Bioinformatics Jobs

About Us Kardigan is a heart health company working to make cardiovascular disease preventable, curable and no longer the leading cause of death in the world. It is Kardigan’s mission to develop multiple targeted treatments in parallel that bring people with cardiovascular diseases to the cures they deserve. Led by Tassos Giannakakos, Jay Edelberg, M.D. and Bob McDowell, Ph.D., Kardigan’s co-founders have reunited after leading MyoKardia to discover and develop mavacamten, the first cardiac myosin inhibitor, resulting in an acquisition by Bristol Myers Squibb in 2020. We have a cutting-edge discovery and translational research platform, a pipeline of late-stage candidates, and an industry-leading team that is driven to improve the lives of patients. At Kardigan, we are motivated by our values which guide how we work, interact, and achieve our goals. Driven by patients and their families, we are deeply committed to improving the lives of patients and prioritizing their needs above all else. We believe in being authentic—leading with truth to bring out the best in others by creating an environment where every person knows they will be fully accepted. With an eagerness to learn, we encourage the highest levels of curiosity and are open to changing our minds. We are committed to winning as a team with urgency, excellence, and intention, and support each other no matter what role we play or where we sit. Lastly, we strive to enable the impossible because patients are counting on us. We are not afraid to take risks to unlock innovation and advance scientific discoveries. These values are the foundation of our work, empowering us to make a real difference, every day. About Us Kardigan is a heart health company working to make cardiovascular disease preventable, curable and no longer the leading cause of death in the world. It is Kardigan’s mission to develop multiple targeted treatments in parallel that bring people with cardiovascular diseases to the cures they deserve. Led by Tassos Giannakakos, Jay Edelberg, M.D. and Bob McDowell, Ph.D., Kardigan’s co-founders have reunited after leading MyoKardia to discover and develop mavacamten, the first cardiac myosin inhibitor, resulting in an acquisition by Bristol Myers Squibb in 2020. We have a cutting-edge discovery and translational research platform, a pipeline of late-stage candidates, and an industry-leading team that is driven to improve the lives of patients. At Kardigan, we are motivated by our values which guide how we work, interact, and achieve our goals. Driven by patients and their families, we are deeply committed to improving the lives of patients and prioritizing their needs above all else. We believe in being authentic-leading with truth to bring out the best in others by creating an environment where every person knows they will be fully accepted. With an eagerness to learn, we encourage the highest levels of curiosity and are open to changing our minds. We are committed to winning as a team with urgency, excellence, and intention, and support each other no matter what role we play or where we sit. Lastly, we strive to enable the impossible because patients are counting on us. We are not afraid to take risks to unlock innovation and advance scientific discoveries. These values are the foundation of our work, empowering us to make a real difference, every day. This is a 4 day on-site position - M - TH Job Overview We are seeking a Bioinformatics Scientist to join our Translational Research team and help drive therapeutic discovery in cardiovascular disease. In this role, you will apply computational and statistical methods to analyze and integrate large-scale biological and clinical datasets, generating insights that accelerate new target identification, biomarker discovery, patient stratification, and target validation. The ideal candidate is a self-motivated scientist who combines strong technical skills with a passion for biology. You will work both independently and collaboratively with experimental and clinical teams to translate data into actionable discoveries that advance our therapeutic programs. Essential Duties And Responsibilities • Design, perform, and interpret computational analyses of large-scale biological datasets, including genomic, transcriptomic, proteomic, and clinical data. • Collaborate with bench and clinical scientists to generate testable hypotheses and link computational insights to translational research goals. • Contribute to new target and biomarker discovery, conduct patient stratification analyses to support therapeutic development programs. • Participate in the preparation of scientific publications and conference presentations. • Stay current with advances in bioinformatics, data integration, and machine learning, and apply innovative methods to enhance ongoing research projects. Qualifications And Preferred Skills • PhD. in Bioinformatics, Computational Biology, Computer Science, Statistics, or related quantitative fields. • 1–2 years of post-graduate experience in academia or industry. • Proven experience in experimental design and in applying bioinformatics methods to solve complex biological problems. • Hands-on experience in analyzing next-generation sequencing (NGS) data, including bulk RNA-seq, single-cell RNA-seq, and whole-exome sequencing (WES). • Familiarity with other omics data (e.g., proteomics, metabolomics) is highly desirable. • Strong programming skills in R and/or Python, with demonstrated ability to implement advanced analytical methods and create clear, insightful visualizations of complex biological data. • Experienced in Linux environments, and cloud computing; comfort using the command line interface is preferred. • Experienced in developing interactive data visualization tools, such as RShiny applications, is preferred. • Excellent communication skills, with the ability to present complex analyses and results to both computational and experimental audiences. Ability to work independently while effectively contributing to collaborative, cross-functional teams in a fast-paced, dynamic environment Exact Compensation may vary based on skills, experience and location. Pay range $131,000 - $171,000 USD

ay Range: $115,000.00 - $135,000.00 / year Salary offers are based on a wide range of factors including relevant skills, training, experience, education, and, where applicable, certifications obtained. Market and organizational factors are also considered. Successful candidates may be eligible to receive annual performance bonus compensation. Benefits Information: We are proud to offer best-in-class benefits and programs to support employees and their families in living healthy, happy lives. Our pay and benefit plans have been designed to promote employee health in all respects – physical, financial, and developmental. Depending on whether it is a part-time or full-time position, some of the benefits offered may include: • Day 1 Medical, supplemental health, dental & vision for FT employees who work 30+ hours • Best-in-class well-being programs • Annual, no-cost health assessment program Blueprint for Wellness® • healthyMINDS mental health program • Vacation and Health/Flex Time • 6 Holidays plus 1 "MyDay" off • FinFit financial coaching and services • 401(k) pre-tax and/or Roth IRA with company match up to 5% after 12 months of service • Employee stock purchase plan • Life and disability insurance, plus buy-up option • Flexible Spending Accounts • Annual incentive plans • Matching gifts program • Education assistance through MyQuest for Education • Career advancement opportunities • and so much more! Complete oversight of BME operations for large, complex sites and/or multiple sites to ensure service program efficiency and to satisfy the equipment support needs of the company. The purpose of the BME Sr. Manager position is to develop, coordinate, and expand the BME program as necessary to ensure all aspects of service (internal and external) for all lab instrumentation and general lab equipment satisfy the quality and regulatory requirements and service needs for each lab, enabling operations to run efficiently, profitably, and with excellent quality. The Sr. Manager has more experience than As a Bioinformatics Engineer, you will work for the world leader in the industry, with a career where you will have the opportunity to collaborate and affect change while expanding your leadership skills and technical knowledge. You can make a real impact in a market that is growing and developing. This position is in our Bioinformatics Operations group, part of the Research and Development organization, in Advanced Diagnostics based in San Juan Capistrano, CA. This position is intended to be either on site or hybrid – working on site at least 2-3 days per week in our San Juan Capistrano, CA lab. The team supports genetic/genomic testing in a highly regulated CAP/CLIA laboratory environment, using short and long-read sequencing as the basis of evidence. The right candidate will know how to balance innovation, standards, and quality with a practical understanding of when each is appropriate. The Bioinformatics Operations group supports, hones, and executes the processes defined by our Engineering and Lab Operations groups with emphasis on compliance and continuous improvement. While coupled tightly to regulation through standards in validation, documentation, and data retention, the group is an integral part of the development cycle of our analysis workflows and visualization. This professional will work in a hybrid capacity with 3 days onsite at our San Juan Capistrano, CA facility. Additionally, our Marlborough, MA location is an option as well. Quest Diagnostics honors our service members and encourages veterans to apply. While we appreciate and value our staffing partners, we do not accept unsolicited resumes from agencies. Quest will not be responsible for paying agency fees for any individual as to whom an agency has sent an unsolicited resume. Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets or any other legally protected status. • Support production day-to-day operations, quickly pivoting focus to respond to incidents and requests • Monitor, execute, and improve sequence analysis workflows and automation • Track, troubleshoot and mitigate issues encountered in processing production samples to meet strict Turnaround Times (TAT) and business SLAs • Plan and develop solutions to recurring issues to be merged back into development branch maintained by the Engineering group • Generate, wrangle, merge and glean information from varied and complex data sets • Use of RESTful APIs linked to various systems including LIMS, AWS job runners and other systems necessary for data processing and execution • Design and perform validation, testing, and production deployment of systems and software to standardize processes across all Quest Diagnostics genetic testing labs • Design and perform analytical validation analysis for new genomic testing products • Write and maintain production documentation for compliance and supportability of all bioinformatics processes in production environment • Produce charts and visualization for dashboards, reporting, and in support of data driven hypothesis testing • Support interface, integration, and testing projects • Utilize a Software Development Life Cycle documentation procedure • Be an active team player and support the group • Accept input on solutions from other colleagues and teams • Availability for on-call support The ideal candidate will have a history of using bioinformatic technical skills to deliver accurate and timely results. Required: • 5 yr experience using formal programming and scripting languages • 5 yr experience working on a Linux command-line to process, parse, and merge varied data sets • 3 yr experience working with web services and utilizing API communications (REST, SOAP, etc) • 3 yr experience in a distributed cloud HPC environment • Knowledge and understanding of genomics, next-generation sequencing, and bioinformatics including parsing and working with typical file formats (FASTQ, BAM, VCF) • Experience supporting production grade software • Experience with source control in a development, testing, and production environment • Experience communicating technical results and data • Experience working with APIs to pull/query data Preferred: • Automated testing experience; CI/CD experience preferred • Knowledge of CAP documentation requirements or working in a regulated environment a plus • Microsoft UI: Access, VBA, Macros • Pipeline Workflow Manager: Nextflow • CI/CD in GitHub Education: • Required: B.S. in Computer Science, Software Engineering, Bioinformatics, or a related field. • Preferred: MSc/PhD degree in Computer Science, Software Engineering, Bioinformatics Preferred Technical Training: • Agile certification • Nextflow training • Cloud Computing • Data Science

Job Description This role involves engaging directly with the Northwell Genomics Health Initiative (NGHI) team to develop and maintain bioinformatics pipelines for next-generation sequencing (NGS) data processing and analysis, specifically including Whole Genome Sequencing (WGS), Whole Exome Sequencing (WES), and RNA-Seq. The individual will define and build the next iteration of features for the NGHI team, and will be responsible for implementing, modifying, expanding, and optimizing our pipelines and warehousing to incorporate feature stores, big data, and cloud technologies. Additionally, this position requires collaborative work with members from Information Technology, Diagnostic Labs, and Clinical teams to support clinical/research scientists, systems, and initiatives at both the departmental and enterprise levels. Job Responsibility • Design, develop, and maintain robust and scalable bioinformatics pipelines for WGS, WES, and RNA-Seq data analysis using Nextflow or other workflow languages. • Optimize pipeline performance and efficiency in cloud or HPC environments. • Collaborate with other scientists and engineers to integrate pipelines into larger data analysis workflows. • Contribute to the development of novel bioinformatics methods and algorithms using Machine Learning and AI. • Builds and maintains infrastructure for data management and assembles datasets from disparate sources to meet team requirements. • Maintains data acquisition process and data pipelines; verifies data quality, and/or ensures it via data cleaning and processing. Develops and optimizes ETL processes, implements transformations and quality checks results. • Designs, develops, and maintains data pipelines between serves, databases, and other sources to support Genomic research and development and production pipelines. • Identifies, designs, and implements process improvements for optimization, efficiency, greater scalability, and automation. • Develops and shares best practices for code quality, versioning, repository, documentation, and data flows among the Genomic team. • Assists data scientists, engineers, cloud architects, and subject matter advisors in testing, deploying, and maintaining artificial intelligence and machine learning algorithms. • Facilitates deployment of machine learning and other models to production; monitors performance and health; and updates/retrains models. • Works collaboratively to develop, construct, test, and maintain large scale data processing systems and databases. • Maintains development and production environments, both on-premises and cloud-based. • Participates in projects to architect (research, recommend, design, develop and deploy) advanced systems for the collection, aggregation and analysis of those data in alignment with business objectives. • Provides big data technology assessments, strategies, and roadmaps in several technical domains and act as a subject matter advisor on big data. • Works with cross functional research leadership, technical and analytical teams to understand current and future enterprise-wide big data analytics goals spanning disparate platforms and datatypes. • Assists in ensuring that systems are implemented to support Health System initiatives and goals to improve the quality of patient care, to maximize patient safety, and to provide operational efficiencies. • Demonstrates familiarity with current health system information systems. • Operates under limited guidance and work assignments involve moderately complex to complex issues where the analysis of situations or data requires in-depth evaluation of variable factors. • Makes decisions on moderately complex to complex issues regarding technical approach and completion of own tasks/responsibilities of substantial complexity. • Performs related duties as required. All responsibilities noted here are considered essential functions of the job under the Americans with Disabilities Act. Duties not mentioned here, but considered related are not essential functions. Job Qualification • Bachelor's Degree in Computer Science, Informatics, Statistics, Engineering, Data Science, or relative quantitative field required, or equivalent combination of education and related experience. Master's Degree, preferred. • 3-5 years of experience with enterprise level design and implementation of relational databases, big data pipelines, cloud computing, and other advanced data science and big data technologies, required. • Advanced working knowledge and experience with SQL and relational databases, required. Strong knowledge and experience using the following software and tools, required: SQL/NoSQL, Python, R, Spark, Git, data pipeline tools (e.g., Airflow), cloud infrastructure (Microsoft Azure preferred). • Experience in building and optimizing data pipelines; deploying and maintaining production machine learning algorithms; and building, testing, and deploying code on cloud infrastructure, required. • Experience with managing healthcare data, preferred. • Experience with managing unstructured data and streaming data, preferred. • Experience in architecting data warehouses and/or data lakes with traditional database enterprise-class RDBMS technologies, preferred. • Strong knowledge of Business Intelligence & Analytics concepts and platforms, inclusive of data virtualization, data preparation, data visualization and advanced analytics technologies, preferred. • Additional Salary Detail The salary range and/or hourly rate listed is a good faith determination of potential base compensation that may be offered to a successful applicant for this position at the time of this job advertisement and may be modified in the future. When determining a team member's base salary and/or rate, several factors may be considered as applicable (e.g., location, specialty, service line, years of relevant experience, education, credentials, negotiated contracts, budget and internal equity).

Job Summary: The Junior Bioinformatics Associate will be a key contributor in the delivery of next-generation sequencing (NGS) analysis. This role involves executing daily targeted NGS analyses, performing quality control (QC) on results, and ensuring the accurate, timely delivery of reports for a diverse range of client samples. A successful candidate will coordinate closely with cross-functional teams to meet turnaround time (TAT) requirements, actively troubleshoot pipeline or data issues, and uphold the integrity and reproducibility of all analytical workflows. A strong technical foundation is essential for executing and maintaining bioinformatics pipelines in Linux-based High-Performance Computing (HPC) and cloud environments, managing data within AWS, and contributing to the continuous improvement of processes through robust documentation, version control, and strict adherence to data privacy standards. This position is on-site in Tustin, CA. Essential Duties and Responsibilities: • Execute and maintain bioinformatics pipelines to process and analyze targeted NGS data • Utilize Linux-based High-Performance Computing (HPC) environments and bash scripting for data analysis. • Process and analyze microbial datasets using R/RStudio, including data cleaning, transformation, and merging for bacterial and fungal species abundance. • Monitor sequencing runs, retrieve raw data, perform QC checks, and manage report generation. • Upload finalized reports to client portals and internal trackers. • Maintain and update the internal sequencing log and delivery timelines. • Manage non-standard client requests and customized delivery formats. • Coordinate with the wet lab, Client Services, and R&D teams regarding run status, updates, and issue resolution. • Organize, access, and manage data stored within Amazon Web Services (AWS) S3 buckets. • Maintain and update code documentation via GitHub repository and adhere to revision control best practices. • Ensure compliance with data privacy regulations (e.g., HIPAA, GDPR) and follow best practices for reproducible research and version control. Education and Experience: • Bachelor's degree in computer science, Computational Biology, Data Science, Statistics or a related field. • Proficient with NextFlow and scripting languages including Python and R. • Experience operating within Linux-based HPC environments (e.g., SLURM) and/or cloud platforms such as Amazon Web Services (AWS) EC2 and S3. • Demonstrable knowledge of best practices for code documentation and version control (GitHub) • Strong analytical, problem-solving, and organizational skills with the ability to manage competing priorities in a fast-paced environment. • Excellent verbal and written communication skills for effective collaboration with interdisciplinary scientific and clinical teams. About us: Pangea Laboratory is a California-based diagnostics company founded in 2014. We focus on the precise, early detection of emerging diseases. Our mission is to have a positive impact on human life, by providing biomedical communities with reliable and high-quality testing services, delivering the data they need to diagnose and treat diseases in an effective and timely manner. Named a Top Workplace by the OC Register, Pangea Laboratory continues to be a place where employees feel engaged, connected, and energized about their work. If you are passionate about helping people in advancing science and working with awesome teams in a fast-growing company, we want to speak with you! Compensation: The estimated base compensation range for this position is $69,000 to $80,000 annually at the time of posting. Actual compensation details will be provided in writing at the time of offer, if applicable, and is based on several factors we believe fairly and accurately impact compensation, including geographic location, experience, knowledge, skills, abilities, and other job permitted factors. Pangea Laboratory also offers competitive perks including: - Medical, Dental, Vision, and Life Insurance Coverages - EAP Sessions - Vacation Time plus Company Holidays - Paid Sick Leave - Generous 401(K) with matching - Employee Referral Bonus - Complimentary fruit, snacks, and beverages - Complimentary catered lunches on Thursdays Equal Employment Opportunity Employer: Pangea Laboratory welcomes candidates of all backgrounds. These include sex, age, color, race, religion, marital status, national origin, ancestry, sexual orientation, gender, gender identity, gender expression, physical & mental disability, medical condition, genetic information, military and veteran status, or any other protected status as defined by federal, state, or local law. Location: Onsite - Pangea HQ - 14762 Bentley Cir. Tustin, CA 92780

Passionate about precision medicine and advancing the healthcare industry? Recent advancements in underlying technology have finally made it possible for AI to impact clinical care in a meaningful way. Tempus' proprietary platform connects an entire ecosystem of real-world evidence to deliver real-time, actionable insights to physicians, providing critical information about the right treatments for the right patients, at the right time. Recent advancements in underlying technology have finally made it possible for AI to impact clinical care in a meaningful way. Tempus' proprietary platform connects an entire ecosystem of real-world evidence to deliver real-time, actionable insights to physicians, providing critical information about the right treatments for the right patients, at the right time. We are seeking a highly motivated and capable senior bioinformatics software scientist focused towards software and algorithm development and project management. This position requires experience with scientific programming, relational data systems, and algorithms development. Top candidates will also have experience managing software projects within a clinical setting and extensive experience with genomics data. Duties and Responsibilities: Ensure robust CI/CD patterns for clinical software and perform software verification for release and development. Develop software to enable scientists and engineers to access, analyze, and visualize bioinformatics data in a robust and efficient manner. Ensure high-quality analysis through on-going testing and verification of clinical pipelines and software. Develop tools to streamline creation and usage of scientific data across all teams and applications. Collaborate with subject matter experts, e.g., product, engineering, to design and maintain systems supporting medical devices and clinical pipelines. Work in interdisciplinary groups of scientists, engineers, and product developers to translate research into clinically actionable insights for our clients. Produce high quality and detailed documentation for all projects. Lead the design, development, and implementation of advanced bioinformatics analyses to support research and development goals. Support a team of bioinformatics scientists and analysts, providing technical guidance and professional development. Collaborate with cross-functional teams (e.g., biology, clinical, data science, software engineering) to define project requirements and deliverables. Develop and execute bioinformatics strategies aligned with organizational objectives. Evaluate, implement, and optimize computational tools, pipelines, and workflows for large-scale omics data analysis. Present findings and strategic recommendations to senior leadership and internal stakeholders. Stay current with emerging trends and technologies in bioinformatics, computational biology, and oncology Assist in resource and project planning as needed. Required Experience: Must have one of the following: PhD in Bioinformatics, Computational Biology, Genomics, Computer Science, or a related field (or equivalent experience). Masters in Bioinformatics, Computational Biology, Genomics, Computer Science, or a related field (or equivalent experience) and at 3+ years of relevant experience. 7+ years of relevant experience in bioinformatics Proficiency in programming languages and technology, including or similar to: Python, Typescript Databases: SQL or BigQuery Software containers, e.g., Docker Cloud computing, e.g., GCP or AWS Strong software development development skills Project management skills and ability to manage multiple priorities. Excellent communication and interpersonal skills, with experience presenting to executive audiences. Preferred: 2+ years experience in a leadership or management role role Critical thinking and creativity to approach solutions Experience with software testing and application development Experience in cancer genetics, immunology, or molecular biology Experience working with next-generation sequencing data Experience with Nextflow Self-driven and works well in interdisciplinary teams Experience interfacing with both scientific and engineering teams CHI: $85,000-$130,000 NYC/SF: $100,000-$145,000 The expected salary range above is applicable if the role is performed from Illinois and may vary for other locations (California, Colorado, New York). Actual salary may vary based on qualifications and experience. Tempus offers a full range of benefits, which may include incentive compensation, restricted stock units, medical and other benefits depending on the position. We are an equal opportunity employer. We do not discriminate on the basis of race, religion, color, national origin, gender, sexual orientation, age, marital status, veteran status, or disability status. Tempus was founded in August of 2015 by Eric Lefkofsky, after his wife was diagnosed with Breast Cancer. Shortly after he founded the company in an effort to bring the power of technology and artificial intelligence to cancer care, he convinced Ryan Fukushima to join as the company’s first employee. Ryan and Eric began assembling a world class team, focused on building the first version of a platform capable of ingesting real time healthcare data in an effort to personalize diagnostics. We built the platform for oncology and have expanded it to neuropsychiatry, cardiology, infectious disease (through COVID), and radiology. Despite our rapid growth, our mission remains the same—to help make sure patients are on the right drug at the right time, so they can live longer and healthier lives. We’re looking for people who can change the world. Who question the status quo and don’t shy away from tough problems. For the builders who are never done building and the learners who are never done learning. We’re looking for passionate people with undying curiosity. Those who want to attack one of the most challenging problems mankind has ever faced. Head on.

At Nautilus, we have a big and important mission: to 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 Staff Scientist to join our Bioinformatics team and play a key role in supporting our early access program for proteomics analysis. In this role, you will work closely with early users of our technology - helping them to design experiments, troubleshoot problems as they arise, and interpret results - ensuring our customers gain the most insight from our platform. Additionally, you will relay critical feedback from customers to our internal development team to support platform improvements. The ideal candidate will have a strong background in biology and a deep understanding of how proteomics can be applied in scientific and clinical contexts. Responsibilities • Catalyze the success of our earliest customers by deeply understanding their scientific goals and ensuring a smooth and productive experience with our platform. • Be the bioinformatics leader on multiple (5+) customer-facing projects, managing relationships and delivering support during our upcoming early access program. • Engage with customers in project planning and experimental design to ensure they are positioned for success and understand the capabilities of our platform. • Oversee and conduct bioinformatics analyses for our customers including analyzing proteomics data, troubleshooting unexpected results, building visualizations and analyses, and crafting clear presentations. • Collaborate cross-functionally with our internal R&D team by relaying scientific feedback from customers to support ongoing platform development. • Manage project timelines and deliverables for customer-facing analyses. Requirements • A passion for biology and a commitment to delivering exceptional customer experience. • PhD in Bioinformatics, Computational Biology, Biochemistry, or related field with 10+ years of experience, or a Master’s degree and 15+ years of experience in academic/industry settings. • Demonstrated ability to conceive and execute novel experimental design, applying bioinformatics methods to address complex biological questions. • Ability to communicate technical content clearly and effectively, including to audiences without a bioinformatics background • Proficiency with Python and common scientific libraries such as numpy, pandas, scipy, and matplotlib. • Experience with version control and the Github ecosystem. • Familiarity with cloud computing (e.g. AWS) and relational databases (e.g. SQL) (preferred). • Experience working with proteomics data (preferred). • Experience with project leadership or strategic/alliance partnerships with pharmaceutical or academic collaborators (preferred). Nautilus Team Culture • We are determined to do whatever it takes to get our platform into the hands of researchers who will use it to upend the status quo in basic research and healthcare. • We work on cross functional teams, wear many hats, take risks to work through uncertainty, enjoy working collaboratively on challenging problems, and celebrate one another’s victories. • We go above and beyond, but also strive to provide a supportive atmosphere of colleagues who are willing to lend a helping hand and make working at Nautilus not only fulfilling in its end goals, but enjoyable on a day-to-day basis.

The Institute for Clinical and Translational Science at the University of California, Irvine School of Medicine invites applications for a full-time faculty position at the Assistant or Associate Professor level in the Line (tenure track) series in an appropriate department in the School of Medicine. The position will be in the broad areas of human genomics and bioinformatics, as they apply to rare and common conditions. Special emphasis is placed on multi-omics applied to variant analysis and translational genomics, including diagnostic and other methodological applications, bioinformatics analytical pipelines, and genetic risk evaluation strategies. Applicants must have an MD, MD/PhD, PhD, or equivalent. Since translational genomics is multifaceted, ideal candidates should have formal training or substantial experience in genomics-relevant bioinformatics and translational science, as well an understanding of larger aspects of genomics such as challenges associated with big data, use of AI/LLM in genomics and bioethical concerns. We especially encourage creative and collaborative scientists who will use innovative strategies to apply computational biology and data science to real-world health issues. Successful hire will be expected to establish and maintain an extramurally-funded research program and participate in departmental teaching and mentoring missions for graduate and medical students. Despite being one of the youngest of the UC Campuses, UCI is a world-class research university ranked in the top 10 public universities by US News & World Report. UCI is home to more than 37,000 undergraduate and graduate students. Its multiple schools include Biological Sciences, Pharmacy and Pharmaceutical Sciences, Nursing, Public Health, Law, Engineering, Physical Sciences, and Information and Computer Sciences in addition to the School of Medicine. It has multiple hospital locations throughout Orange County, and includes an NCI-designated Comprehensive Cancer Center, an NCATS-funded Institute for Clinical and Translational Science, and a prestigious NIH-funded Undiagnosed Disease Network Site. In particular, the Institute for Precision Health and School of Information and Computer Sciences provide an outstanding environment for data scientists Criteria for the Ladder Rank Series: Ladder-Rank Faculty will serve as Research Scholars, clinicians, and educators. They are expected to design and lead significant, thematic research with extramural support. Teaching is required and may include clinical, classroom or lab teaching. Service as part of the academic community takes many forms and is also expected for faculty. The successful candidate will have a major focus on innovative research of high significance in the general field of genomics-relevant bioinformatics and bioethics as reflected in sustained, high-quality publications and peer-reviewed extramural funding as a principal investigator. To apply please visit: https://recruit.ap.uci.edu/JPF09974 APPLICATION REQUIREMENTS • Cover Letter • Curriculum Vitae- your most recently updated CV • Research Statement- see our guidance • Teaching statement-see our guidance • Reference requirements (requested for contact in the final stages of recruitment) - 3 required (contact info only) Application review will continue until the individual position is filled. The salary range for this position is $98,500-$192,796. The posted UC salary scales set the minimum pay determined by rank and/or step at appointment. See Professorial Series (Adjunct, Clinical X, HS Clinical, In Residence, Ladder Rank) and Professor of Teaching Series – Health Sciences Compensation Plan. This position includes membership in the Health Sciences Compensation Plan, which provides for eligibility for additional compensation.

We invite applications for a creative and collaborative scientist whose research emphasizes understanding of RNA biology, gene regulation, RNA‐therapeutic and experience in computational and statistical methods. The successful candidate will join a vibrant, interdisciplinary research community with strengths in RNA therapeutics, genomics, systems biology, bioengineering, single‐cell technologies and translational cancer/hematology research. The candidate will be a part of recently funded multi-million-dollar grant awarded to Cancer and Blood Disorders Institute at the Johns Hopkins All Children’s Hospital. Key Responsibilities: • Establish and lead an independent, externally funded research program in RNA biology, RNA‐based therapeutics and bioinformatics. • Collaborate with investigators in the Cancer & Blood Disorders Institute, as well as other institutes and departments at JHACH and the JHUSOM. • Mentor trainees (postdoctoral fellows, graduate students, and/or undergraduate researchers) and contribute to the training mission of the institution. • Participate in departmental and institutional service aligned with faculty rank and expectations (e.g., seminars, committee service, outreach). • Pursue or build upon externally-sponsored funding (NIH, NSF, state, foundation) and publish in peer‐reviewed journals. • Contribute to an inclusive, collegial research environment, in line with the institution’s commitment to diversity and excellence. Rank and Appointment: Appointment will be made at the rank of Instructor or Assistant Professor, depending on the candidate’s experience and accomplishments. The rank will be commensurate with qualifications and external research trajectory. Promotion and/or tenure track status will follow the standard policies of JHUSOM. Environment & Support: Candidates will join a dynamic, interdisciplinary community engaged in forefront research across RNA Biology, genomics and therapeutics. The institution offers dedicated support for research infrastructure, mentorship and collaboration across departments. Living and working in the Tampa Bay / St. Petersburg area offers an attractive cost of living, excellent quality of life and proximity to the resources of the Johns Hopkins network. Qualifications Qualifications (Required): • Ph.D., M.D., or equivalent doctoral degree in Molecular Biology, Genetics genomics, biostatistics, or a related field. • Demonstrated expertise in RNA Biology, gene regulation, genomics, preferably with a track record of independent research and publications. • Interest in and readiness to build partnerships with faculty in cancer biology, hematology/oncology, epigenetics/epi‐transcriptomics, imaging, or related fields • Experience with scripting languages (e.g., Python, R) and statistical computing; ability to analyze large‐scale datasets and use high‐performance computing or cloud‐based platforms will be an advantage. • Excellent oral and written communication skills; a demonstrated ability to work collaboratively across disciplines. Preferred Qualifications: • Track record of (or strong potential for) external funding support (e.g., NIH/NSF or equivalent). • Experience working with single‐cell genomics, epigenomics/epi-transcriptomics, RNA‐seq, long‐non-coding RNAs, circular RNAs, or RNA therapeutics. • Prior collaborations in biomedical engineering, systems biology or translational therapeutics. • Experience mentoring trainees or leading collaborative research projects. Application Instructions Applicants should apply through Interfolio: Apply - Interfolio

The Department of Medicine, Division of Cardiovascular Medicine at Stanford University is seeking a talented Bioinformatics Engineer II to join the Bioinformatics Core (BIC) of the Molecular Transducers of Physical Activity Consortium (MoTrPAC). As part of this groundbreaking national research consortium, you will help unravel the molecular mechanisms underlying the benefits of physical activity. Under the supervision of co-PIs Dr. Euan Ashley and Dr. Matthew Wheeler, you will play a crucial role in shaping the future of personalized exercise science and public health. Dr. Ashley’s research focuses on applying genomics and other omics data to improve clinical care, with an emphasis on cardiovascular disease and personalized medicine. Dr. Wheeler’s research centers on integrating large-scale molecular and clinical data to understand the genetic basis of diseases and to develop novel therapeutic strategies. In this role, you will focus on genome, epigenome, and transcriptome (GET) analyses (specifically WGS, ATAC-seq, and RNA-seq) running the pipelines and tools that convert raw sequencing data into clean, analysis-ready results for the consortium. You will architect and operate scalable workflows that adhere to best practices, including WGS variant calling and joint genotyping, RNA-seq quantification and differential expression, and ATAC-seq peak calling and differential accessibility. You will adapt rigorous QC frameworks across modalities; produce integrated multi-omics analyses (e.g., linking genetic variation, chromatin accessibility, and gene expression through eQTL/caQTL/colocalization); and deliver clear visualizations, genome browser tracks, and interactive dashboards that enable collaborative interpretation across teams. Your work will span data engineering and software development: building reproducible pipelines with Nextflow and/or WDL/Cromwell, containerizing and testing them for reliable deployment on cloud and HPC environments; leveraging GCP services such as Cloud Storage and BigQuery; and designing robust schemas for omics metadata and results. You will apply software engineering best practices (version control, code review, automated testing, and documentation) while implementing data governance aligned with FAIR principles and secure handling of controlled-access human genomic data. As a key contributor to our public-facing portal (https://motrpac-data.org), you will help push the boundaries of biomedical data analytics to accelerate discovery and translation. You will collaborate closely with wet-lab scientists, clinicians, and data engineers to translate biological questions into robust computational analyses and to communicate findings in reports, presentations, and publications. Working within our multidisciplinary team, you will be at the forefront of understanding how physical activity preserves and improves health, ultimately making a lasting impact on human well-being. This is an 18-month fixed term position. This is a hybrid eligible position. Why Join Us? • Work on a highly exciting and innovative multi-omics project with the potential to revolutionize our understanding of physical activity and health. • Be part of a world-class research team at Stanford University, led by Dr. Euan Ashley, a pioneer in personalized medicine • Contribute to groundbreaking research with a significant impact on public health and the prevention of diseases. • Enjoy a collaborative and stimulating work environment at one of the top universities in the world. If you are a passionate and dedicated professional with the required qualifications and a strong interest in advancing scientific research, we encourage you to apply for this exciting opportunity. Join us in unraveling the mysteries of physical activity and making a lasting impact on human health. A complete application will include a cover letter. Duties include: • Prioritize and extract data from a variety of sources such as notes, survey results, medical reports, and laboratory data, and maintain its accuracy and completeness. • Determine additional data collection and reporting requirements. • Design and customize reports based upon data in the database. Oversee and monitor regulatory compliance for utilization of the data. • Use system reports and analyses to identify potentially problematic data, make corrections, and eliminate root cause for data problems or justify solutions to be implemented by others. • Create complex charts and databases, perform statistical analyses, and develop graphs and tables for publication and presentation. • Serve as a resource for non-routine inquiries such as requests for statistics or surveys. • Test prototype software and participate in approval and release process for new software. • Provide documentation based on audit and reporting criteria to investigators and research staff. DESIRED QUALIFICATIONS: • Transcriptomics and Gene Expression Analysis: Comprehensive RNA-seq workflows including read alignment (STAR, HISAT2), quantification (Salmon, Kallisto), QC (FastQC, MultiQC, RSeQC, Picard), normalization and differential expression (DESeq2, edgeR, limma), and pathway enrichment. Isoform analysis (StringTie) and fusion detection (STAR-Fusion) are a plus. • Advanced Genomics Data Analysis Expertise: Extensive experience with WGS data from raw FASTQ through variant calling, joint genotyping, annotation, cohort-level QC, and interpretation. Proficiency with BWA-MEM/BWA, GATK Best Practices (BQSR, HaplotypeCaller, joint calling, VQSR), DeepVariant, bcftools, and scalable VCF/BCF/CRAM handling. • Structural and Copy Number Variation: Experience with SV/CNV calling and QC (e.g., Manta, Delly, LUMPY, CNVnator), sample-level QC (coverage, duplication, contamination via VerifyBamID/Peddy/Somalier), and cohort metrics (Ti/Tv, call rate, Hardy–Weinberg). • Epigenomics and Chromatin Accessibility Analysis: Expertise in ATAC-seq processing and analysis, including alignment (BWA/Bowtie2), Tn5 shifting, peak calling (MACS2), replicate concordance (IDR), QC metrics (FRiP, TSS enrichment, nucleosome signal), differential accessibility (DiffBind/DESeq2), footprinting (HINT-ATAC), motif enrichment (HOMER/MEME), and browser tracks (bigWig/bigBed for IGV/UCSC). Regulatory element annotation using ENCODE/Roadmap resources. • Multi-omics Data Integration: Experience integrating WGS, ATAC-seq, and RNA-seq to identify regulatory relationships (eQTL/aseQTL/caQTL, colocalization), linking chromatin accessibility to gene expression and variant effects. • Advanced Python and R for Genomics: Deep proficiency in Python and R/Bioconductor with strong statistical and reproducible analysis skills. • Genomics Workflow Development: Proven experience designing, testing, and deploying complex workflows using Nextflow and/or WDL/Cromwell (or Snakemake) in cloud or HPC environments, with containerization (Docker, Singularity) and CI/CD for reproducibility. • Specialized Cloud and Database Skills: Hands-on experience with GCP (Cloud Storage, BigQuery), and genomics platforms (Terra, AnVIL). SQL skills and experience designing schemas for omics metadata/results; familiarity with gnomAD, ClinVar, Ensembl/RefSeq, dbSNP, UCSC. • Genome Browser and Visualization Expertise: Proficiency creating custom track hubs and sessions for IGV/UCSC; ability to produce publication-quality visualizations and interactive dashboards for large-scale genomics data. • Software Engineering Best Practices: Version control (Git/GitHub), code review, issue tracking, semantic versioning, packaging (setuptools/Poetry), automated testing (pytest), and comprehensive documentation (Sphinx/MkDocs). • Data Governance and FAIR Principles: Demonstrated experience with data lineage, provenance, audit trails, and adherence to FAIR; secure handling of controlled-access human genomic data (HIPAA/IRB compliance, DUAs), and submissions to dbGaP/GEO/SRA. • Cross-functional Collaboration and Communication: Proven ability to work with wet-lab scientists, clinicians, and data engineers to translate biological questions into robust, actionable computational analyses. EDUCATION & EXPERIENCE (REQUIRED): • Bachelor's degree and three years of relevant experience or combination of education and relevant experience. Experience in a quantitative discipline such as economics, finance, statistics or engineering. KNOWLEDGE, SKILLS AND ABILITIES (REQUIRED): • Substantial experience with MS Office and analytical programs. • Excellent writing and analytical skills. • Ability to prioritize workload. CERTIFICATIONS & LICENSES: • None PHYSICAL REQUIREMENTS*: • Sitting in place at computer for long periods of time with extensive keyboarding/dexterity. • Occasionally use a telephone. • Rarely writing by hand. WORKING CONDITIONS: • Some work may be performed in a laboratory or field setting. WORKING STANDARDS: • Interpersonal Skills: Demonstrates the ability to work well with Stanford colleagues and clients and with external organizations. • Promote Culture of Safety: Demonstrates commitment to personal responsibility and value for safety; communicates safety concerns; uses and promotes safe behaviors based on training and lessons learned. • Subject to and expected to comply with all applicable University policies and procedures, including but not limited to the personnel policies and other policies found in the University’s Administrative Guide, http://adminguide.stanford.edu/. The expected pay range for this position is $108,002 to $128,138 per annum. Stanford University provides pay ranges representing its good faith estimate of what the university reasonably expects to pay for a position. The pay offered to a selected candidate will be determined based on factors such as (but not limited to) the scope and responsibilities of the position, the qualifications of the selected candidate, departmental budget availability, internal equity, geographic location and external market pay for comparable jobs. At Stanford University, base pay represents only one aspect of the comprehensive rewards package. The Cardinal at Work website (https://cardinalatwork.stanford.edu/benefits-rewards) provides detailed information on Stanford’s extensive range of benefits and rewards offered to employees. Specifics about the rewards package for this position may be discussed during the hiring process. Why Stanford is for You Imagine a world without search engines or social platforms. Consider lives saved through first-ever organ transplants and research to cure illnesses. Stanford University has revolutionized the way we live and enrich the world. Supporting this mission is our diverse and dedicated 17,000 staff. We seek talent driven to impact the future of our legacy. Our culture and unique perks empower you with: • Freedom to grow. We offer career development programs, tuition reimbursement, or audit a course. Join a TedTalk, film screening, or listen to a renowned author or global leader speak. • A caring culture. We provide superb retirement plans, generous time-off, and family care resources. • A healthier you. Climb our rock wall or choose from hundreds of health or fitness classes at our world-class exercise facilities. We also provide excellent health care benefits. • Discovery and fun. Stroll through historic sculptures, trails, and museums. • Enviable resources. Enjoy free commuter programs, ridesharing incentives, discounts and more. Consistent with its obligations under the law, the University will provide reasonable accommodations to applicants and employees with disabilities. Applicants requiring a reasonable accommodation for any part of the application or hiring process should contact Stanford University Human Resources by submitting a contact form. Stanford is an equal employment opportunity and affirmative action employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, protected veteran status, or any other characteristic protected by law. The job duties listed are typical examples of work performed by positions in this job classification and are not designed to contain or be interpreted as a comprehensive inventory of all duties, tasks, and responsibilities. Specific duties and responsibilities may vary depending on department or program needs without changing the general nature and scope of the job or level of responsibility. Employees may also perform other duties as assigned.

Bioinformatics Support Specialist Caltech Job Category: Fulltime Term Exempt Overtime Eligible: Overtime Eligible Benefits Eligible: Benefit Based Caltech is a world-renowned science and engineering institute that marshals some of the world's brightest minds and most innovative tools to address fundamental scientific questions. We thrive on finding and cultivating talented people who are passionate about what they do. Join us and be a part of the diverse Caltech community. Job Summary The Ismagilov Lab at Caltech is hiring a full-time Bioinformatics Support Specialist for a 2-year term position. Reporting to Professor Rustem Ismagilov, the successful candidate will contribute to the lab's key projects and collaborations in human health, which include: developing novel tools that improve biological AI models by orders of magnitude; developing closed-loop systems that combine robotics and AI for rapid autonomous experimentation; discovering in human tissues novel bacteria, fungi and viruses (and corresponding genes and pathways) responsible for heath and disease; developing novel diagnostic approaches; understanding microbial origins of human diseases. Additional details about the lab can be found at https://apptrkr.com/get_redirect.php?id=6647096&targetURL= http://ismagilovlab.caltech.edu/ Essential Job Duties • Assist graduate students, postdocs, and research staff with bioinformatics/computational components of all ongoing projects. • Contribute to manuscript preparation and grant proposals, data visualization, and scientific presentations. • A highly motivated and qualified candidate may additionally develop their own independent aspects of ongoing projects. Bioinformatic Analyses • Learn and apply state-of-the-art statistical and computational methods for analyzing datasets from shotgun metagenomics, amplicon sequencing, and RNA-sequencing experiments. • Assist in the design, implementation, and benchmarking of in-silico experiments. • Generate computational results and publication-quality figures for clear communication of results to lab members and external collaborators. Scripting and Automation • Collaborate with lab members and external colleagues to learn and implement best practice methods and packages for data analysis and processing in the lab. • Work with lab members to understand needed bioinformatic capabilities and develop tools to accomplish them. • Work with lab members and external collaborators to help them develop, execute, and maintain state-of-the-art data processing pipelines on Caltech high-performance computing (HPC) clusters. • Develop and maintain scripts for routine analysis tasks such as qPCR quantification. • Develop and maintain scripts for automated robotic platforms to perform laboratory procedures. • Help lab members test and integrate LLM-based AI tools to improve efficiency of research tasks such as experimental design and technical writing. Bioinformatic Maintenance • Maintain well-organized computational workspaces, including data storage, version-control systems, containerization, and documentation in a neat, detailed electronic lab notebook. • Maintain reference databases of microbial genomes, gene clusters, antimicrobial resistance markers, and metabolic pathways. • Maintain organized and version-controlled repositories and containerized computational environments (Docker/Conda), using Python and/or R. • Assist with data management on remote computing clusters and back-up servers, including organizing raw and processed data, maintaining version control, and ensuring data integrity and reproducibility. Basic Qualifications • Bachelor's degree in science with educational emphasis in computational sciences, bioinformatics, biology, microbiology, computer science, bioinformatics, computational biology, data science, or a related field required at time of application. • Experience with programming languages for scripting and data analysis: Python, R, and Bash required. • Familiarity with basic molecular biology topics. • Experience (including coursework or internships) in data analysis using at least one scripting or programming language (e.g., Python, MATLAB, R). • Experience working with next generation sequencing data and/or big data (e.g. genomics, RNA-seq, single-cell RNA-seq, epigenomics, proteomics, metabolomics, etc.). • Experience working in Linux/Unix environments. • Strong drive to learn and to make positive impacts on the lab and lab's mission. • Ability and desire to collaborate and support collaborative projects. • Highly detail-oriented; must have examples of well-documented code (e.g., Git repositories) involving complex technical tasks or data analyses available upon request. • Ability to rapidly learn technical skills, particularly in computational methods and bioinformatic workflows. • Strong organizational, time-management, and project-management skills; ability to professionally and continuously communicate priorities, workload, and current progress to all lab members. • Must be able to use sound judgment to handle multiple simultaneous tasks, prioritize effectively, and troubleshoot problems independently. • Must be able to work independently as well as part of a collaborative team in a dynamic, fast-paced environment. • Ability to write clean, well-documented, and reproducible code for data processing and analysis. • Ambition to develop research skills and advance scientific understanding through high-quality computational analyses and interpretation of biological data. Preferred Qualifications • Experience with cloud computing environments (e.g., AWS, Google Cloud, or institutional equivalents) and using High-Performance Computing (HPC) clusters with the Slurm workload manager. • Experience performing bioinformatic analyses involving shotgun metagenomics, RNA sequencing, or 16S rRNA gene sequencing. • Experience with workflow management systems for pipeline automation (e.g., Snakemake, Nextflow). • Proficiency with Git for collaborative coding, project tracking, and version control. • Experience performing statistical analyses or modeling of complex biological datasets. • Experience with containerization (Docker, Conda, Singularity). • Experience creating visualizations or interactive notebooks (e.g., Jupyter, R Markdown, Dash). • Experience fine-tuning LLMs for analysis or writing tasks. • Co-authorship on a scientific publication. • Solid understanding of statistical analysis methods (NHST, probability distributions, etc.) • Ambition to pursue advanced training or career in computational biology, bioinformatics, ambition to enter a top medical or graduate school or a similar high-performance, high-impact environment in industry or academia. Required Documents • Resume (describe relevant experiences and accomplishments). • Cover letter with specific examples demonstrating a) candidate's alignment with lab's mission, b) candidate's level of ambition, motivation, and drive; c) candidate's attention to detail and ability to produce data others can trust; d) the level of technical mastery of the top three most relevant experimental skills described in the resume. • GitHub (preferred) or code examples. To be considered for this position please visit our web site and apply on line at the following link: https://hr.caltech.edu/work/job_openings We are an equal opportunity employer and all qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability status, protected veteran status, or any other characteristic protected by law. Copyright 2025 Jobelephant.com Inc. All rights reserved. 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