Bioinformatics Jobs

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.

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 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/

Overview Fred Hutchinson Cancer Center is an independent, nonprofit organization providing adult cancer treatment and groundbreaking research focused on cancer and infectious diseases. Based in Seattle, Fred Hutch is the only National Cancer Institute-designated cancer center in Washington. With a track record of global leadership in bone marrow transplantation, HIV/AIDS prevention, immunotherapy and COVID-19 vaccines, Fred Hutch has earned a reputation as one of the world’s leading cancer, infectious disease and biomedical research centers. Fred Hutch operates eight clinical care sites that provide medical oncology, infusion, radiation, proton therapy and related services, and network affiliations with hospitals in five states. Together, our fully integrated research and clinical care teams seek to discover new cures to the world’s deadliest diseases and make life beyond cancer a reality. At Fred Hutch we value collaboration, compassion, determination, excellence, innovation, integrity and respect. Our mission is directly tied to the humanity, dignity and inherent value of each employee, patient, community member and supporter. Our commitment to learning across our differences and similarities make us stronger. We seek employees who bring different and innovative ways of seeing the world and solving problems. The Bioinformatics Analyst I-II will provide data analysis services to researchers in the Dhodapkar lab, particularly focusing on single cell genomics, integration of high-dimensional immunologic data and genome sequencing. This position requires the ability to work independently, manage multiple overlapping demands, and communicate effectively with faculty, post-doctoral fellows, and research staff on a wide range of topics in biology, analytical biochemistry, sound experimental design, and data science. The Bioinformatics Analyst works closely with Shared Resources cores, especially Genomics and Hutch Data core, to ensure that data quality is high and that users have access to advice and continuing dialog as they review results. Given the large volumes and diverse types of data generated and integrated in Bioinformatics projects, practical applied programming skills are also essential. At Fred Hutchinson Cancer Center, all employees are expected to demonstrate a commitment to our values of collaboration, compassion, determination, excellence, innovation, integrity, and respect. Responsibilities • Analyze large sequence datasets from diverse workflows including exome capture, RNA-seq, single cell sequencing, ATAC-seq, and CRISPR screens. • Work with Hutch scientists to refine computational research questions and develop analytical processes that can be applied to these genomic datasets. • Consult with researchers on sound experimental design. • Identify appropriate bioinformatics tools to meet the needs of proposed projects. • Partner with researchers who are developing novel assays to design appropriate processing and analysis workflows. • Review current literature to identify and adopt software and methodologies, making new analysis capabilities available to the team. • Provide figures and written sections to document methods and results for manuscripts, presentations, and grant applications. • Collaborate with colleagues in the Genomics Shared Resource and the Hutch Data Core to ensure the integrity and consistency of primary data, track experimental methods and metadata, define standardized analysis pipelines, and provide support as stakeholders analyze and interpret results. • Train laboratory members and collaborators on analytic workflows. • Upload and maintain datasets, workflows, and code (for example GEO, Github). • Other duties as assigned. Qualifications MINIMUM QUALIFICATIONS Bioinformatics Analyst I: • Bachelor’s degree in bioinformatics, computational biology, genetics, or related field. • Some experience in computational analysis of large, complex sequence-based molecular data sets. • Demonstrated proficiency in R and Python 3 are essential. • Familiarity with workflow and scheduling software (e.g., Slurm). • Excellent written and verbal communication skills. Bioinformatics Analyst II: • Bachelor’s degree in bioinformatics, computational biology, genetics, or related field with at least three years’ direct experience in computational analysis of large sequence-based molecular data sets. • Direct experience must include best-practice germline & somatic variant calling from exome capture data, analysis of bulk RNA-seq data with multiple contrasts, analysis of multimodal single-cell profiling data, epigenetic profiling, gene set enrichment, and integration of data across multiple modalities (e.g., epigenetic profiling and RNA-seq). • Effective use of shell scripting and significant fluency in R and Python 3 are essential. • Facility with commonly used Bioconductor packages, ggplot, tidyverse etc. • Ability to generate and customize common data visualizations (PCA plots, volcano plots, Circos plots, etc). • Familiarity with workflow and scheduling software (e.g. Slurm). • Excellent written and verbal communication skills are absolutely required. PREFERRED QUALIFICATIONS Bioinformatics Analyst I: • A year of more of direct experience in computational analysis of large, complex sequence-based molecular data sets. Bioinformatics Analyst II: • Master’s degree in bioinformatics, computational biology, genetics, or related field. • Two+ years of experience in software development, data engineering, data science, or related field with a track record of manipulating, processing, and extracting value from large datasets. • Experience with single cell transcriptomic analyses and associated pipelines. (e.g. Seurat). • Direct experience includes whole exome sequencing, and integration of data across multiple modalities (e.g., TCR-seq, CITE-seq, ChIP-seq, ATAC-seq, and CRISPR/Cas9 knockout screens). Bioinformatics Analyst I: The annual base salary range for this position is from $77,976 to $102,211, and pay offered will be based on experience and qualifications. Bioinformatics Analyst II: The annual base salary range for this position is from $78,894 to $118,310, and pay offered will be based on experience and qualifications. Fred Hutchinson Cancer Center offers employees a comprehensive benefits package designed to enhance health, well-being, and financial security. Benefits include medical/vision, dental, flexible spending accounts, life, disability, retirement, family life support, employee assistance program, onsite health clinic, tuition reimbursement, paid vacation (12-22 days per year), paid sick leave (12-25 days per year), paid holidays (13 days per year), paid parental leave (up to 4 weeks), and partially paid sabbatical leave (up to 6 months). Additional Information We are proud to be an Equal Employment Opportunity (EEO) and Vietnam Era Veterans Readjustment Assistance Act (VEVRAA) Employer. We do not discriminate on the basis of race, color, religion, creed, ancestry, national origin, sex, age, disability (physical or mental), marital or veteran status, genetic information, sexual orientation, gender identity, political ideology, or membership in any other legally protected class. We desire priority referrals of protected veterans. If due to a disability you need assistance/and or a reasonable accommodation during the application or recruiting process, please send a request to Human Resources at hrops@fredhutch.org or by calling 206-667-4700.

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.

Overview Fred Hutchinson Cancer Center is an independent, nonprofit organization providing adult cancer treatment and groundbreaking research focused on cancer and infectious diseases. Based in Seattle, Fred Hutch is the only National Cancer Institute-designated cancer center in Washington. With a track record of global leadership in bone marrow transplantation, HIV/AIDS prevention, immunotherapy and COVID-19 vaccines, Fred Hutch has earned a reputation as one of the world’s leading cancer, infectious disease and biomedical research centers. Fred Hutch operates eight clinical care sites that provide medical oncology, infusion, radiation, proton therapy and related services, and network affiliations with hospitals in five states. Together, our fully integrated research and clinical care teams seek to discover new cures to the world’s deadliest diseases and make life beyond cancer a reality. At Fred Hutch we value collaboration, compassion, determination, excellence, innovation, integrity and respect. Our mission is directly tied to the humanity, dignity and inherent value of each employee, patient, community member and supporter. Our commitment to learning across our differences and similarities make us stronger. We seek employees who bring different and innovative ways of seeing the world and solving problems. The laboratory of Dr. Xueqiu Lin in the Computational Biology Program of the Public Health Sciences and Human Biology Divisions has an open position for a Bioinformatics Analyst I/II. We are seeking a highly motivated individual who will bring their knowledge and computational skills to the study of cancer functional genomics. Candidates who are excited to be part of a team working on computational/statistical model development and large/complex ‘omics’ data analysis of cancer genomes to study cancer are encouraged to apply. Please visit the lab website for more information: https://research.fredhutch.org/lin/en.html. The position has a competitive salary with great benefits. The Lin Laboratory uses CRISPR screen technologies, computational genomics, and interpretable deep learning models to study cancer risk and to advance precision medicine. We are building on this strong computational program by implementing wet-lab operations in a fully renovated laboratory space in the Lake Union Steam Plant Building, the newest Fred Hutch facility. The Steam Plant building is home to 23 laboratories consisting of 275 experts in computational biology, data science, and immunotherapy who use cutting-edge technologies and tools to revolutionize cancer treatment. We work in an interdisciplinary team environment with many local and external experts. All our projects involve partnering with investigators and laboratories who have diverse expertise in computational, genomic, molecular, experimental, and cancer biology, and in clinical research. The study areas for this position center on genomic regulation, single cell sequencing, chromatin and epigenetic profiling, cancer GWAS studies, high-throughput CRISPR screening and translation of cancer biomarkers to improve treatment strategies and develop CRISPR targeted therapy. The Bioinformatics Analyst I/II will work under the direction of the senior computational scientist to develop deep learning models and algorithm for deciphering the logic of regulatory code, work on a variety of bioinformatics analysis projects including bioinformatics method and software development; executing, improving, and developing bioinformatics pipelines based on evaluation of computational tools and reference databases; and working with experimental researchers to conduct and report data analysis using principles of good statistical scientific practice and reproducible research. Candidates with strong interest and/or expertise in any of these research areas are highly encouraged to apply • Application of statistical modeling, algorithm design, deep learning, machine learning and explainable artificial intelligence to study cancer and genetics. • Gene regulation, gene regulatory elements, cancer genomics, epigenetics, CRISPR high-content screen, genotype-environment interaction. • Analysis of large, complex CRISPR screen, genome, epigenome or transcriptome data To apply, please submit your application with the following: • Cover letter describing your experience and/or research interests is required. • Curriculum vitae • Example of your code either as (1) an attachment or (2) link(s) to public repositories (e.g. GitHub) Responsibilities The research interests/projects and responsibilities for this Analyst position in the Lin lab include: Bioinformatics Analyst I • Support and assist the senior computational scientist to develop deep learning models and implement algorithms. • Assist in the development and refinement of data analysis and integration methodologies and pipelines. • Generate figures and tables summarizing data outputs. • Work with research team to document, process, manage and store large datasets. • Developing and testing bioinformatics software. Bioinformatics Analyst II: • Interpret complex biological information, conduct statistical and genomic analysis. • Implement and maintain best practices in large-scale data management and database development. • Write custom scripts to access databases, perform and evaluate quality control and analyze Next Generation Sequencing (NGS) data. • Analyze FFPE-CUTAC to identify non-coding genomic mutations and interpret their function in oncogenic regulatory networks for novel biomarker identification and risk model development. • Develop and implement computational approaches to assist the design and development of high-throughput CRISPR screening. • Integrate the high-throughput CRISPR screening data with multi-omics data. • Prepare figures and written sections to document methods and results for manuscripts, presentations, and grant applications. • Engage in bioinformatics literature to ensure the availability of robust methods, resources, and data sources. • Present work at group meetings as well as occasional larger scientific meetings and contribute to scientific publications. Qualifications MINIMUM QUALIFICATIONS: Bioinformatics Analyst I: • Bachelor’s degree in one of these disciplines: Computer science, mathematics, statistics, physics, biostatistics, data science, bioinformatics, computational biology, computer/electrical engineering, or other related fields with at some prior experience applying computation analysis of large sequence-based molecular data in an academic research lab or industry setting. • Up to 2 years of experience with analyzing genome sequencing data. • Strong programming skills in R and Python. Bioinformatics Analyst II: All minimum qualifications from Level I, plus: • 3 years relevant experience, or a master’s degree with at least 1 year of relevant experience outside of the degree requirements PREFERRED QUALIFICATIONS: • Previous experience working with deep learning or statistical modeling • A background in cancer genomics • Experience working in and developing workflows for cloud computing environments • Experience with high performance computing environments • Strong skills in implementation of analytical tools at scale • Works well in team environments; strong communication skills; detail-oriented • Experience with pipeline management tools (Snakemake, WDL, Nextflow) Bioinformatics Analyst I: The annual base salary range for this position is from $77,976 to $102,211, and pay offered will be based on experience and qualifications. Bioinformatics Analyst II: The annual base salary range for this position is from $78,894 to $118,310, and pay offered will be based on experience and qualifications. This position may be eligible for relocation assistance.Fred Hutchinson Cancer Center offers employees a comprehensive benefits package designed to enhance health, well-being, and financial security. Benefits include medical/vision, dental, flexible spending accounts, life, disability, retirement, family life support, employee assistance program, onsite health clinic, tuition reimbursement, paid vacation (12-22 days per year), paid sick leave (12-25 days per year), paid holidays (13 days per year), paid parental leave (up to 4 weeks), and partially paid sabbatical leave (up to 6 months). Additional Information We are proud to be an Equal Employment Opportunity (EEO) and Vietnam Era Veterans Readjustment Assistance Act (VEVRAA) Employer. We do not discriminate on the basis of race, color, religion, creed, ancestry, national origin, sex, age, disability (physical or mental), marital or veteran status, genetic information, sexual orientation, gender identity, political ideology, or membership in any other legally protected class. We desire priority referrals of protected veterans. If due to a disability you need assistance/and or a reasonable accommodation during the application or recruiting process, please send a request to Human Resources at hrops@fredhutch.org or by calling 206-667-4700.

Overview Fred Hutchinson Cancer Center is an independent, nonprofit organization providing adult cancer treatment and groundbreaking research focused on cancer and infectious diseases. Based in Seattle, Fred Hutch is the only National Cancer Institute-designated cancer center in Washington. With a track record of global leadership in bone marrow transplantation, HIV/AIDS prevention, immunotherapy and COVID-19 vaccines, Fred Hutch has earned a reputation as one of the world’s leading cancer, infectious disease and biomedical research centers. Fred Hutch operates eight clinical care sites that provide medical oncology, infusion, radiation, proton therapy and related services, and network affiliations with hospitals in five states. Together, our fully integrated research and clinical care teams seek to discover new cures to the world’s deadliest diseases and make life beyond cancer a reality. At Fred Hutch we value collaboration, compassion, determination, excellence, innovation, integrity and respect. Our mission is directly tied to the humanity, dignity and inherent value of each employee, patient, community member and supporter. Our commitment to learning across our differences and similarities make us stronger. We seek employees who bring different and innovative ways of seeing the world and solving problems. The laboratory of Dr. Xueqiu Lin in the Computational Biology Program of the Public Health Sciences and Human Biology Divisions has an open position for a Bioinformatics Analyst I/II. We are seeking a highly motivated individual who will bring their knowledge and computational skills to the study of cancer functional genomics. Candidates who are excited to be part of a team working on computational/statistical model development and large/complex ‘omics’ data analysis of cancer genomes to study cancer are encouraged to apply. Please visit the lab website for more information: https://research.fredhutch.org/lin/en.html. The position has a competitive salary with great benefits. The Lin Laboratory uses CRISPR screen technologies, computational genomics, and interpretable deep learning models to study cancer risk and to advance precision medicine. We are building on this strong computational program by implementing wet-lab operations in a fully renovated laboratory space in the Lake Union Steam Plant Building, the newest Fred Hutch facility. The Steam Plant building is home to 23 laboratories consisting of 275 experts in computational biology, data science, and immunotherapy who use cutting-edge technologies and tools to revolutionize cancer treatment. We work in an interdisciplinary team environment with many local and external experts. All our projects involve partnering with investigators and laboratories who have diverse expertise in computational, genomic, molecular, experimental, and cancer biology, and in clinical research. The study areas for this position center on genomic regulation, single cell sequencing, chromatin and epigenetic profiling, cancer GWAS studies, high-throughput CRISPR screening and translation of cancer biomarkers to improve treatment strategies and develop CRISPR targeted therapy. The Bioinformatics Analyst I/II will work under the direction of the senior computational scientist to develop deep learning models and algorithm for deciphering the logic of regulatory code, work on a variety of bioinformatics analysis projects including bioinformatics method and software development; executing, improving, and developing bioinformatics pipelines based on evaluation of computational tools and reference databases; and working with experimental researchers to conduct and report data analysis using principles of good statistical scientific practice and reproducible research. Candidates with strong interest and/or expertise in any of these research areas are highly encouraged to apply • Application of statistical modeling, algorithm design, deep learning, machine learning and explainable artificial intelligence to study cancer and genetics. • Gene regulation, gene regulatory elements, cancer genomics, epigenetics, CRISPR high-content screen, genotype-environment interaction. • Analysis of large, complex CRISPR screen, genome, epigenome or transcriptome data To apply, please submit your application with the following: • Cover letter describing your experience and/or research interests is required. • Curriculum vitae • Example of your code either as (1) an attachment or (2) link(s) to public repositories (e.g. GitHub) Responsibilities The research interests/projects and responsibilities for this Analyst position in the Lin lab include: Bioinformatics Analyst I • Support and assist the senior computational scientist to develop deep learning models and implement algorithms. • Assist in the development and refinement of data analysis and integration methodologies and pipelines. • Generate figures and tables summarizing data outputs. • Work with research team to document, process, manage and store large datasets. • Developing and testing bioinformatics software. Bioinformatics Analyst II: • Interpret complex biological information, conduct statistical and genomic analysis. • Implement and maintain best practices in large-scale data management and database development. • Write custom scripts to access databases, perform and evaluate quality control and analyze Next Generation Sequencing (NGS) data. • Analyze FFPE-CUTAC to identify non-coding genomic mutations and interpret their function in oncogenic regulatory networks for novel biomarker identification and risk model development. • Develop and implement computational approaches to assist the design and development of high-throughput CRISPR screening. • Integrate the high-throughput CRISPR screening data with multi-omics data. • Prepare figures and written sections to document methods and results for manuscripts, presentations, and grant applications. • Engage in bioinformatics literature to ensure the availability of robust methods, resources, and data sources. • Present work at group meetings as well as occasional larger scientific meetings and contribute to scientific publications. Qualifications MINIMUM QUALIFICATIONS: Bioinformatics Analyst I: • Bachelor’s degree in one of these disciplines: Computer science, mathematics, statistics, physics, biostatistics, data science, bioinformatics, computational biology, computer/electrical engineering, or other related fields with at some prior experience applying computation analysis of large sequence-based molecular data in an academic research lab or industry setting. • Up to 2 years of experience with analyzing genome sequencing data. • Strong programming skills in R and Python. Bioinformatics Analyst II: All minimum qualifications from Level I, plus: • 3 years relevant experience, or a master’s degree with at least 1 year of relevant experience outside of the degree requirements PREFERRED QUALIFICATIONS: • Previous experience working with deep learning or statistical modeling • A background in cancer genomics • Experience working in and developing workflows for cloud computing environments • Experience with high performance computing environments • Strong skills in implementation of analytical tools at scale • Works well in team environments; strong communication skills; detail-oriented • Experience with pipeline management tools (Snakemake, WDL, Nextflow) Bioinformatics Analyst I: The annual base salary range for this position is from $77,976 to $102,211, and pay offered will be based on experience and qualifications. Bioinformatics Analyst II: The annual base salary range for this position is from $78,894 to $118,310, and pay offered will be based on experience and qualifications. This position may be eligible for relocation assistance.Fred Hutchinson Cancer Center offers employees a comprehensive benefits package designed to enhance health, well-being, and financial security. Benefits include medical/vision, dental, flexible spending accounts, life, disability, retirement, family life support, employee assistance program, onsite health clinic, tuition reimbursement, paid vacation (12-22 days per year), paid sick leave (12-25 days per year), paid holidays (13 days per year), paid parental leave (up to 4 weeks), and partially paid sabbatical leave (up to 6 months). Additional Information We are proud to be an Equal Employment Opportunity (EEO) and Vietnam Era Veterans Readjustment Assistance Act (VEVRAA) Employer. We do not discriminate on the basis of race, color, religion, creed, ancestry, national origin, sex, age, disability (physical or mental), marital or veteran status, genetic information, sexual orientation, gender identity, political ideology, or membership in any other legally protected class. We desire priority referrals of protected veterans. If due to a disability you need assistance/and or a reasonable accommodation during the application or recruiting process, please send a request to Human Resources at hrops@fredhutch.org or by calling 206-667-4700.

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. Microbiology & Immunology has an exciting opportunity for a full time Research Associate 3, SOM position. The incumbent assumes responsibility for the design and performance of research focused on the development of novel experimental therapies for human malignancies. The incumbent contributes to collaborations with scientists within the University of Miami or elsewhere. Moreover, this individual works as part of a team and assists with the maintenance of laboratory equipment, protocols, and supplies. CORE JOB FUNCTIONS • Maintains daily operations and performs procedures related to new and on-going research projects. • Assists with ordering, purchasing, and maintenance of all required reagents and supplies for laboratory activities, and monitors and maintains inventory of supplies and stocks. • Assists with the maintenance of institutional biosafety and animal care protocols, laboratory safety records, and standard operating procedures. • Performs and assists other research staff with standard laboratory techniques. • Develops, adapts, and implements new laboratory procedures. • Records, organizes, and writes up experimental results for submission of manuscripts and for scientific presentations. • Keeps abreast of latest literature in the field and searches for references to technical problems. • Maintains current knowledge of the methods and techniques related to the specific field of research. • 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 • Bachelor’s Degree in relevant field • Minimum 5 years of relevant experience DEPARTMENT ADDENDUM Department Specific Functions • Design and apply bioinformatics algorithms including unsupervised and supervised machine learning, dynamic programming, or graphic algorithms. • Compile data for use in activities such as gene expression profiling, genome annotation, and structural bioinformatics • Create novel computational approaches and analytical tools as required by research goals • Work with lab team to analyze problems, recommend technology-based solutions, or determine computational strategies. • Create or modify web-based bioinformatics tools and train personnel in technical or scientific procedures. • Prepare scientific or technical reports or presentations #LI-GD1 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: A7

The Department of Pathology at The Ohio State University Wexner Medical Center (OSUWMC) and the James Cancer Hospital Molecular Laboratory is seeking a Director of Clinical Bioinformatics at the Associate or Full Professor rank. Expertise in the areas of clinical bioinformatics and genomics is essential. Research interests in machine learning, artificial intelligence, digital spatial profiling, or the integration of genomics and digital pathology is preferred. Qualified applicants must possess an MD, MD-equivalent, PhD or MD/PhD degree, with relevant clinical board certification/ eligibility or clinical bioinformatic/informatics certification/ eligibility. The ability to conduct independent research is required and a history of obtaining competitive grant funding is desirable. Requirements: • Relevant practical experience in clinical bioinformatics, with prior experience in supervising variant scientists or annotators desirable • Well-developed interests in translational or basic research in clinical bioinformatics or genomics • Qualify for an academic appointment at the associate or full professor level – Academic rank and salary will be commensurate with previous training and experience This role will: • Oversee the clinical genomics laboratory staff of PhD bioinformaticians and masters-level variant scientists • Lead and support a research program on clinical or translational bioinformatics/genomics • Help create bioinformatic pipelines or novel software tools in genomic/computational pathology • Work with the molecular pathologists and clinical laboratory directors on automated data-driven workflows for clinical genomics or integrated pathology-genomics signouts • Molecular pathology signout, if applicable, based on training and certifications • Represent the pathology faculty in cancer center or institutional initiatives in genomics and bioinformatics • Serve as a mentor to graduate students, PhD candidates, medical students and other trainees

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.