to the processing pipelines for omics assays such as bulk and single cell RNASeq • Enhance end-to-end workflows with automation that rapidly accelerate data flow with pipeline management tools such as Step Functions, Airflow, or Databricks Workflows in combination with specialized bioinformatics pipeline tools such as WDL, Nextflow, or Snakemake • Implement and maintain bespoke databases for scientific data (RWE, in-house labs, CRO data) and consumption by analysis applications and AI products • Innovate and advise on the latest technologies and standard methodologies in Data Engineering and Data Management, including recent advancements with GenAI, and latest bioinformatics tools, modules and techniques in RNA sequencing analysis • Manage relationships and project coordination with external parties such as Contract Research Organizations (CRO) and vendor consultants / contractors • Define and contribute to data engineering practices for the group, establishing shareable templates and frameworks, determining best usage of specific cloud services and tools, and working with vendors to provision cutting edge tools and technologies • Collaborate with stakeholders to determine best-suited data enablement methods to optimize the interpretation of the data, including creating presentations and leading tutorials on data usage as appropriate • Apply value-balanced approaches to the development of the data ecosystem and pipeline initiatives • Proactively communicate data ecosystem and pipeline value propositions to partnering collaborators, specifically around data strategy and management practices • Participate in GxP validation processes Requirements • BS / MS in Computer Science, Bioinformatics, or a related field with 5+ years of software engineering experience (8+ years for senior role) or a PhD in Computer Science, Bioinformatics or a related field and 2+ years of software engineering experience (5+ years for senior role) • Excellent skills and deep knowledge of ETL pipeline, automation and workflow managements tools such as Airflow, AWS Glue, AWS Step Functions, and CI / CD is a must. Strong preference specifically for AWS Step Functions and Lambda. Excellent skills with bioinformatics pipeline tools and troubleshooting for quality such as Snakemake, WDL, and Nextflow. Strong preference for Nextflow. Excellent skills and deep knowledge in Python, Pythonic design and object-oriented programming is a must, including common Python libraries such as pandas. Experience with R a plus • Excellent understanding of different bioinformatics modules and databases such as STAR, HISAT2, featureCounts, fastQC, RSeQC and Cell Ranger and how they’re used on different types of genomic and transcriptomic data such as single cell transcriptomics • Solid understanding of modern data architectures and their implementation offerings such as Databricks’ Delta Tables, Athena, Glue, Iceberg, and their applications to Lakehouse and medallion architecture. • Experience working with clinical data and understanding of GxP compliance and validation processes • Proficiency with modern software development methodologies such as Agile, source control, project management and issue tracking with JIRA • Proficiency with container strategies using Docker, Fargate, and ECR • Proficiency with AWS cloud computing services such as Lambda functions, ECS, Batch and Elastic Load Balancer and other compute frameworks such as Spark, EMR, and Databricks. Strong preference for experience with AWS Omics. For US based candidates, the proposed salary band for this position is as follows : $114,375.00 $190,625.00 The actual salary offer will carefully consider a wide range of factors, including your skills, qualifications, experience, and location. Also, certain positions are eligible for additional forms of compensation, such as bonuses. About You • You are passionate about our purpose and genuinely care about our mission to transform the lives of patients through innovative cancer treatment • You bring rigor and excellence to all that you do. You are a fierce believer in our rooted-in-science approach to problem-solving • You are a generous collaborator who can work in teams with diverse backgrounds • You are determined to do and be your best and take pride in enabling the best work of others on the team • You are not afraid to grapple with the unknown and be innovative • You have experience working in a fast-growing, dynamic company (or a strong desire to) • You work hard and are not afraid to have a little fun while you do so Locations Genmab leverages the effectiveness of an agile working environment, when possible, for the betterment of employee work-life balance. Our offices are designed as open, community-based spaces that work to connect employees while being immersed in our state-of-the-art laboratories. Whether you’re in one of our collaboratively designed office spaces or working remotely, we thrive on connecting with each other to innovate. About Genmab Genmab is an international biotechnology company with a core purpose guiding its unstoppable team to strive towards improving the lives of patients through innovative and differentiated antibody therapeutics. For more than 20 years, its passionate, innovative and collaborative team has invented next- antibody technology platforms and leveraged translational research and data sciences, which has resulted in a proprietary pipeline including bispecific T-cell engagers, next- immune checkpoint modulators, effector function enhanced antibodies and antibody-drug conjugates. To help develop and deliver novel antibody therapies to patients, Genmab has formed 20+ strategic partnerships with biotechnology and pharmaceutical companies. By 2030, Genmab’s vision is to transform the lives of people with cancer and other serious diseases with Knock-Your-Socks-Off (KYSO) antibody medicines. Established in 1999, Genmab is headquartered in Copenhagen, Denmark with locations in Utrecht, the Netherlands, Princeton, New Jersey, U.S. and Tokyo, Japan. Our commitment to , equity, and We are committed to fostering workplace at all levels of the company and we believe it is essential for our continued success. Learn more about our commitments on our website. Genmab is committed to protecting your personal data and privacy. Please see our privacy policy for handling your data in connection with your application on our website https : / / www.genmab.com / privacy. Please note that if you are applying for a position in the Netherlands, Genmab’s policy for all permanently budgeted hires in NL is initially to offer a fixed-term employment contract for a year, if the employee performs well and if the business conditions do not change, renewal for an indefinite term may be considered after the fixed-term employment contract. J-18808-Ljbffr Last updated : 2024-08-08

job summary: The postdoctoral researcher (one year term, may extend) is a key member of the data science organization. This individual will be responsible for developing, implementing and utilizing state-of-the-art AI/ML-based algorithms to processing, analyzing and interpreting images or similar data derived from a variety of imaging modalities and platforms, including but not limited to histopathological slides, radiological image data and others to classify, segment, characterize, or predict patient outcomes, biomarker status, or disease. This individual will take part in discussions and present their work to the team and relevant stakeholders. location: Telecommute job type: Contract salary: $40.00 - 42.11 per hour work hours: 9 to 5 education: Doctorate responsibilities: - Utilize cutting-edge technology for the analysis of images or similar data derived from a variety of imaging modalities and platforms. - Devise AI/ML approaches to develop image analysis solutions for biomarker discovery in oncology and neurosciences. - develop and validate AI model(s) that use feature embeddings to predict molecular/gene signatures from histopathology whole slide images. - Compile data and present at internal/external meetings. qualifications: Required Knowledge, Skills, and Abilities - Strong expertise in developing and validating machine learning and AI techniques for image-like data. - Programming experience (python/MATLAB/C/C++). - Experience using high-performance compute clusters to train and deploy deep models. - Experience with statistics and data analysis/visualization of multi-dimensional data. Required/Preferred Education and Licenses - PhD in Computer Science, Electrical Engineering, Biomedical Engineering, Data Science, Bioinformatics, computational biology or other related field with relevant imaging analysis experiences. skills: Data Analysis, Biostatistical Analysis, Electrical Engineering Equal Opportunity Employer: Race, Color, Religion, Sex, Sexual Orientation, Gender Identity, National Origin, Age, Genetic Information, Disability, Protected Veteran Status, or any other legally protected group status. At Randstad, we welcome people of all abilities and want to ensure that our hiring and interview process meets the needs of all applicants. If you require a reasonable accommodation to make your application or interview experience a great one, please contact HRsupport@randstadusa.com. Pay offered to a successful candidate will be based on several factors including the candidate's education, work experience, work location, specific job duties, certifications, etc. In addition, Randstad offers a comprehensive benefits package, including health, an incentive and recognition program, and 401K contribution (all benefits are based on eligibility). This posting is open for thirty (30) days.

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