Bioinformatics Jobs

Postdoctoral positions to study spatiotemporal regulation of CD4 T cell effector function The Fowell lab focuses on mechanisms of CD4 effector function, in situ, in inflamed and infected tissues. We utilize intravital multiphoton imaging, optogenetics and single cell analysis to determine context-specific cues that enhance or regulate CD4 T cell effector function (Th1, Th2, Tfh). Postdoctoral... positions are available for a number of projects, including but not limited to: Determining how the inflammatory milieu in infected tissues shapes the transcriptional and epigenetic programming of effector function Development of spatial transcriptomics approaches to determine how tissue location impacts function in infected tissues Positional cues (chemokines, ECM, pathogen foci) that regulate the entry, retention and exit of effector T cells at inflamed sites using optogenetic models to mark T cells in time and space. Meet the Fowell Lab, https://www.fowelllab.org Qualifications and CompensationApplicants must have a Ph.D., M.D., D.V.M., or equivalent advanced degree. Prior immunology experience is preferred, but not essential. Candidates with imaging or bioinformatics expertise who are looking to apply quantitative tools to the study of immune responses in health and disease are encouraged to apply. The PI is committed to supporting the candidate’s career development and research progress, including the exploration of new project areas and collaborations. Competitive salaries are set above the NIH guidelines, with excellent benefits. Highly Dynamic and Multidisciplinary EnvironmentSuccessful postdocs will join a highly collaborative research group within the Department of Microbiology and Immunology and the Cornell Center for Immunology. The positions offer the chance to contribute to a multidisciplinary and cutting-edge research community with opportunities to collaborate closely with experts in immunology, bioinformatics and biomedical engineering, including advanced hyperspectral and 3-photon imaging programs. Diversity and InclusionFor over 150 years Cornellians have been striving to create a welcoming and inclusive learning environment. Ezra Cornell’s founding principles stipulate that Cornell is an institution for “… any person … any study,”. In support of this founding principal, we strongly encourage under-represented minorities and persons from marginalized communities to apply. The University has a Dual Career program to assist candidates and their partners with career searches.Ithaca is “Gorges”Cornell University is located in Ithaca NY, in the heart of the beautiful Finger Lakes region of New York State. The Ithaca area offers over 150 waterfalls and is one of the premier wine regions of the US bosting over 100 wineries.How to ApplyPlease send a cover letter and curriculum vitae to Dr. Deborah Fowell, djf273@cornell.edu

When you’re part of the team at Thermo Fisher Scientific, you’ll do important work, like helping customers in finding cures for cancer, protecting the environment or making sure our food is safe. Your work will have real-world impact, and you’ll be supported in achieving your career goals. Staff Scientist, Bioinformatics... South San Francisco, CA | Clinical Next-Generation Sequencing Division How will you make an impact? You will be an integral part of an enthusiastic and dedicated team of scientists, engineers working towards cutting edge scientific solutions in Bioinformatics of Next Generation Sequencing (NGS). What will you do? • Representing software in program core team and interacting with colleagues from diverse functions such as molecular biologist, algorithm developers and product manager. Able to translate custom needs to software product requirements and product specifications. Able to track project timelines and complete all needed documentations. • Developing test plans and test cases to verify and validate software product requirements and specifications. • Algorithm testing for NGS data analysis pipelines. • Developing verification tools to increase testing automation coverage. • Troubleshooting for build deployment, resource management, and job scheduling and analysis pipeline. • Leading a project and driving the project to completion. Education: MS. or higher in Computer Science/engineering, Bioinformatics, Biomedical engineering, Statistics, EE or related fields, and 5+ Years related experience. Experience • Diverse knowledge and experiences of developing NGS applications. • Experiences of bioinformatics tools and algorithms used in NGS analysis. • Experiences in software design and development. Good understanding of software testing best-practices. • Software development skills and experience with Java, Python, Perl with 5+ year experience. • Strong expertise on Linux/Unix environment. • Experiences of relational database. Knowledge, Skills, Abilities • Demonstrated leadership in leading project completion. Good communication skills with scientists, engineers and software developers. • Must be detail oriented and self-driven. Desired Qualification: • Java programming skills in highly desired. • Hands-on experience with software automation testing. ACCESSIBILITY/DISABILITY ACCESS Job Seekers with a Disability: Thermo Fisher Scientific offers accessibility service for job seekers requiring accommodations in the job application process. For example, this may include individuals requiring assistance because of hearing, vision, mobility, or cognitive impairments. If you are a job seeker with a disability, or assisting a person with a disability, and require accessibility assistance or an accommodation to apply for one of our jobs, please submit a request by telephone at 1-855-471-2255*. Please include your contact information and specific details about your required accommodation to support you during the job application process. • This telephone line is reserved solely for job seekers with disabilities requiring accessibility assistance or an accommodation in the job application process. Messages left for other purposes, such as not being able to get into the career website, following up on an application, or other non-disability related technical issues will not receive a response

The Position Roche Sequencing Solutions (RSS), a business within Roche Diagnostics, is focused on developing a disruptive Next-Generation Sequencing (NGS) platform along with a portfolio of reagents, assays and informatics solutions for multiple disease areas. We are looking for a Principal Bioinformatics Scientist I/II to support assay development efforts. In this role, you will apply your... strong background in next-generation sequencing data analysis, clinical diagnostics, and molecular biology to analyze sequencing data aimed at developing laboratory methods and algorithms for IVD assays. You will collaborate closely with molecular biologists, software engineers and bioinformatics scientists to create products that will impact patient care for many years to come. RESPONSIBILITIES • Partner closely with molecular biology, engineering, and other bioinformatics teams to perform all aspects of bioinformatics data analysis including experimental design, data collection, QC, algorithm design, analysis & visualization, and communication of results. • Serve as bioinformatics functional representative on project teams providing input and guidance on bioinformatics related matters. • Recommend next steps for bioinformatics pipeline and laboratory workflow protocols to meet product development objectives. • Transfer new products to production teams and provide scientific support for on-market products. • Present and communicate project updates across multiple functions in the organization. • Create documentation of bioinformatics deliverables for scientific, marketing, and regulatory purposes. QUALIFICATIONS • PhD in Bioinformatics, Computational Biology, Computer Science, or Statistics, or other quantitative field combined with 4+ years experience analyzing large complex genomic datasets, or equivalent combination of education and experience. • Demonstrated experience delivering sequencing based clinical diagnostic products supporting both laboratory technology and bioinformatics pipeline development. • Prior experience developing RUO & IVD products is preferred. • In depth knowledge of sequencing molecular biology, bioinformatics tools, statistical methods, and cancer biology. • Proficient with programming languages (R, Python, Java) in a distributed Linux environment. • Skilled in data analysis and visualization techniques. • Hands-on experience using a workflow management system such as Nextflow or Snakemake. • Result-oriented individual that thrives in collaborative multi-disciplinary teams. Excels at incorporating feedback in a professional manner. • Strong written and verbal communication skills with ability to adjust to technical and non-technical audiences. • Committed to delivering high quality clinical products. Who We Are At Roche, we are passionate about transforming patients’ lives, and we are bold in both decision and action - we believe that good business means a better world. That is why we come to work every single day. We commit ourselves to scientific accuracy, unassailable ethics, and access to medical innovations for all. We do this today to build a better tomorrow. Are you seeking a meaningful job? Then come aboard! Roche is an equal opportunity employer and strictly prohibits unlawful discrimination based upon an individual’s race, color, religion, gender, sexual orientation, gender identity/expression, national origin/ancestry, age, mental/physical disability, medical condition, marital status, veteran status, or any other characteristic protected by law. Who we are At Roche, more than 100,000 people across 100 countries are pushing back the frontiers of healthcare. Working together, we’ve become one of the world’s leading research-focused healthcare groups. Our success is built on innovation, curiosity and diversity. Unless entitled to a reasonable accommodation under applicable law, employees are required to be fully vaccinated against COVID-19 in accordance with customer requirements, the company’s health and safety obligations and/or applicable law or guidelines. Roche is an equal opportunity employer and strictly prohibits unlawful discrimination based upon an individual’s race, color, religion, gender, sexual orientation, gender identity/expression, national origin/ancestry, age, mental/physical disability, medical condition, marital status, veteran status, or any other characteristic protected by law. If you have a disability and need an accommodation in connection with the on-line application process, please email us at US.Accommodation@roche.com. Job Level: Individual contributor

At Nautilus, we have a big and important mission: improve the health of millions by unleashing the potential of the proteome to accelerate drug development and enable a new world of precision and personalized medicine. We are developing a single-molecule protein analysis platform of unprecedented sensitivity, scale, and ease of use that we believe will democratize access to the proteome – one of... the most dynamic and valuable sources of biological insight. To accomplish this, we are pursuing hard scientific problems with an entrepreneurial mindset and creating a world-class team of builders, innovators, and dreamers across a wide range of disciplines. We are looking for a Senior Bioinformatics Scientist to join our Bioinformatics team. Your work will focus on development of new data acquisition and analytics approaches to be incorporated in future iterations of Nautilus instrumentation. To that end, you will work together with the Platform Integration experimental team to support all phases of research from ideation through proof-of-concept. The role is highly collaborative; success is measured by the degree to which you elevate the capabilities of your peers in pursuit of scientific insight. Frequent activities in this role include consulting with experimentalists on experimental design, implementing data visualizations and statistical approaches to answer key experimental questions, building pipelines to automate common analysis tasks, and designing databases to organize experimental data and enable longitudinal analysis. This role reports to the Associate Director of Bioinformatics and is based in San Carlos, CA

Surrozen is a biotechnology company focused on discovering and developing novel regenerative medicines with a focus on unlocking the powerful self-renewal properties of the body through specific control of the Wnt signaling pathway. Our vision is to engage the body's own biological tissue repair mechanisms with our targeted regenerative antibodies, overcoming research and development hurdles... that have been previously intractable, and have held back drug development efforts in the promising area of Wnt biology. Bioinformatics Research Associate Surrozen is recruiting a Research Associate to be involved in the design and analysis of experiments that apply high-throughput technologies such as single-cell and single-nuclear RNA-sequencing and spatially resolved transcriptomics to mechanism of action and biomarker discovery efforts. In this role you will also explore innovative approaches to combining data from multiple experimental modalities to inform discovery efforts and therapeutic development. This is an exciting opportunity to work with state-of-the-art techniques and analytical approaches on intriguing and challenging biological questions. The preferred candidate will bring enthusiasm, intellectual curiosity, critical thinking, scientific integrity, and a desire to understand biological principles of developing regenerative medicine therapeutics. Responsibilities • Analyze complex in-house scRNA-seq data with multiple experimental conditions in a range of tissues to contribute to mechanism of action and biomarker studies • Interrogate in-house and public bioinformatics data such as functional genomics ( e.g ., RNA-seq, scRNA-seq, spatially resolved transcriptomics, ATAC-seq, Chip-seq) and imaging data • Conduct rigorous, thorough analyses following best practices and using state-of-the-art approaches • Compose detailed analytical reports, concise and clear key summaries, and quality visualizations • Collaborate with scientists who work at the bench and interact closely with others doing bioinformatics analyses • Bachelor's or Master's in Bioinformatics, Biostatistics, Genomics, Computational Biology, or other relevant quantitative field required • Strong background in biology • At least one year of relevant experience (including graduate school) in biomedical data analysis • Demonstrated success analyzing bioinformatics data, especially RNA-seq and/or scRNA-seq is required • Experience working independently on analysis problems and also working collaboratively with biologists to understand critical questions and context • Fluent in relevant languages for data analysis (R required, Python) • Experience with Bioconductor packages and workflows We are an Equal Opportunity Employer offering a competitive salary and benefits

SENIOR BIOINFORMATICS SOFTWARE ENGINEER $150,000-$180,000... SAN FRANCISCO, CA THE COMPANY This series A biotech company is looking for a Bioinformatics Software Engineer to join their growing team in the Bay area. This team focuses on the automation of multi-omics data. THE ROLE In this role you can expect to: • Develop a data visualization platform that will enable scientists to interpret throughput seq data • Design and implement the scalable server and front-end components of the system, and design the data layer • Identify pain points in -omics data pipelines • Work with external biotech partners to generate biological insights YOUR SKILLS AND EXPERIENCE: • PhD in Computational Biology, Bioinformatics, Computer Science • Cloud computing software/infrastructure development experience • Proficient in Python or R • Knowledge of docker • Experience in data visualization THE BENEFITS: • $150,000-$180,000 • Competitive benefits • Equity • 401K HOW TO APPLY • Please register your interest by sending your CV to Ashley Biscailuz via the Apply link on this page

The Position Please note this position has the potential to support a remote work arrangement and may be based anywhere in the United States... At Roche, 94,000 people across 100 countries are pushing back the frontiers of healthcare. Working together, we’ve become one of the world’s leading research-focused healthcare groups. Our success is built on innovation, curiosity, and diversity. We believe every employee makes a difference. We are passionate about transforming patients’ lives. We are courageous in both decision and action, we believe that good business means a better world. This position is part of the Individualized Medicines Team in the Pharma Cell and Gene Therapy Group (PTC) responsible for the process development, manufacture and supply of personalized immunotherapies in collaboration with our global partners. We are seeking a highly motivated team member to contribute to the ongoing effort to evaluate and operationalize NGS and bioinformatics aspects of individualized medicine manufacturing. You will conduct bioinformatics analysis to support ongoing process development, refinement of the analysis pipelines and clinical manufacturing operations. The successful candidate is expected to effectively communicate and develop collaborative relationships with key stakeholders. Once a strategic framework for future manufacturing is in place, you will play a critical role in process development/implementation to enable commercial manufacturing of next generation therapeutics. Responsibilities • You will provide bioinformatics support to ongoing NGS process and assay development activities for individualized therapies. • You will collaborate with internal and external stakeholders to develop process understanding of existing pipelines and algorithms. • You will provide computational/bioinformatics support as needed across the broader PTC community. • You will build/optimize NGS bioinformatics pipelines to run in cloud infrastructure. • You will review and refactor bioinformatics code (in R and Python) according to best software practices. • You will be familiar with software engineering/QA aspects of production bioinformatics pipelines. • You will assist with testing and deploying a variety of bioinformatics pipelines into a production environment. • You will author technical and validation reports for bioinformatics and assay development activities. • You will provide strategic and operational support needed for bioinformatics functions within Genentech’s individualized medicines program and broader PTC. Qualifications The ideal candidate will meet the following qualifications: • Ph.D or MS in bioinformatics or a related discipline. 3+ years industry experience in bioinformatics analysis. • Expertise coding in Python and R, including version control (git, svn) • Previous experience using and developing bioinformatics pipelines for NGS data analyses (WES, WGS, RNAseq, scRNASeq, amplicon seq etc), including profiling accuracy of tools/algorithms. • Previous experience building pipelines/algorithms supporting NGS assay development. • Experience working with at least one workflow orchestration software (Nextflow, Cromwell, etc) • Experience authoring technical documentation, in collaboration with diverse stakeholders. • Must be detail-oriented with excellent collaborative and organizational skills in order to manage multiple projects and meet assigned deliverables. • Strong written and verbal communication skills and ability to effectively communicate with cross-functional teams. • Strategic agility and ability to adapt to the evolving personalized healthcare environment. • Comfortable working in a flexible, fast-paced team environment Additional nice to have qualifications/skills: • Prior experience in bioinformatics aspects of cancer immunology. • Experience with developing in cloud environments and using Docker or similar containerization packages. • Experience in deploying cloud (AWS) based compute infrastructure using services such as AWS Batch, Kubernetes etc. • Experience with deploying infrastructure as code (Terraform, Cloudformation). For Colorado-based applicants, the expected salary range for this position is $127,585 -157,605. Actual pay will be determined based on experience, qualifications, and other job-related factors permitted by law. A discretionary annual bonus may be available based on individual and Company performance. This position also qualifies for the benefits listed below. Benefits Roche offers highly competitive benefit plans and programs, including: • Medical, dental and vision insurance • 401(k) and 401(k) matching • Paid time off • Roche Long Term Incentive Plan (available at certain position levels) #ptcareers #cellandgenetherapycareers# Genentech is an equal opportunity employer, and we embrace the increasingly diverse world around us. Genentech prohibits unlawful discrimination based on race, color, religion, gender, sexual orientation, gender identity or expression, national origin or ancestry, age, disability, marital status and veteran status. Genentech requires all new hires to be fully vaccinated against COVID-19 as of their start date. This requirement is a condition of employment at Genentech, and it applies regardless of whether the position is located at a Genentech campus or is fully remote. If you are unable to receive the vaccine due to a disability or serious medical condition, or because it is prohibited as a result of your sincerely held religious beliefs, you will have an opportunity to request a reasonable accommodation

SOFTWARE ENGINEER, BIOINFORMATICS SAN FRANCISCO- IN OFFICE... $160,000 - $200,000 Do you want to make a lasting impact in the biotech world.. this is an exciting opportunity for a Software Engineer focused around Bioinformatics to join a high performing startup. If you are looking to be key contributor in a smaller data team and use your skills to identify pain point and implement new moths in the design of multi-omics pipelines, and work closely with biologists, this is a great job for you! THE COMPANY The company's mission is to foster a new revolution by creating a first-in-class platform that enables biologists to leverage the explosion of data that increases by orders of magnitude every year. They are looking for a strong Bioinformatician with a software engineering background to find the right tools to improve the platform as their stack evolves. THE ROLE This Software Bioinformatics Engineer will be a critical role in the growth of this startup. • Be apart of a collaborative team and fast-paced environment • Apply best software engineering practices related to computational and bioinformatics • Work with biotech companies to optimize their platform abilities • Develop statistical and visualization tools YOUR SKILLS & EXPERIENCE • Expertise around bioinformatics • Understand best software engineering practices • Knowledge around generating insights from biological datasets (microarrays or next generation sequencing) • Strong programming skills and proven commercial experience with Python • Commercial experience with cloud technologies (AWS / GCP) BENEFITS • 160,000- 200,000 base salary • Must be able to go into office Monday-Saturday • 401K • Medical, Dental, Vision Insurance HOW TO APPLY Please register your interest by sending your resume to Alexandra Oechsle via the apply link on this page

SENIOR BIOINFORMATICS SOFTWARE ENGINEER $150,000-$180,000... SAN FRANCISCO, CA THE COMPANY This series A biotech company is looking for a Bioinformatics Software Engineer to join their growing team in the Bay area. This team focuses on the automation of multi-omics data. THE ROLE In this role you can expect to: Develop a data visualization platform that will enable scientists to interpret throughput seq data Design and implement the scalable server and front-end components of the system, and design the data layer Identify pain points in -omics data pipelines Work with external biotech partners to generate biological insights YOUR SKILLS AND EXPERIENCE: PhD in Computational Biology, Bioinformatics, Computer Science Cloud computing software/infrastructure development experience Proficient in Python or R Knowledge of docker Experience in data visualization THE BENEFITS: $150,000-$180,000 Competitive benefits Equity 401K HOW TO APPLY Please register your interest by sending your CV to Ashley Biscailuz via the Apply link on this page

The Position Please note this position has the potential to support a remote work arrangement and may be based anywhere in the United States... At Roche, 94,000 people across 100 countries are pushing back the frontiers of healthcare. Working together, we’ve become one of the world’s leading research-focused healthcare groups. Our success is built on innovation, curiosity, and diversity. We believe every employee makes a difference. We are passionate about transforming patients’ lives. We are courageous in both decision and action, we believe that good business means a better world. This position is part of the Individualized Medicines Team in the Pharma Cell and Gene Therapy Group (PTC) responsible for the process development, manufacture and supply of personalized immunotherapies in collaboration with our global partners. We are seeking a highly motivated team member to contribute to the ongoing effort to evaluate and operationalize NGS and bioinformatics aspects of individualized medicine manufacturing. You will conduct bioinformatics analysis to support ongoing process development, refinement of the analysis pipelines and clinical manufacturing operations. The successful candidate is expected to effectively communicate and develop collaborative relationships with key stakeholders. Once a strategic framework for future manufacturing is in place, you will play a critical role in process development/implementation to enable commercial manufacturing of next generation therapeutics. Responsibilities • You will provide bioinformatics support to ongoing NGS process and assay development activities for individualized therapies. • You will collaborate with internal and external stakeholders to develop process understanding of existing pipelines and algorithms. • You will provide computational/bioinformatics support as needed across the broader PTC community. • You will build/optimize NGS bioinformatics pipelines to run in cloud infrastructure. • You will review and refactor bioinformatics code (in R and Python) according to best software practices. • You will be familiar with software engineering/QA aspects of production bioinformatics pipelines. • You will assist with testing and deploying a variety of bioinformatics pipelines into a production environment. • You will author technical and validation reports for bioinformatics and assay development activities. • You will provide strategic and operational support needed for bioinformatics functions within Genentech’s individualized medicines program and broader PTC. Qualifications The ideal candidate will meet the following qualifications: • Ph.D or MS in bioinformatics or a related discipline. 3+ years industry experience in bioinformatics analysis. • Expertise coding in Python and R, including version control (git, svn) • Previous experience using and developing bioinformatics pipelines for NGS data analyses (WES, WGS, RNAseq, scRNASeq, amplicon seq etc), including profiling accuracy of tools/algorithms. • Previous experience building pipelines/algorithms supporting NGS assay development. • Experience working with at least one workflow orchestration software (Nextflow, Cromwell, etc) • Experience authoring technical documentation, in collaboration with diverse stakeholders. • Must be detail-oriented with excellent collaborative and organizational skills in order to manage multiple projects and meet assigned deliverables. • Strong written and verbal communication skills and ability to effectively communicate with cross-functional teams. • Strategic agility and ability to adapt to the evolving personalized healthcare environment. • Comfortable working in a flexible, fast-paced team environment Additional nice to have qualifications/skills: • Prior experience in bioinformatics aspects of cancer immunology. • Experience with developing in cloud environments and using Docker or similar containerization packages. • Experience in deploying cloud (AWS) based compute infrastructure using services such as AWS Batch, Kubernetes etc. • Experience with deploying infrastructure as code (Terraform, Cloudformation). For Colorado-based applicants, the expected salary range for this position is $127,585 -157,605. Actual pay will be determined based on experience, qualifications, and other job-related factors permitted by law. A discretionary annual bonus may be available based on individual and Company performance. This position also qualifies for the benefits listed below. Benefits Roche offers highly competitive benefit plans and programs, including: •Medical, dental and vision insurance •401(k) and 401(k) matching •Paid time off •Roche Long Term Incentive Plan (available at certain position levels) #LI-AD1 #ptcareers #cellandgenetherapycareers# Genentech is an equal opportunity employer, and we embrace the increasingly diverse world around us. Genentech prohibits unlawful discrimination based on race, color, religion, gender, sexual orientation, gender identity or expression, national origin or ancestry, age, disability, marital status and veteran status. Genentech requires all new hires to be fully vaccinated against COVID-19 as of their start date. This requirement is a condition of employment at Genentech, and it applies regardless of whether the position is located at a Genentech campus or is fully remote. If you are unable to receive the vaccine due to a disability or serious medical condition, or because it is prohibited as a result of your sincerely held religious beliefs, you will have an opportunity to request a reasonable accommodation