Bioinformatics Jobs

What if the work you did every day could impact the lives of people you know? Or all of humanity? At Illumina, we are expanding access to genomic technology to realize health equity for billions of people around the world. Our efforts enable life-changing discoveries that are transforming human health through the early detection and diagnosis of diseases and new treatment options for patients. Working at Illumina means being part of something bigger than yourself. Every person, in every role, has the opportunity to make a difference. Surrounded by extraordinary people, inspiring leaders, and world changing projects, you will do more and become more than you ever thought possible. The Senior Bioinformatics Scientist will work in a collaborative, cross-functional environment to drive the development of existing and new sequencing technologies. In this role, they will design and implement pipelines for data quality assessment, provide actionable insights from experimental data, and contribute to defining Illumina’s R&D data quality and product strategy. Responsibilities: • Plan and execute quality assessments for existing and novel sequencing technologies. • Collaborate with subject matter experts across R&D functions to understand, define, and communicate sequencing technology requirements for research and clinical applications. • Design, deploy, and optimize pipelines for secondary analysis and quality assessment of sequencing data. • Contribute to the development of automated testing infrastructure. • Drive the analysis, integration, modeling, and interpretation of experimental data. • Translate complex analysis results into actionable recommendations for technology development and improvement. Present results clearly and effectively to both technical and non-technical stakeholders. • Stay current on the latest publications and relevant research and identify established methods that should be incorporate into method development. Requirements: • Strong understanding of next-generation sequencing technologies and their underlying principles. • Proficient programming skills with experience in one or more languages, such as Python or R. • Experience working with Unix/Linux and High Performance Computing (HPC) environments. • Proficiency with common bioinformatics algorithms and methods. Hands on experience of quality control and analysis of data generated from a variety of omics, such as WGS, scRNA, somatic profiling, proteomics, methylation, etc. • Solid understanding of statistical and biological concepts; strong data analysis and visualization skills. • Strong data analysis and visualization skills. Desired: • Experience working with cloud environments (e.g., AWS). • Experience with workflow management languages, such as Nextflow, WDL, etc. • Familiarity with containerization tools, such as Docker, and similar technologies. • Excellent communication skills and a proven track record of collaborating with diverse teams. Education: • Masters/PhD in bioinformatics, computer science, data science, engineering, mathematics or equivalent • Typically requires a minimum of 3 years of related experience with a Master’s degree; or a PhD with 0-3 years of experience; or equivalent experience #LI-HYBRID The estimated base salary range for the Sr Bioinformatics Scientist role based in the United States of America is: $126,800 – $190,200. Should the level or location of the role change during the hiring process, the applicable base pay range may be updated accordingly. Compensation decisions are dependent on several factors including, but not limited to, an individual’s qualifications, location where the role is to be performed, internal equity, and alignment with market data. Additionally, all employees are eligible for one of our variable cash programs (bonus or commission) and eligible roles may receive equity as part of the compensation package. We offer a wide range of benefits as innovative as our work, including access to genomics sequencing, family planning, health/dental/vision, retirement benefits, and paid time off. At Illumina, we strive to foster a diverse and inclusive workplace by cultivating an environment in which everyone contributes to our mission. Built on a strong foundation, Illumina has always been rooted in openness, collaboration, and seeking alternative views and perspectives to propel innovation in genomics. We are proud to confirm a zero-net gap in pay, regardless of gender, ethnicity, or race. We also have several Employee Resource Groups (ERG) that deliver career development experiences, increase cultural awareness, and demonstrate our collective commitment to diversity and inclusion in the communities we live and work. We are proud to be an equal opportunity employer committed to providing employment opportunity regardless of sex, race, creed, color, gender, religion, marital status, domestic partner status, age, national origin or ancestry, physical or mental disability, medical condition, sexual orientation, pregnancy, military or veteran status, citizenship status, and genetic information. Illumina conducts background checks on applicants for whom a conditional offer of employment has been made. Qualified applicants with arrest or conviction records will be considered for employment in accordance with applicable local, state, and federal laws. Background check results may potentially result in the withdrawal of a conditional offer of employment. The background check process and any decisions made as a result shall be made in accordance with all applicable local, state, and federal laws. If you require accommodation to complete the application or interview process, please contact accommodations@illumina.com. To learn more, visit: https://www.dol.gov/ofccp/regs/compliance/posters/pdf/eeopost.pdf. The position will be posted until a final candidate is selected or the requisition has a sufficient number of qualified applicants. This role is not eligible for visa sponsorship. Tagged as: Computer Science, Data Science, Life Sciences

Scientist I – Computational Biology and Bioinformatics The mission of the Allen Institute is to unlock the complexities of bioscience and advance our knowledge to improve human health. Using an open science, multi-scale, team-oriented approach, the Allen Institute focuses on accelerating foundational research, developing standards and models, and cultivating new ideas to make a broad, transformational impact on science. Join the Seattle Hub for Synthetic Biology (SeaHub), a new initiative at the intersection of academic creativity and start-up style execution. Our mission is to reimagine living cells and genomes as devices for recording biology and diagnostic information over time, as well as for encoding real-time therapeutic decision-making. Take off with us as we imagine — and create — a kind of cellular flight recorder that can also seize the controls. Be part of a small dynamic team on the ground floor of a new program with world-class scientists. SeaHub is looking for a Scientist I, Computational Biology and Bioinformatics for the “Read” team. The computational biologist should have a very strong background in each of two areas: 1) next-generation genomic technology development methodology and 2) writing ad hoc and bespoke bioinformatics scripts in Python and R to do detailed bioinformatics analyses of next-generation sequencing data. The role will include leading the effort to process and analyze large amounts of diverse sets of sequencing data (both short-read and long-read) to draw conclusions from wet lab experiments, in close collaboration with teams focused on expanding our abilities to engineer cells and genomes to autonomously “Write,” “Sense,” and “Act” at a molecular level. The successful candidate will play a key role in advancing our ability to record lineage and signaling information in the genomes of mammalian cells. This position requires a collaborative mindset, timeline-management abilities, and the ability to work cross-functionally with other research teams to drive project success. At the Allen Institute, we believe that science is for everyone – and should be open to everyone. We are dedicated to combating biases and reducing barriers to STEM careers more broadly. We also believe that science is better when it includes different perspectives and voices. We strive to make the Allen Institute a place where everyone feels like they belong and are empowered to do their best work in a supportive environment. We are an equal-opportunity employer and strongly encourage people from all backgrounds to apply for our open positions. Essential Functions • Develop next-generation sequencing analysis scripts and pipelines that run on cloud-based architectures (CodeOcean, AWS) • Manage cloud-based data transfer and storage on AWS and other cloud-based servers • Independently perform in-depth bioinformatics analyses on generated sequencing data from wet lab experiments and work with experimental teams to guide project direction • Develop and disseminate written reports summarizing data processing and analysis results and findings with a reasonable turnaround time • Develop bespoke computational biology tools and bioinformatics scripts as needed to advance internal research projects • Follow industry software development and bioinformatics best practices - participate in code reviews, version code, track issues, and write proper documentation • Troubleshoot technical barriers to progress in the reading of synthetic records • Maintain a detailed electronic notebook and create presentations to summarize progress and frame internal decision-making • Mentor and motivate others to perform the above functions Note: Reasonable accommodations may be made to enable individuals with disabilities to perform the essential functions. This description reflects management’s assignment of essential functions; it does not proscribe or restrict the tasks that may be assigned. Required Experience and Education • PhD in genetics, genomics, computational biology, bioinformatics, or related field; or equivalent combination of education and experience • Very strong coding ability in R and python Preferred Education and Experience • 0 – 5 years relevant post-doc experience • Expertise in functional genomics and screening, single cell genomics, synthetic biology, or related domains, including demonstrated mastery of molecular biology • Track-record of working as part of a team and understanding the importance of team dynamics • Understanding how data is generated from wet lab experiments in a molecular biology / cell culture laboratory • Expertise with AWS and CodeOcean cloud computing • Outstanding scientific achievement • Experience with molecular biology, mammalian cell culture, stem cell culture, developmental biology or immunology, genomics, and mouse genetics • Experience with lineage tracing algorithm development • Excellent written and verbal communication skills • Strong project management and organizational skills • Excellent analytical and problem-solving skills combined with capacity for complex, detail-oriented work Physical Demands • Fine motor movements in fingers/hands to operate computers and other office equipment Position Type/Expected Hours of Work • This role is currently working onsite and is expected to work onsite for the majority of the working hours. We are a Washington State employer, and the primary work location for Allen Institute employees is 700 Dexter Ave N.; any remote work must be performed in Washington State. Travel • The successful applicant may be invited to attend occasional national and international conferences Additional Comments • **Please note, this opportunity offers relocation assistance** • **Please note, this opportunity offers work visa sponsorship** Annualized Salary Range • $90,900 - $112,400 * • Final salary depends on required education for the role, experience, and level of skills relevant to the role, along with work location, where applicable. Benefits • Employees (and their families) are eligible to enroll in benefits per eligibility rules outlined in the Allen Institute’s Benefits Guide. These benefits include medical, dental, vision, and basic life insurance. Employees are also eligible to enroll in the Allen Institute’s 401k plan. Paid time off is also available as outlined in the Allen Institute’s Benefits Guide. Details on the Allen Institute’s benefits offering are located at the following link to the Benefits Guide: https://alleninstitute.org/careers/benefits. It is the policy of the Allen Institute to provide equal employment opportunity (EEO) to all persons regardless of age, color, national origin, citizenship status, physical or mental disability, race, religion, creed, gender, sex, sexual orientation, gender identity and/or expression, genetic information, marital status, status with regard to public assistance, veteran status, or any other characteristic protected by federal, state or local law. In addition, the Allen Institute will provide reasonable accommodations for qualified individuals with disabilities.

At GSK, we have bold ambitions for patients, aiming to positively impact the health of 2.5 billion people by the end of the decade. R&D is committed to discovering and delivering transformational vaccines and medicines to prevent and change the course of disease. We believe the Greater Boston area is an important hub for the biotech and pharma industry, which is why we've invested in growing our footprint and expanding our R&D space in Cambridge, with a primary focus on additional state-of-the-art lab space. Here, we will bring together talent and expertise, building upon GSK's long history of vaccine development, to create globally leading viral capabilities and cutting-edge vaccines technologies, as we add to our robust portfolio targeting infectious diseases at every stage of life. In the plan to create a new hub for mRNA-based vaccine discovery in Cambridge, we are building new laboratories that will be focused on the development of state-of-the-art methods that will be supporting deep product understanding, process and product development, as well as testing of pre-clinical and clinical samples for new mRNA-based vaccines. As a Principal Bioinformatics Scientist in the Molecular Analytics team, you will be expected to contribute toward our omics-based program supporting our mRNA-based vaccine discovery efforts. You will join our diverse preclinical research and development team working on cutting-edge technologies in addition to developing new assays suitable for candidate screening and mechanism of action studies. Key Responsibilities: • Design, develop, optimize, and implement next-generation sequencing (NGS) analysis pipelines for the characterization of RNA and DNA molecules of interest for vaccine research and development, and their mechanism of action. • Execute a wide range of traditional computational tasks, such as sequence identity and variant calling analysis, vector integration site analysis, gene expression profiling (bulk, single cell, spatial) from data generated across sequencing platforms, e.g. short and long read sequencers. • Analyze, interpret, and record experimental results and present them in written/oral communications. • Build statistical models and/or machine learning algorithms to extract features of interest. • Develop, and execute new methods and protocols and proactively incorporate new technology or techniques into practice with minimal supervision. • Collaborate with scientists throughout the organization to support NGS activities. • Perform complex data management tasks with supervision. • Lead vaccine development-related scientific investigations and publish the work in scientific journals and patent filings. Basic Qualifications: • Degree in bioinformatics, computational biology, systems biology, data or computer science, applied math, statistics, or related scientific field. • PhD with 3+ years of post-doc and/or job-related experience, MS with 6+ years of experience, or BS with 9+ years of experience. • Five or more years of academic or industry experience in computational biology or bioinformatics, along with genomics, epigenomics, or transcriptomics. • Five or more years of experience in programming (R and Python) and computational environments (Linux, HPC, cloud computing). • Five or more years of experience handling NGS data. • Five or more years of experience in next-generation sequencing technologies (Illumina, Pacific Biosciences, Oxford Nanopore) and their applications, e.g., bulk RNA-seq, single cell omics, immune repertoire profiling. Preferred Qualifications: • Proficiency in single cell and spatial omics data analysis and interpretation, using data generated from commercially available technologies such as 10x Genomics, Parse Bio, Scale Bio. • Proficiency in long-read sequencing data analysis from PacBio or ONT platforms. • Working knowledge of molecular and cell biology. • Effective written and oral communication skills as well as presentation skills. Fluency in English. • Must be detail oriented; possess problem solving skills, and the ability to handle multiple tasks. • Able to efficiently manage uncertainty, changes in priorities and timeline restrictions. • Experience in advanced statistics and AI/ML. • Hands-on experience in molecular and cell biology related to NGS, including but not limited to: Nucleic acid extraction, PCR, library preparation, and sequencing. • Experience in developing fully custom NGS analysis pipelines. #Vx-Cam #Li-GSK Please visit GSK US Benefits Summary t o learn more about the comprehensive benefits program GSK offers US employees. Why GSK? Uniting science, technology and talent to get ahead of disease together. GSK is a global biopharma company with a special purpose - to unite science, technology and talent to get ahead of disease together - so we can positively impact the health of billions of people and deliver stronger, more sustainable shareholder returns - as an organisation where people can thrive. We prevent and treat disease with vaccines, specialty and general medicines. We focus on the science of the immune system and the use of new platform and data technologies, investing in four core therapeutic areas (infectious diseases, HIV, respiratory/ immunology and oncology). Our success absolutely depends on our people. While getting ahead of disease together is about our ambition for patients and shareholders, it's also about making GSK a place where people can thrive. We want GSK to be a place where people feel inspired, encouraged and challenged to be the best they can be. A place where they can be themselves - feeling welcome, valued, and included. Where they can keep growing and look after their wellbeing. So, if you share our ambition, join us at this exciting moment in our journey to get Ahead Together. If you require an accommodation or other assistance to apply for a job at GSK, please contact the GSK Service Centre at 1-877-694-7547 (US Toll Free) or +1 801 567 5155 (outside US). GSK is an Equal Opportunity Employer. This ensures that all qualified applicants will receive equal consideration for employment without regard to race, color, religion, sex (including pregnancy, gender identity, and sexual orientation), parental status, national origin, age, disability, genetic information (including family medical history), military service or any basis prohibited under federal, state or local law. Important notice to Employment businesses/ Agencies GSK does not accept referrals from employment businesses and/or employment agencies in respect of the vacancies posted on this site. All employment businesses/agencies are required to contact GSK's commercial and general procurement/human resources department to obtain prior written authorization before referring any candidates to GSK. The obtaining of prior written authorization is a condition precedent to any agreement (verbal or written) between the employment business/ agency and GSK. In the absence of such written authorization being obtained any actions undertaken by the employment business/agency shall be deemed to have been performed without the consent or contractual agreement of GSK. GSK shall therefore not be liable for any fees arising from such actions or any fees arising from any referrals by employment businesses/agencies in respect of the vacancies posted on this site. Please note that if you are a US Licensed Healthcare Professional or Healthcare Professional as defined by the laws of the state issuing your license, GSK may be required to capture and report expenses GSK incurs, on your behalf, in the event you are afforded an interview for employment. This capture of applicable transfers of value is necessary to ensure GSK's compliance to all federal and state US Transparency requirements. For more information, please visit the Centers for Medicare and Medicaid Services (CMS) website at https://openpaymentsdata.cms.gov/

About the position We are seeking a passionate scientist with a background in "omics" data analysis to join our team at Washington University School of Medicine. This position is part of a collaboration between the laboratories of Dr. Mayssa Mokalled and Dr. Aaron Johnson. The successful candidate will utilize innovative bioinformatics, machine learning, and statistical approaches to support NIH-funded research projects focused on the mechanisms regulating spinal cord repair and muscle regeneration. The project encompasses conducting analyses on next-generation sequencing data, as well as single-cell genomics, single-cell transcriptome data, and spatial transcriptomics. Highly motivated individuals will have the opportunity for advancement within this dynamic research environment. The Mokalled and Johnson labs are committed to mentoring and nurturing a creative, thoughtful, and collaborative lab culture. Located in the Department of Developmental Biology at Washington University School of Medicine in St. Louis, these laboratories are part of an internationally recognized research institution consistently ranked among the top five medical schools in the country. The extreme collegiality of Washington University, combined with the large Regenerative Medicine Community and extensive infrastructural and core facility support, creates a vibrant research environment in many areas of regenerative biology. This is an especially exciting time to join the Mokalled and Johnson labs, as they are expanding into fully funded and new research directions at the cutting edge of spinal cord and muscle regeneration. This position also offers opportunities for publications and conference presentations, enhancing the professional development of the appointee. Responsibilities • Implements algorithms and computer software for analyzing omics-based data sets, including high-throughput, massively parallel genomic/proteomic/clinical data. , • Develops data management and analysis solutions that aid in the storage, investigation, and dissemination of large data sets. , • Coordinates research projects with other investigators and institutions. , • Participates in developing hypotheses and experimental design. , • Assists with reporting of methods, data, and results. Requirements • Bachelor's degree in computer science, bioinformatics, biostatistics, or related field plus two years of experience; OR a master's degree in computer science, bioinformatics, biostatistics, or related field; OR combined education and experience of seven years. , • Good understanding of computational biology. , • Ability to analyze and interpret large complex data sets, such as genome sequencing, microarray gene expression studies, human genetic studies, and model organism studies. , • Expertise in standard bioinformatics tools. Nice-to-haves • Analytical, reasoning, and problem-solving skills. , • Ability to communicate data in a clear, concise manner. Benefits • Up to 22 days of vacation, 10 recognized holidays, and sick time. , • Competitive health insurance packages with priority appointments and lower copays/coinsurance. , • Free Metro transit U-Pass for eligible employees. , • Forgivable home loan of up to $12,500 for closing costs and down payment for homes in eligible neighborhoods. , • Defined contribution (403(b)) Retirement Savings Plan with university contributions starting at 7%. , • Wellness challenges, annual health screenings, mental health resources, mindfulness programs, and employee assistance program (EAP). , • 4 weeks of caregiver leave to bond with a new child. , • Tuition coverage for employees and their families, including dependent undergraduate-level college tuition up to 100% at WashU and 40% elsewhere after seven years.

At Quest, we are on a continuous journey of discovery and development. It’s this attitude that has made us an industry leader and the #1 Diagnostic Lab in the US. For those joining us, we offer exciting and fast-moving career opportunities where you can affect change at a rate unheard of in many organizations of our size and scope. While we invest in and develop technology to drive our innovations, our ongoing success relies on our people. Quest Diagnostics Specialty Genetics products provide specific answers that clinicians need to deliver the appropriate diagnostic and prognostic care to their patients. 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 Solutions Engineering group, part of the Research and Development organization, in Molecular Genomics & Oncology unit. The team supports genetic/genomic testing in a highly regulated CAP/CLIA laboratory environment primarily 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 Solutions Engineering group is a cross-functional unit focusing on end-to-end design, develop, document, validation and launching of new high quality diagnostic tests and services for the benefit our patients. This professional can work in a 100% remote capacity and must be located in the US. • Lead technical design, implementation and delivery of projects aiming to launch new diagnostic tests and services. Act as technical owner for your project, being responsible for the end-to-end solution from technical side. • Work with cross-functional partners from business, operations, IT, R&D lab, geneticists, medical directors, and other bioinformatics stakeholders to create solutions that meet business and operational requirements. • Lead solution architecture and interface design including system architecture for bioinformatics and detailed data flow mapping. • Collaborate with stakeholders to ensure compliance of the solution with internal and external IT security and clinical policies and processes. • Work with bioinformatics domain leaders to select appropriate technology platforms for each step in the diagnostic process. • Oversee end-to-end testing and diagnostic test validation activities with the project team. • Lead the technical documentation and plan and execute handover to operations to ensure effective launch and operation of the solution. • Work with project management and report on progress, analyze risks and escalate issues to ensure accurate project management. Required Work Experience: • BS with 7+ years of experience, MS with 4+ years of experience, or PhD with 3+ years of experience in an industrial or academic setting working with clinical and biological data or equivalent and underlying technologies including bioinformatic methods, database development, query/scripting/programming languages, cloud development, agile methodology, DevOps and other data analysis tools. • At least 5 years of experience working in a regulated industrial life sciences environment. • At least 4 years of professional software development or technical engineering experience Preferred Work Experience / Skills: • Thorough understanding of end-to-end diagnostic process including ordering, wet lab, dry lab, result interpretation and result and data delivery. • Experience with solution design, system architecture, solution architecture, data flow modeling. • Experience in leading technical design and implementation of complex projects. • Experience with sequencing data analysis, bioinformatics, variant data analysis. • Knowledge of bioinformatics tools and workflow managers for sequencing data analysis and quality control. • Experience working with SQL and NoSQL databases. • Experience with designing and working with application programming interfaces (e.g. JSON based RESTful APIs). • Experience with designing and implementing solutions in the cloud. AWS experience is preferred. • Experience of working in clinical diagnostics setting (regulations, controlled processes, diagnostic test validation, environment management). • Solid understanding of human genetics and oncology in diagnostic setting. • Solid understanding of web lab process for DNA sequencing and working with or developing LIMS systems. • Infrastructure management: Terraform, AWS CDK. • Architecture design: Microsoft Visio, DrawIO, similar for crafting architecture diagrams. • Programming Languages: Python, javascript/typescript, R, etc. • Containerizing: Docker • Web Frameworks: Python Flask, React Native, Bootstrap • Reporting: R Markdown, Jupyter Notebook • Visualization: Experience with any of ggplot2/tidyverse, Plotly, matplot lib, Tableau, d3.js • Source Control: Git • CI/CD: Gitlab CI/CD, Github CI/CD Education: Bachelor’s Degree Required Master’s Degree or PhD Preferred Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets or any other legally protected status.

Job Title: Bioinformatics Scientist - III Location: Cambridge, MA Duration: 24 Months 02 Openings: 1 focusing on Genomic data & 2nd is for (Multi-Omics data & Transcriptomics analysis) Department: Data and Genome Sciences Group: Precision Genetics The Precision Genetics group within the Data and Genome Sciences Department is seeking a skilled Contractor to join our Computational Precision Genetics team. We are looking for a data scientist with extensive experience in genetic data analysis to contribute to our innovative research efforts. Key Responsibilities: • Data Ingestion: Query external databases to acquire relevant genetic/genomic datasets (e.g., dbSNP, 1000 Genomes Project, gnomAD, GTEx, Ensembl, Open Targets, ClinVar). • Genetic/Genomic Data Analysis: Perform quality control (QC) and analysis of genetic/genomic data, including genotype imputation from array data, variant calling and annotation using state-of-the-art methods (e.g., IMPUTE, Minimac, Eagle, BEAGLE, GATK, bcftools, samtools, ANNOVAR). • QTL Analysis: Conduct QTL analysis to identify genetic loci associated with quantitative traits, utilizing tools such as PLINK, R/qtl, or TASSEL. • Population Genetics Analysis: Analyze genetic variation across populations, including allele frequency estimation, linkage disequilibrium, and population structure analysis. • Data Integration: Integrate genetic datasets with other omics data, including genomic, epigenomic, transcriptomic and proteomic data, to provide comprehensive insights into gene function and regulation. • Documentation: Prepare detailed documentation of analysis methods and results in a timely manner. Quals: Required Qualifications, skills and experience: • Minimum: Ph.D. in Genetics, Genomics, Computational Biology, or a related field. • A proven track record of over 5 years in genetic data analysis. • Fundamental understanding of statistical methods and genetic data analysis and integration (e.g., variant analysis, population genetics, genomic annotations). • Proficiency in R, Python, and Bash, with the ability to establish best practices for reproducible data analyses. • Experience with high-performance computing (HPC) systems and AWS Cloud Computing (e.g., IAM, S3 buckets). • A collaborative and self-motivated individual with a strong work ethic, capable of managing multiple objectives in a dynamic environment and adapting to changing priorities. • Excellent written and verbal communication skills. Preferred Qualifications: • Experience with real-world genetic data processing and analysis. • Proficient in genetic/genomic data analysis tools and techniques. • Understanding of statistical genetics principles and methods. • Expertise in AI/ML. Note: • Onsite role at Cambridge, MA. • Do not submit candidates who are looking for remote. • Do not submit candidates with just BS/MS. Key skills: • Proficient in genetic/genomic data analysis tools and techniques-e.g., variant analysis, population genetics, genomic annotations. • Proficiency in R, Python, and Bash. • High-performance computing (HPC) systems and AWS Cloud Computing (e.g., IAM, S3 buckets).

At Quest, we are on a continuous journey of discovery and development. It’s this attitude that has made us an industry leader and the #1 Diagnostic Lab in the US. For those joining us, we offer exciting and fast-moving career opportunities where you can affect change at a rate unheard of in many organizations of our size and scope. While we invest in and develop technology to drive our innovations, our ongoing success relies on our people. Quest Diagnostics Specialty Genetics products provide specific answers that clinicians need to deliver the appropriate diagnostic and prognostic care to their patients. 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. Bioinformatics, US Operations – the role 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 Marlborough, MA. The team supports genetic/genomic testing in a highly regulated CAP/CLIA laboratory environment primarily 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 position is 100% remote and the professional must be located in the US. • Execute and improve sequence analysis workflows and automation • Track, troubleshoot and mitigate issues encountered in processing production samples • Assist in planning and development of solutions to recurring issues to be merged back into development branch maintained by the Engineering group • Develop web-based results display and dashboards for clinical geneticists, medical directors and operations lab personnel providing clarity in our process • Generate, wrangle, merge and glean information from varied and complex data sets Design and implementation 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 validation analysis for new genomic testing products. • Support production day-to-day operations • Write and maintain production documentation for compliance and supportability of all bioinformatics processes in production environment • Work directly with medical/quality/compliance to identify, track, resolve and report on any relevant quality-related issues • Produce charts and visualization for dashboards, reporting, and in support of data driven hypothesis testing • Perform LIS support duties (maintain database for user, tests, clients….) • 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 • * 5 years experience using formal programming and scripting languages • 5 years experience working on a Linux command-line to process, parse, and merge varied data sets • 2 years experience working with web services and implementing API communications (REST, SOAP, etc.) • 3 years experience in a distributed HPC environment (cluster, cloud) • Knowledge and understanding of genomics, next-generation sequencing, and bioinformatics • Experience developing and testing software • Experience with source control in a development, testing, and production environment • Automated testing experience; CI/CD experience preferred • Knowledge of CAP documentation requirements a plus • Experience communicating technical results and data is desirable Current tech stack experience is a plus Examples: • Programming Languages: Python, PERL, Groovy, javascript, terraform • Web Frameworks: Python Flask, React Native, Bootstrap • Environments: R Statistical Language, iPython, Jupyter • Visualization: Plotly, matplot lib, ggplot2/tidyverse, Tableau, d3.js • Database: SQL (e.g., postgress, MySQL), MongoDB • Cloud Computing: AWS • Infrastructure management: terraform • Pipeline Workflow Manager: Nextflow • Source Control: Git • CI/CD: Gitlab, AWS CDK • Containerizing: Docker • Microsoft UI: Access, VBA, Macros Education: Bachelor’s Degree - Required Master’s Degree or PhD - Preferred Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets or any other legally protected status.

Services Overview: • The successful candidate will work with stakeholders in the Quantitative Medicine and Genomics (QM&G) organization to update and maintain existing data resources and visualization tools and develop new dashboard solutions for evaluating target predictions against observed data. Key Responsibilities: • Update and maintain existing shiny app and Neo4J graph • Collaborate with team members to design and implement new framework solutions for data analysis and visualization. • Develop dashboards to evaluate the effectiveness of predictive models for clinical success against several metrics • Engage with experts in other departments during the development process. • Provide technical support and troubleshooting for end users • Create documentation for codebase and tools Qualifications: • Bachelors, (3-5 years). • MS degree (0-2) or higher in a quantitative field (Bioinformatics, Computer Science, Computational Genetics, Biostatistics or other field with a strong quantitative and computational background) • Proficiency in R or Python programming • Experience with git • Experience using SQL and / or Neo4j databases Preferred skills • Experience working on HPC or cloud environment • Experience developing web apps in shiny or flask • Domain knowledge in bioinformatics and / or genetics • Domain knowledge in machine learning • Experience developing dashboards Job Type: Contract Pay: $58.00 - $60.00 per hour Expected hours: 40 per week Benefits: • Health insurance Schedule: • 8 hour shift • Day shift • Monday to Friday Education: • Bachelor's (Preferred) Experience: • working on HPC or cloud environment: 5 years (Preferred) • developing web apps in shiny or flask: 5 years (Preferred) • knowledge in bioinformatics and / or genetics: 5 years (Preferred) • machine learning: 1 year (Preferred) • developing dashboards: 5 years (Preferred) • R or Python programming: 5 years (Preferred) • git: 5 years (Preferred) • using SQL and / or Neo4j databases: 5 years (Preferred) • quantitative and computational background: 5 years (Preferred) • bioinformatics: 5 years (Preferred) Work Location: Remote

Current Employees: If you are a current Staff, Faculty or Temporary employee at the University of Miami, please click here to log in to Workday to use the internal application process. To learn how to apply for a faculty or staff position using the Career worklet, please review this tip sheet. The University of Miami/UHealth Department of SCCC has an exciting opportunity for a Full Time Bioinformatics Analyst (Cheminformatics) to work the UHealth Medical Campus in Miami, FL 33146. CORE JOB SUMMARY The Bioinformatics Analyst works with research staff to extend capabilities in bioinformatics and improve understanding of genetic variation in human health and disease. The Bioinformatics Analyst maintains and performs analysis with existing pipelines while assisting and benchmarking the development of novel methods. CORE JOB FUNCTIONS ● Runs and maintains existing next generation data analysis pipelines. ● Assists senior bioinformatics analysts in pipeline and algorithm development and validation. ● Extracts features of interest from data relating to specific biological questions. ● Contributes to the maintenance of genomic and clinical databases. ● Performs statistical and integrative data analysis on genomics and clinical data. ● Works along-side other team members and data analysts. ● Follows standard operating procedures, documentation, and scripts to generate reports. ● Adheres to University and unit-level policies and procedures and safeguards University assets. This list of duties and responsibilities is not intended to be all-inclusive and may be expanded to include other duties or responsibilities as necessary. CORE QUALIFICATIONS Education: PhD degree in relevant field Experience: Minimum 1 year of relevant experience Knowledge, Skills and Attitudes: ● Skill in collecting, organizing, and analyzing data. ● Ability to recognize, analyze, and solve a variety of problems. ● Ability to exercise sound judgment in making critical decisions. ● Ability to process and handle confidential information with discretion. ● Proficiency in computer software. Department Specific Functions & Qualifications The Sylvester Comprehensive Cancer Center & the Department of Molecular and Cellular Pharmacology are actively seeking a full-time Bioinformatics / Cheminformatics Analyst to work on the UHealth campus in Downtown Miami. At Sylvester, we are at the cutting edge of healthcare innovation, leveraging artificial intelligence and machine learning to transform drug discovery and development. Our mission is to accelerate the delivery of therapeutic solutions to patients through state-of-the-art technology and groundbreaking research. The Analyst will leverage expertise in computational chemistry, bioinformatics, and AI to process and analyze large-scale biomedical, small molecule bioactivity, structural biology, image, and clinicogenomic datasets, integrating them with the Sylvester Data Portal. The successful candidate will work within an interdisciplinary team of research scientists, data engineers, and full-stack developers, using state-of-the-art software development practices to enhance the university’s research activities. Primary Responsibilities: ● Process and analyze large-scale multi-omics and drug discovery datasets (WES, WGS, bulk/single-cell RNA-Seq, ATAC-Seq, Drug Screening, CRISPR Screening). ● Develop and maintain production-grade pipelines for processing and analysis of diverse biomedical datasets. ● Develop visualization and bioinformatic analysis tools for exploring diverse biomedical data. ● Integrate developed tools and pipelines with Sylvester’s internal end-user data analytics platform. ● Apply state-of-the-art AI, bioinformatics, and biostatistics approaches to cancer precision medicine. ● Write standard operating procedures and other relevant documentation. ● Develop and apply AI/ML models for structure-based and ligand-based drug design. ● Utilize computational tools to predict and optimize pharmacokinetic (PK) and pharmacodynamic (PD) properties of drug candidates. ● Design and implement algorithms to identify novel drug candidates and elucidate their mechanisms of action. ● Integrate and analyze large-scale biological, chemical, and clinical datasets to extract insights and inform drug discovery decisions. ● Collaborate with cross-functional teams to advance drug discovery projects. ● Analyze and interpret PK/PD data using advanced statistical and modeling software. ● Stay updated with advancements in computational chemistry, AI, and bioinformatics. ● Contribute to the development of new computational tools and methodologies. ● Present findings to both technical and non-technical stakeholders. ● Participate in scientific discussions and strategy meetings, providing AI/ML expertise. ● Author scientific papers, reports, and patents related to AI/ML in drug discovery. Preferred Requirements ● PhD or MSc degree in computational chemistry, computational biology, medicinal chemistry, pharmaceutical sciences, computational sciences, or a related field. ● Fluency in R or Python and Unix (bash). ● Experience with analyzing and interpreting different omics and/or drug discovery datasets (WES, WGS, bulk/single-cell RNA-Seq, ATAC-Seq, Drug Screening, CRISPR Screening). ● Experience with using common open-source bioinformatics/NGS workflows (BWA, STAR, Picard, GATK, etc.). ● Familiarity with machine learning frameworks (e.g., Scikit-learn, TensorFlow, PyTorch), and developing and deploying machine learning models. ● Highly motivated, strong work ethic, and able to work independently and with a team. ● Excellent skills in communication, organization, and time management. Preferred Qualifications ● For Ph.D. holders: 0-3 years of relevant experience in computational chemistry, AI, and drug discovery. ● Deep expertise with chemical toolkits such as DeepChem, ChemAxon, OEChem, or RDKit. ● Familiarity with drug discovery databases (CTRP, GDSC, PRISM, CCLE, DepMap, LINCS) and publicly available clinicogenomic datasets (CPTAC, TCGA, AACR Project GENIE, etc.). ● Experience with Cloud Computing Environments (e.g., Azure). ● Familiarity with relational (e.g., PostgreSQL) and/or NoSQL databases (e.g., MongoDB). ● Familiarity with container technologies (e.g., Docker). ● Experience with Generative AI tools and techniques. ● Familiarity with High Performance Computing. ● Familiarity with version control (Git). #LI-YC1 The University of Miami offers competitive salaries and a comprehensive benefits package including medical, dental, tuition remission and more. UHealth-University of Miami Health System, South Florida's only university-based health system, provides leading-edge patient care powered by the ground breaking research and medical education at the Miller School of Medicine. As an academic medical center, we are proud to serve South Florida, Latin America and the Caribbean. Our physicians represent more than 100 specialties and sub-specialties, and have more than one million patient encounters each year. Our tradition of excellence has earned worldwide recognition for outstanding teaching, research and patient care. We're the challenge you've been looking for. The University of Miami is an Equal Opportunity Employer - Females/Minorities/Protected Veterans/Individuals with Disabilities are encouraged to apply. Applicants and employees are protected from discrimination based on certain categories protected by Federal law. Click here for additional information. Job Status: Full time Employee Type: Staff Pay Grade: A9

Payroll Title: BIOINFORMATICS PROGR 3 Department: MEDICINE/ Biomedical Informatics Hiring Pay Scale $94,400 - $123,000/YR. Worksite: East Campus (La Jolla) Appointment Type: Career Appointment Percent: 100% Union: Uncovered Total Openings: 1 Work Schedule: Days, 8 hrs/day, Monday-Friday #135391 Bioinformatics Programmer Filing Deadline: Wed 5/21/2025 Apply Now UC San Diego values equity, diversity, and inclusion. If you are interested in being part of our team, possess the needed licensure and certifications, and feel that you have most of the qualifications and/or transferable skills for a job opening, we strongly encourage you to apply. This is a UC San Diego Internal Recruitment open to UCSD and UCSD Health System Staff Only UCSD Layoff from Career Appointment: Apply by 05/16/2025 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Special Selection Applicants: Apply by 05/21/2025. Eligible Special Selection clients should contact their Disability Counselor for assistance. DESCRIPTION Biomedical Informatics is an interdisciplinary field at the intersection of biology, medicine, and quantitative sciences. Biomedical Informatics researchers develop new methods to integrate and analyze vast amounts of data generated in the laboratory, clinical and translational research, clinical encounters, and population studies. The goals of the Department of Biomedical Informatics (DBMI) are to (1) promote excellence in biomedical informatics research, (2) collaborate with biomedical researchers in developing new quantitative methods that enable the formulation and testing of original hypotheses, (3) train the next generation of biomedical informatics specialists, and (4) interface with engineering, mathematics, information and computer science communities, serving as a hub for quantitative scientists focused on biomedical research. This department leads multiple federally and non-profit funded biomedical research projects, which are focused on the integration, analysis, and sharing of biomedical and health care data for the scientific community, as well as patient-centered research. In addition, the department runs a complex computational infrastructure that allows access and analysis of these data in a privacy-preserving manner. Under general supervision, applies machine learning and deep learning, and mission-critical healthcare real-time artificial Intelligence software development. This involves in-depth evaluation of variable factors impacting medium to large healthcare integration and implementation science projects of broad scope and complexities. Independently determines research and development projects and communicates project plans, milestones, and key performance indicators with team-members and executive-level management. Designs, develops, and optimizes components / tools for major high performance computing (HPC) applications, using cloud computing, and involving hundreds to thousands of hospital beds. May manage a team of data scientists and IT experts to integrate with existing electronic medical records and bedside devices, based on interoperability standards such as FHIR and C-CDA. May manage one or more team of research staff and engineers through the design, implementation, evaluation and continuous improvement cycle. Gives technical presentations to associated hospital IT leadership, clinical, and administrative leadership. Evaluates new hardware and software technologies for scalable and fault-tolerant deployment of clinical grade artificial intelligence clinical decision support systems. May organize and represent the organization at national and international critical care and machine learning/artificial intelligence conferences. Directs a team of engineers to ensure implementation and compliance with quality management systems. Leads a team of engineers to prepare submissions for FDA regulatory approval of software as a medical device. Uses skills as a seasoned, experienced bioinformatics programming professional with a broad understanding of computational algorithms and systems; identifies and resolves a wide range of issues / software bugs. Demonstrates good judgment in selecting methods and techniques for obtaining solutions. Operates independently. MINIMUM QUALIFICATIONS • Seven years of related experience, education/training, OR an Bachelor’s degree in related area plus three years of related experience/training. • Demonstrated experience working with Python, TensorFlow, PyTorch, Matlab. Must have experience with real-time implementation of artificial Intelligence clinical decision support systems and health care data exchange protocols such as HL7 and FHIR. • Experience working in a complex computing / data / CI environment encompassing all or some of the following: HPC, data science infrastructure and tools / software, and diverse domain science application base. • Demonstrated experience in one or more of the following: optimizing, benchmarking, HPC performance and power modeling, analyzing hardware, software, and applications for HPC / data / CI. • Experience with Graph Neural Networks, and Large Language Models, including Vector Databases. • Thorough knowledge of bioinformatics methods, applications programming, web development and data structures. Experience with Python, MATLAB, C. • Thorough knowledge of bioinformatics programming design, modification and implementation. • Understanding of relational databases, web interfaces, and operating systems. • Strong project management skills. • Thorough knowledge of modern biology and applicable field of research. • Communication skills to work with both technical and non-technical personnel in multiple fields of expertise and at various levels in the organization. • Ability to communicate technical information in a clear and concise manner. • Ability to interface with management on a regular basis. • Self motivated, work independently or as part of a team, able to learn quickly, meet deadlines and demonstrate problem solving skills. • Thorough knowledge of web, application and data security concepts and methods. PREFERRED QUALIFICATIONS • PhD degree in Computer / Computational / Data Science, or Domain Sciences with computer / computational / data specialization. SPECIAL CONDITIONS • Employment is subject to a criminal background check. Pay Transparency Act Annual Full Pay Range: $94,400 - $176,800 (will be prorated if the appointment percentage is less than 100%) Hourly Equivalent: $45.21 - $84.67 Factors in determining the appropriate compensation for a role include experience, skills, knowledge, abilities, education, licensure and certifications, and other business and organizational needs. The Hiring Pay Scale referenced in the job posting is the budgeted salary or hourly range that the University reasonably expects to pay for this position. The Annual Full Pay Range may be broader than what the University anticipates to pay for this position, based on internal equity, budget, and collective bargaining agreements (when applicable). Apply Now If employed by the University of California, you will be required to comply with our Policy on Vaccination Programs, which may be amended or revised from time to time. Federal, state, or local public health directives may impose additional requirements. If applicable, life-support certifications (BLS, NRP, ACLS, etc.) must include hands-on practice and in-person skills assessment; online-only certification is not acceptable. UC San Diego Health Sciences is comprised of our School of Medicine, Skaggs School of Pharmacy and Pharmaceutical Sciences, The Herbert Wertheim School of Public Health and Human Longevity Science, and our Student Health and Well-Being Department. We have long been at the forefront of translational - or "bench-to-bedside" - research, transforming patient care through discovery and innovation leading to new drugs and technologies. Translational research is carried out every day in the hundreds of clinical trials of promising new therapies offered through UC San Diego Health, and in the drive of our researchers and clinician-scientists who are committed to having a significant impact on patient care. We invite you to join our team! Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached. To foster the best possible working and learning environment, UC San Diego strives to cultivate a rich and diverse environment, inclusive and supportive of all students, faculty, staff and visitors. For more information, please visit UC San Diego Principles of Community. The University of California is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, protected veteran status, or other protected status under state or federal law. For the University of California’s Anti-Discrimination Policy, please visit: https://policy.ucop.edu/doc/1001004/Anti-Discrimination UC San Diego is a smoke and tobacco free environment. Please visit smokefree.ucsd.edu for more information. UC San Diego Health maintains a marijuana and drug free environment. Employees may be subject to drug screening.