Bioinformatics Jobs

Payroll Title: BIOINFORMATICS PROGR 2 Department: PEDIATRICS Hiring Pay Scale... $35.58 - $50.00 / Hour Worksite: Campus Appointment Type: Career Appointment Percent: 100% Union: Uncovered Total Openings: 2 Work Schedule: Days, 8 hour shifts, Monday - Friday #128709 Bioinformatics Programmer- Hybrid/Remote Filing Deadline: Wed 5/1/2024 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. UCSD Layoff from Career Appointment: Apply by 3/15/2024 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Special Selection Applicants: Apply by 3/27/2024. Eligible Special Selection clients should contact their Disability Counselor for assistance. This position will work a hybrid schedule which includes a combination of working both onsite on Campus and remote. DESCRIPTION The Department of Pediatrics is one of the largest departments within the School of Medicine with approximately 250 Faculty, 127 postdoctoral fellows (both MDs and PhDs) along with over 320 support staff (not including hospital staff). In addition, the Department has 68 clinical residents distributed across the Divisions. The missions of research, education and patient care are intertwined, and are integral to the goals of the department. The Department manages a university-affiliated children's health system with the physicians and leadership of the University of California, San Diego (UCSD), Rady Children's Hospital, and Rady Children's Specialists of San Diego, a Medical Practice Foundation, unifying pediatric patient care, research, education and community service programs. Under supervision, the Bioinformatics Programmer supports the development of two NIH-funded platforms, PanKBase and Common Fund Knowledge Center, both of which involve the collection and processing of genomic and other experimental data, recording detailed meta-data, establishing reproducible data processing pipelines and quality control standards, developing databases, web interfaces, APIs and other tools, and working collaboratively with other groups involved in these projects The incumbent uses professional bioinformatics concepts. Applies computational procedures to resolve a variety of analysis and research issues. Works on assignments of moderate scope where analysis of data requires a review of a variety of factors. Assists in additional analyses as needed to achieve research objectives. MINIMUM QUALIFICATIONS • Six (6) years of related experience, education/training, OR a Bachelor's degree in related area plus two (2) years of related experience/training. • Working knowledge of bioinformatics methods and data structures. • Working knowledge of applications programming and web development. • Working knowledge of databases. • Working project management skills. • Working knowledge of modern biology and applicable field of research. • Interpersonal skills in order to work with both technical and non-technical personnel at various levels in the organization. • Ability to communicate technical information in a clear and concise manner. • Self motivated, able to learn quickly, meet deadlines and demonstrate problem solving skills. • Working knowledge of application and data security concepts. • Experience with programming in Python and R, bioinformatics pipeline development, experience working with high-throughput experimental data, experience with cloud platforms such as AWS, ideally web development and web visualization development. SPECIAL CONDITIONS • Employment is subject to a criminal background check. Pay Transparency Act Annual Full Pay Range: $74,300 - $134,500 (will be prorated if the appointment percentage is less than 100%) Hourly Equivalent: $35.58 - $64.42 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. UC San Diego is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age or protected veteran status. For the University of California’s Affirmative Action Policy please visit: https://policy.ucop.edu/doc/4010393/PPSM-20 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

Description Come and join a family-owned global company with a long-term vision, and a human-centered culture.We are searching for a bioinformatics scientist to join the Sequencing team in the R&D Microbiology department. This opportunity offers the chance to work in a fast-paced environment with a dedicated and collaborative team. The Bioinformatics Scientist is responsible for designing... improving, modifying, and operating data analysis pipelines. Provide bioinformatics support to R&D. Description Responsibilities Develops and implements tools and reference databases for genomic analysis of eukaryotic pathogens Analyzenext-generationsequencing (NGS)datasuch asWGS and targeted sequencingand othermicrobiome data Construct NGS libraries for the assigned pipeline, which may be whole genomeor amplicon andoperation of related sequencing platform Generate high-quality reports forsequencing requestsdocumentation, communicate with team members effectively, and good time management. Interface with data scientists from across the company to leverage and develop new state of the art machine learning tools, data analysis capabilities, and informatic systems. Trainingotherstaff on the use of relevant bioinformatics software and tools. Collaborative attitude for department and inter-departmental activities both within the US and internationally Qualifications/ Requirements Bachelors Degree in Bioinformatics, Computer Science, Statistics, orarelated field with at least 5 yearsofwork experience in sequencing data analysis. Masters Degree in Bioinformatics, Computer Science, Statistics, orarelated field with at least 2 yearsofwork experience in sequencing data analysis. Knowledge of prokaryotic and eukaryotic molecular biology and microbiology. Solid computational skills and a deep understanding of NGS data and its analysisarerequired. Experience with bioinformatics tools (Blast,Resfinder, CLC workbench, Galaxy)arerequired. Codingskillsin at least one language (Perl, Python, R, etc.). Proficiency in Unix/Linux environment, including proficiency inshell scripting. Contribute tojournal publications and presentationsat professional meetings. Critical and Analytical thinking Skill to manage multiple projects simultaneously. Excellent communication and interpersonal skills

The Principal/Lead Bioinformatics Research Scientist functions independently to coordinate large-scale bioinformatics projects, providing project oversight, scientific and technical advice, programming support, and other input as required to achieve established objectives. Coordinates the specialized expertise of bioinformatics colleagues to achieve scientific objectives. Establishes best... practice recommendations, creates educational materials, and participates in educational initiatives at the laboratory, departmental, and/or institutional level. The new Department of Host-Microbe Interactions is seeking a talented and highly motivated Principal Bioinformatics Research Scientist or Lead Bioinformatics Research Scientist with extensive experience in large-scale microbial genomic data analysis to create and direct the new Microbial Computational Genomics and Bioinformatics Laboratory at St. Jude Children’s Research Hospital. The Microbial Computational Genomics and Bioinformatics Laboratory's mission is to support initiatives on microbial genomic, phylogenomic, and computational needs of researchers in the Department of Host-Microbe Interactions and the Center for Infectious Disease Research. The laboratory is a major initiative backed by substantial support as a part of our institutional strategic plan and will be fully integrated with research in microbial evolution, microbial pathogenesis, virology, the microbiome, computational biology, and data sciences at St. Jude Children’s Research Hospital. The focus of this position is on bacterial and viral genomics, using specimens and data obtained from our healthcare system to address key questions such as the acquisition of antimicrobial resistance, genome heterogeneity, outbreaks, transmission, and the identification of potential targets for the generation of novel therapies. This will be achieved using a combination of approaches, including: short-and long-read whole genome sequencing; phylogenomic, transcriptomic, and bioinformatics approaches involving electronic health data; and experimental data generated by collaborating partners. Data analysis will focus on answering clinical questions, generating insights to prevent infections, and building predictive models of disease susceptibility. The successful candidate will assemble a team of Ph.D.- and MS-level bioinformaticians and data scientists to analyze and interpret newly generated as well as existing large collections of microbial whole-genome sequences and metagenomes, using cutting-edge bioinformatics approaches to address project aims. The director will present research findings at project meetings, scientific conferences, and outreach/training events. There will be opportunities to initiate new projects and collaborate with other groups at St. Jude, including clinicians, basic scientists, and data scientists. The ideal candidate should have: • A PhD and extensive postdoctoral experience in microbial genomics, phylogenomics, bioinformatics, computational biology, and data science. • A strong CV that includes high-profile publications in the field of computational biology and microbial genomics. • Extensive expertise in analyzing, interpreting, and visualizing microbial genomics and microbiome datasets generated by high throughput sequencing technologies including short- (Illumina) and long-read- (e.g. PacBio and Oxford Nanopore) whole genome sequencing. • Extensive experience performing statistical analyses of large microbial genomic datasets and validation of genomic pipelines. • Expert-level proficiency in relevant programming languages such as R and Python, preferably in a High-Performance Computing (HPC) environment. • Preferably, proficiency in tools for ensuring reproducibility of pipelines, such as workflow management systems (e.g., nextflow or snakemake), and version control (e.g., git). • Preferably, experience with database management systems such as MySQL. • Extensive expertise in data integration and harmonization. • Possess a deep understanding of essential bioinformatics concepts and algorithms, e.g., alignment, SNP nucleotide calling, classification of nucleotide and protein sequence, phylogenetics, and genomic assembly. • Previous experience working in the field of infectious diseases is preferred. • Proven problem-solving skills and collaborative nature in fast-paced environment. • Excellent communication and presentation skills. Responsibilities: • Develop and apply state-of-the-art computational approaches to characterize and assemble microbial genomes and metagenomes. • Attract, recruit, and supervise staff to create a strong team for the operation of the Microbial Computational Genomics and Bioinformatics Laboratory. • Collaborate with the St. Jude Children’s Research Hospital data science initiative to develop computational pipelines for handling large, complex genomic datasets requiring custom approaches to accommodate project-specific analytical requirements. • Interface and collaborate with the IT department to develop and maintain capabilities for analysis, interpretation, and storage of the genomic data. • Maintain a high level of professional expertise through familiarity with scientific literature and scientific networking. • Create and implement educational and outreach programs to enhance microbial genomics capabilities and usage within the St. Jude Children’s Research Hospital community. • Train MS and PhD level graduate students in microbial computational genomics. • Collaborate and enable external funding applications. Minimum Education: • Bachelor's degree in bioinformatics, cheminformatics, statistics/computer science (with a background in biological sciences or chemistry) or related field. • Master's degree or PhD preferred. Principal Bioinformatic Research Scientist Minimum Experience: • Minimum Requirement: Bachelor's degree with 13+ years of relevant post-degree work in bioinformatics, cheminformatics, statistics/computer science (with a background in biological sciences or chemistry). • Experience Exception: Master's degree with 11+ years of relevant post-degree experience (OR) PhD with 8+ years of relevant post-degree experience. • Substantial experience in at least one programming or scripting language and at least one statistical package, with R preferred. Lead Bioinformatic Research Scientist Minimum Experience: • Minimum Requirement: Bachelor's degree with 10+ years of relevant post-degree work in bioinformatics, cheminformatics, statistics/computer science (with a background in biological sciences or chemistry). • Experience Exception: Master's degree with 8+ years of relevant post-degree experience (OR) PhD with 5+ years of relevant post-degree experience. • Substantial experience in at least one programming or scripting language and at least one statistical package, with R preferred. Compensation In recognition of certain U.S. state and municipal pay transparency laws, St. Jude is including a reasonable estimate of the compensation range for this role. This is an estimate offered in good faith and a specific salary offer takes into account factors that are considered in making compensation decisions including but not limited to skill sets, experience and training, licensure and certifications, and other business and organizational needs. It is not typical for an individual to be hired at or near the top of the salary range and compensation decisions are dependent on the facts and circumstances of each case. A reasonable estimate of the current salary range is $138,320 - $262,080 per year for the role of Principal/Lead Bioinformatics Research Scientist. Explore our exceptional benefits! Diversity, Equity and Inclusion St. Jude Children’s Research Hospital has a diverse, global patient population and workforce, built on the principles of diversity, equity and inclusion. Our founder Danny Thomas envisioned a hospital that would treat children of the world—regardless of race, religion or a family’s ability to pay. Learn more about our history and commitment. Today, we continue the mission to advance cures and means of prevention for pediatric catastrophic diseases through research and treatment. As we accelerate this progress globally, we believe our legacy of diversity, equity and inclusion is foundational to success. With the commitment of leaders at all levels of the organization, we strive to ensure the St. Jude culture, leadership approaches and talent processes are equitable and culturally responsive. View our Diversity, Equity and Inclusion Report to learn about the hospital’s roots in diversity, equity and inclusion, where we are today and our aspirations for an even better future. St. Jude is an Equal Opportunity Employer No Search Firms St. Jude Children's Research Hospital does not accept unsolicited assistance from search firms for employment opportunities. Please do not call or email. All resumes submitted by search firms to any employee or other representative at St. Jude via email, the internet or in any form and/or method without a valid written search agreement in place and approved by HR will result in no fee being paid in the event the candidate is hired by St. Jude

At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our employees around the world work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and volunteerism. We... give our best effort to our work, and we put people first. We’re looking for people who are determined to make life better for people around the world. The Diabetes, Obesity and Complications Therapeutic Area (DOCTA) of Eli Lilly and Company, focuses on the discovery of biologic, small molecule and genetic therapeutics for the treatment of diabetes, obesity and associated complications. The successful candidate will be responsible for supporting the data, tools and infrastructure that are critical for enabling clinical research objectives that will inform and accelerate the discovery and development of our next generation obesity therapeutics. Specifically, we are seeking a key multi-dimensional individual to integrate and analyze genomic, proteomic, metabolomic and phenotypic data from clinical trials on cloud based clinical multi-omics platforms. Would you like to be involved in groundbreaking drug discovery? Apply today to join the Lilly Team! You will operate as part of a team of DOCTA early discovery scientists and clinicians, translational scientists, bioinformaticians and geneticists to: • Work with bench scientists to develop experimental hypotheses and help design computational pipelines • Analyze high throughput molecular readouts including proteomics, RNAseq, single cell and spatial platforms and contribute to data interpretation and biological conclusions • Help building databases and visualizations using internal and external datasets • Manage and automate storing and integrating multi-omics data into databases hosted in the cloud • Contribute to scientific and strategy discussions to advance and improve Lilly Bioinformatics Basic Requirements: • Masters degree in biological data analysis and management, bioinformatics, computational biology or similar and at least 1+ years of relevant experience • Bachelors degree in biological data analysis and management, bioinformatics, computational biology or similar and at least 2+ years of relevant experience Additional Skills/Preferences: • Familiarity with Linux shell scripting and other commonly used programming languages • Experience working with high performance computing in a distributed/cloud environments • Demonstrable analysis experience with omics or relevant datasets • Strong written and verbal communication skills • Software development standard processes, including agile, version control, unit and integration testing, documentation, and deployment • Familiarity with AI/ML model development and applications • Experience with software and data architecture engineering • Ability to manage multiple concurrent, fast-paced projects and to work with collaborators from both wet lab and dry lab Eli Lilly and Company, Lilly USA, LLC and our wholly owned subsidiaries (collectively “Lilly”) are committed to help individuals with disabilities to participate in the workforce and ensure equal opportunity to compete for jobs. If you require an accommodation to submit a resume for positions at Lilly, please email Lilly Human Resources ( Lilly_Recruiting_Compliance@lists.lilly.com ) for further assistance. Please note This email address is intended for use only to request an accommodation as part of the application process. Any other correspondence will not receive a response. Lilly is an EEO/Affirmative Action Employer and does not discriminate on the basis of age, race, color, religion, gender, sexual orientation, gender identity, gender expression, national origin, protected veteran status, disability or any other legally protected status. Our employee resource groups (ERGs) offer strong support networks for their members and help our company develop talented individuals for future leadership roles. Our current groups include: Africa, Middle East, Central Asia Network, African American Network, Chinese Culture Network, Early Career Professionals, Japanese International Leadership Network (JILN), Lilly India Network, Organization of Latinos at Lilly, PRIDE (LGBTQ + Allies), Veterans Leadership Network, Women’s Network, Working and Living with Disabilities. Learn more about all of our groups. #WeAreLilly

Bio-Rad Clinical Diagnostics Group (CDG) is one of the leading global providers of tests for infectious and autoimmune disease screening, diabetes screening and monitoring, blood group typing, data management software solutions as well as quality control products for clinical laboratories. As a technical lead for Biomarker discovery, your daily activities will vary depending on the product being... developed and the platform it is developed on. Your primary responsibilities will be related to population genomics, application of sequence analysis methods, coordination of NGS sequencing activities, and developing NGS/genomics analysis pipelines. Each week’s activities will be a balance between custom analysis needs for a project, building or improving on existing pipelines and tools, and organizing presentations or updates for project meetings. How You Will Make an Impact: • Analysis of NGS datasets sequenced in-house or identified from public resources. • Developing Bioinformatics methods/tools to support Biomarker discovery activities. • Deploy analysis methods and organize datasets using AWS cloud resources. • Perform detailed analyses communicate findings to a broad audience. • Identify/characterize biomarkers and coordinate their assay design strategies. What you Bring: • Education: M.S. or PhD in a related field (Bioinformatics, Computational Biology, Software, Data Science). • Work Experience: 4+ years of relevant industry experience. • Experience developing/deploying NGS analysis pipelines in HPC or cloud environments. • Strong Python programming experience preferred. • Experience working with common Bioinformatics resources and tools (NCBI, Biopython, Blast, BWA, etc.) Location: Bio-Rad is pleased to offer the flexibility of a hybrid work environment for this role, 3 days in office, 2 days remote, working out of the Pleasanton, CA office Total Rewards Package: At Bio-Rad, we’re empowered by our purpose and recognize that our employees are as well. That’s why we offer a competitive and comprehensive Total Rewards Program that provides value, quality, and inclusivity while satisfying the diverse needs of our evolving workforce. Bio-Rad's robust offerings serve to enrich the overall health, wealth, and wellbeing of our employees and their families through the various stages of an employee’s work and life cycle. Benefits: We’re proud to offer a variety of options, including competitive medical plans for you and your family, free HSA funds, a new fertility offering with stipend, group life and disability, paid parental leave, 401k plus profit sharing, an employee stock purchase program, a new upgraded and streamlined mental health platform, extensive learning and development opportunities, education benefits, student debt relief program, pet insurance, wellness challenges and support, paid time off, Employee Resource Groups (ERG’s), and more! Compensation: The estimated base salary range for this position is $130,200 to $179,100 at the time of posting. Actual compensation will be provided in writing at the time of offer, if applicable, and is based on several factors we believe fairly and accurately impact compensation, including geographic location, experience, knowledge, skills, abilities, and other job permitted factors. This position is eligible for a variable annual bonus, which is dependent upon achievement of your individual objectives and Company performance. Who We Are: For 70 years, Bio-Rad has focused on advancing the discovery process and transforming the fields of science and healthcare. As one of the top five life science companies, we are a global leader in developing, manufacturing, and marketing a broad range of high-quality research and clinical diagnostic products. We help people everywhere live longer, healthier lives. Recently voted a Best Place to Work, Bio-Rad offers a unique employee experience with collaborative teams that span the globe. Here, you are supported by leadership to build your career and are empowered to drive change that makes an impact you can see. EEO Statement: Bio-Rad is an Equal Employment Opportunity/Affirmative Action employer, and we welcome candidates of all backgrounds. Veterans, people with physical or mental disabilities, and people of all race, color, sex, sexual orientation, gender identity, religion, national origin and citizenship status are encouraged to apply. Agency Non-Solicitation: Bio-Rad does not accept agency resumes, unless the agency has been authorized by a Bio-Rad Recruiting Representative. Please do not submit resumes unless authorized to do so. Bio-Rad will not pay for any fees related to unsolicited resumes. Fraud Alert: Bio-Rad has received reports of individuals posing as Bio-Rad recruiters to obtain information, including personal and financial, from applicants. Beware of these fake "recruiters" and job scams. Click here for more information on this scam and how to avoid it. #LI-AK1 #LI-Hybrid Legal Entity: (USA_1000)Bio-Rad Laboratories, Inc

SHIFT: Day (United States of America ... Seeking Breakthrough Makers Children’s Hospital of Philadelphia (CHOP) offers countless ways to change lives. Our diverse community of more than 20,000 Breakthrough Makers will inspire you to pursue passions, develop expertise, and drive innovation. At CHOP, your experience is valued; your voice is heard; and your contributions make a difference for patients and families. Join us as we build on our promise to advance pediatric care—and your career. CHOP’s Commitment to Diversity, Equity, and Inclusion CHOP is committed to building an inclusive culture where employees feel a sense of belonging, connection, and community within their workplace. We are a team dedicated to fostering an environment that allows for all to be their authentic selves. We are focused on attracting, cultivating, and retaining diverse talent who can help us deliver on our mission to be a world leader in the advancement of healthcare for children. We strongly encourage all candidates of diverse backgrounds and lived experiences to apply. A Brief Overview The bioinformatics group in the Department of Biomedical and Health Informatics (DBHI) at Children’s Hospital of Philadelphia (CHOP) is seeking a Bioinformatics Scientist to join our team to support ongoing basic and translational research within the Center for Childhood Cancer Research (CCCR) and the Department of Anesthesiology and Critical Care Medicine. The candidate will be embedded in the laboratories of Dr. Caroline Diorio and Dr. Robert B. Lindell and will support scientific projects focused on immune dysregulation disorders related to infection, or due to cancers or cancer therapies. Major areas of focus will be CAR-T and cytokine release syndrome/immune effector cell associated neurotoxicity syndrome, and the immunologic phenotypes of sepsis. The candidate will attend lab meetings and interact daily with principal investigators and individual lab members. Additionally, the candidate will work with a principal investigator overseeing the bioinformatics group in the CCCR and our extended bioinformatics group in DBHI to stay current on emerging technologies and algorithms. The successful candidate will preferably have a MS degree in Bioinformatics, Computational Biology, or a related field, and must have demonstrable skills in coding in R and/or Python, though both are preferred. The successful candidate will have had biology training, experience with high-performance and/or cloud-based computing environments and will be expected to analyze data generated from proximity extension assays (i.e. Olink), bulk RNA sequencing, and multiparameter flow cytometry. Additionally, the successful candidate is expected to have experience with single cell RNA sequencing somatic single nucleotide variants (SNVs), indels, structural variations (SVs), fusion transcripts, or copy number analyses as well as experience in other types of bioinformatics analyses, particularly those involving next-generation sequencing. The successful candidate will have experience with established algorithms/pipelines processing genomics data, and the ability to learn and apply new methods. They will also be able to conceive and develop innovative solutions for a variety of computational challenges of these data and develop creative data visualizations. Strong communication, time-management, and presentation skills are essential. Knowledge of cancer biology and/or genomics is preferred. The Bioinformatics Scientist I position is an entry level position for a non-PhD level professional. The focus of the position is development, maintenance, and evolution of the tools that support management and analysis of genomic, proteomic, and other complex molecular data types. This includes the support of internal bioinformatics software, implementation and modifications of existing algorithms, and execution of routine tasks of limited complexity within the general area of bioinformatics analysis. The position allows for a wide variety of activities described within the job responsibilities and encompasses positions within both research and clinical environments. All activities occur with a moderate to high degree of supervision and the individual will rely on a high degree of peer-to-peer mentorship. The Bioinformatics Scientist I is primarily focused on the support of higher level bioinformatics personnel but may have minor direct interaction with collaborators and designees to resolve primarily technical issues and solutions. What you will do • Pre-Analysis (40%): Contributes to the maintenance and development of bioinformatics tool portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provides efficient data management support. • Works with bioinformatics group members to develop functioning pipelines upstream of customized analysis workflows. • Maintains pipelines by staying current with evolving algorithms and standards and incorporating into pipeline. • Executes robust development testing for commonly used applications such as data processing pipelines. • Optimizes performance of applications by working with scientific computing and information systems groups to optimize hardware/software parameters. • Defines and prioritizes requirements for pipeline development over time to incorporate new technologies and platforms via functional communication with bioinformatics group members and bioinformatics end users. • Identifies appropriate open-source and commercial products that serve needs of pipeline and/or customized analyses of end users. • Implements and maintains commercial and open-source software for common bioinformatics and genomics data analysis. • Implements, updates and maintains locally stored data resources required for various analysis tasks. • Provides ad hoc support and one-on-one and group-based training on key bioinformatics software, features, and workflows. • Provides efficient data management support including file transfers, data formatting and manipulation, and basic integration of data from a variety of experimental and reference resources. • Develops and maintains working relationship with data providers such as sequencing cores within CHOP and infrastructure groups such as information systems. • Continually keeps abreast of evolving data generation platform fundamentals, file-specific information representation, and strategic application of code base to optimize value of data. • Maintains working knowledge of available commercial and openly accessible knowledge bases as they apply to bioinformatics analysis. • Coding (30%): Codes and generally supports both ad hoc, single task applications and larger pipeline applications that may combine multiple 3rd party and internally developed applications for genomics/proteomics/other complex data types and projects. • Implements, maintains, and regularly contributes to formal and bioinformatics group-centralized code management system. • Adopts appropriate forking and other strategies for robust code development. Apply to general bioinformatics group code base. • Adopts best practices for code development consistent with larger bioinformatics group. This includes choice of language based on the type of solution being developed, the likely life cycle and downstream usage of the resulting application, and integration with other systems. • Ensures that all routinely used tools (e.g. those included in shared analysis pipelines) are versioned and managed through a source control system. • Ensures that configuration files that provide parameters to algorithms and analysis software are versioned and managed through a source control system. • Develops and implements automated data-driven testing processes that test reproducibility of results between versions of pipeline software. • Develops and implements automated deployment processes that build and configure systems from source control repositories, eliminating the need to manually modify configuration files. • Regularly documents code, troubleshoot, and provide training when necessary. • Data Analysis (10%): Analyzes data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data under supervision from mentors and peers. • Develops robust analysis plans under supervision. • Incorporates QA/QC in analysis workflows. • Delivers analytical endpoints such as feature identification, annotation, characterization, prioritization, etc. • Reports results using, primarily, spreadsheets and, secondarily, abstracted materials such as slides and visuals. • Collaboration (10%): Works with both bioinformatics group members and end users/clients to understand specific needs in bioinformatics and end user-specific domains. • Attends group and team meetings and contributes primarily factual information regarding processes and approach. • Defers to mentors and peers in establishing relationships, but works within boundaries to accomplish analytical goals. • Academic Output (10%): Contributes to presentations, grants, and manuscripts under supervision by mentors and peers. Education Qualifications • Bachelor's Degree Required • Master's Degree biological or computational discipline Preferred Experience Qualifications • At least one (1) year in applied bioinformatics, computational, and genomics/proteomics experience. Preferred Experience • Four (4) or more years of experience in applied bioinformatics, genomics, and computational work. • Knowledge of cancer biology and/or genomics. Skills and Abilities • Strong UNIX/LINUX expertise required. • Experience with R strongly preferred. • Experience with Python, Perl, or other languages preferred. • Experience with pipeline or workflow development frameworks preferred. • Experience with data management preferred. • Familiarity with open source and commercial bioinformatics resources and software preferred. • Experience with genomic data analysis preferred. • Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture preferred. • Knowledge of the working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies and awareness of their strengths and weaknesses, as well as applicability to a specific biological problem is preferred. • Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases is preferred. • Accountability and attention to timelines. • Excellent organization and communication skills with an emphasis on strong presentation skills. • Ability to work in a team environment. To carry out its mission, CHOP is committed to supporting the health of our patients, families, workforce, and global community. As a condition of employment, CHOP employees who work in patient care buildings or who have patient facing responsibilities must be fully vaccinated against COVID-19 and receive an annual influenza vaccine. Learn more. Employees may request exemptions for valid religious and medical reasons. Start dates may be delayed until candidates are immunized or exemption requests are reviewed. EEO / VEVRAA Federal Contractor | Tobacco Statement

Description The Bioinformatics Software Engineer will collaborate with an interdisciplinary team of computational scientists on developing, implementing, documenting, and maintaining web-based software applications used by the larger biomedical and biological scientific communities for the analysis, integration, and visualization of large-scale biological omics, imaging, and clinical... datasets. Responsibilities • Work independently to identify and define technical requirements for tasks and timelines • Design, build, test, and deploy scalable bioinformatics web-based applications in a cloud environment • Develop, document, and maintain version-controlled code • Mock, develop, and enhance interactive UI design • Build Docker containers for various bioinformatics workflows • Maintain and enhance efficient solutions to reproducible workflow orchestrations on the cloud and local HPC • Author and manage technical documentation that concisely describes design and implementation details • Manage, publish, and maintain code repository (e.g. GitHub), container repository (e.g. DockerHub) • Respond to new feature requests, assist with issues raised by user base as needed • Report project status regularly to the Principal Investigator • Performs other related duties. Qualifications • Bachelors or Masters degree in Computer Science, Informatics, Mathematics, Statistics, Engineering or Biomedical Science. • 1-2 years of minimum experience; or experience demonstrated through prior research projects or coursework. • Knowledge of open-source bioinformatics tools and workflows • Working with high performance clusters and cloud technologies • Developing web-based applications with front ends utilizing frameworks such as React, NodeJS, RShiny, Flask, or Dash • Building and orchestrating containers (Docker) using technologies like Kubernetes • Extensive experience with Git or other version control systems Employer Description Strength Through Diversity The Mount Sinai Health System believes that diversity, equity, and inclusion are key drivers for excellence. We share a common devotion to delivering exceptional patient care. When you join us, you become a part of Mount Sinai’s unrivaled record of achievement, education, and advancement as we revolutionize medicine together. We invite you to participate actively as a part of the Mount Sinai Health System team by: • Using a lens of equity in all aspects of patient care delivery, education, and research to promote policies and practices to allow opportunities for all to thrive and reach their potential. • Serving as a role model confronting racist, sexist, or other inappropriate actions by speaking up, challenging exclusionary organizational practices, and standing side-by-side in support of colleagues who experience discrimination. • Inspiring and fostering an environment of anti-racist behaviors among and between departments and co-workers. We work hard to acquire and retain the best people and to create an inclusive, welcoming and nurturing work environment where all feel they are valued, belong and are able to professional advance. We share the belief that all employees, regardless of job title or expertise contribute to the patient experience and quality of patient care. Explore more about this opportunity and how you can help us write a new chapter in our history! “About the Mount Sinai Health System: Mount Sinai Health System is one of the largest academic medical systems in the New York metro area, with more than 43,000 employees working across eight hospitals, more than 400 outpatient practices, more than 300 labs, a school of nursing, and a leading school of medicine and graduate education. Mount Sinai advances health for all people, everywhere, by taking on the most complex health care challenges of our time — discovering and applying new scientific learning and knowledge; developing safer, more effective treatments; educating the next generation of medical leaders and innovators; and supporting local communities by delivering high-quality care to all who need it. Through the integration of its hospitals, labs, and schools, Mount Sinai offers comprehensive health care solutions from birth through geriatrics, leveraging innovative approaches such as artificial intelligence and informatics while keeping patients’ medical and emotional needs at the center of all treatment. The Health System includes approximately 7,400 primary and specialty care physicians; 13 joint-venture outpatient surgery centers throughout the five boroughs of New York City, Westchester, Long Island, and Florida; and more than 30 affiliated community health centers. We are consistently ranked by U.S. News & World Report's Best Hospitals, receiving high "Honor Roll" status, and are highly ranked: No. 1 in Geriatrics and top 20 in Cardiology/Heart Surgery, Diabetes/Endocrinology, Gastroenterology/GI Surgery, Neurology/Neurosurgery, Orthopedics, Pulmonology/Lung Surgery, Rehabilitation, and Urology. New York Eye and Ear Infirmary of Mount Sinai is ranked No. 12 in Ophthalmology. U.S. News & World Report’s “Best Children’s Hospitals” ranks Mount Sinai Kravis Children's Hospital among the country’s best in several pediatric specialties. The Icahn School of Medicine at Mount Sinai is ranked No. 14 nationwide in National Institutes of Health funding and in the 99th percentile in research dollars per investigator according to the Association of American Medical Colleges. Newsweek’s “The World’s Best Smart Hospitals” ranks The Mount Sinai Hospital as No. 1 in New York and in the top five globally, and Mount Sinai Morningside in the top 20 globally. The Mount Sinai Health System is an equal opportunity employer. We comply with applicable Federal civil rights laws and does not discriminate, exclude, or treat people differently on the basis of race, color, national origin, age, religion, disability, sex, sexual orientation, gender identity, or gender expression. We are passionately committed to addressing racism and its effects on our faculty, staff, students, trainees, patients, visitors, and the communities we serve. Our goal is for Mount Sinai to become an anti-racist health care and learning institution that intentionally addresses structural racism.” EOE Minorities/Women/Disabled/Veterans Compensation The Mount Sinai Health System (MSHS) provides a salary range to comply with the New York City Law on Salary Transparency in Job Advertisements. The salary range for the role is $72473 - $108709 Annually. Actual salaries depend on a variety of factors, including experience, education, and hospital need. The salary range or contractual rate listed does not include bonuses/incentive, differential pay or other forms of compensation or benefits

The Bioinformatics Core at UPMC Children's Hospital of Pittsburgh is seeking a full-time Bioinformatics Programmer/Analyst with a strong background in next-generation sequencing data analysis. Ideally, the candidate will provide support in designing, developing, and deploying robust bioinformatics workflows to support the analysis of high-throughput sequencing data generated from bench and... clinical research problems. Activities occur with a moderate degree of supervision with some latitude for independent judgment, and the candidate should demonstrate the ability to work effectively in a team environment. Bachelor's degree in bioinformatics, computational biology, biomedical engineering, or computer science is desirable. Previous knowledge in the use of high-performance computing cluster (Linux environment), and programming in R is required. Flexible daylight hours may be necessary. Equivalent relevant work experience may be substituted for degree requirement. This position is located at UPMC Children's Hospital of Pittsburgh in Lawrenceville. PA Child Abuse History Clearance, PA State Police Criminal Record Check, and FBI Criminal Record Check will be required prior to the start of employment. Also, a current TB test will be required as a condition of employment. EEO/AA/M/F/Vets/Disabled. Job Summary Evaluates business requirements and performs basic data integration and analysis. Develops routine analytical and reporting tools utilizing integrated data. Provides technical support. Essential Functions The Bioinformatics Analyst will develop and implement routine omics data analysis pipelines across a wide range of disease domains. • Evaluates business requirements and performs basic data integration and analysis. • Reviews business requirements given on assignment or may gather requirements and seek clarification from end users for straightforward analytical tasks. • Documents methods used and analyses performed as necessary. • Escalates complex issues to senior data analysts for further action. • Develops routine analytical and reporting tools. • Follows standard procedures for analytical and reporting tool development. • Integrates data from one or multiple sources into analytical tools. • Provides technical support on customized analytics and reporting tools. Physical Effort Sitting for long hours. The University of Pittsburgh is committed to championing all aspects of diversity, equity, inclusion, and accessibility within our community. This commitment is a fundamental value of the University and is crucial in helping us advance our mission, which includes attracting and retaining diverse workforces. We will continue to create and maintain an environment that allows individuals to discover, belong, contribute, and grow, while honoring the experiences, perspectives, and unique identities of all. The University of Pittsburgh is an Affirmative Action/Equal Opportunity Employer and values equality of opportunity, human dignity and diversity. EOE, including disability/vets. Assignment Category Full-time regular Job Classification Staff.Data Analyst I Job Family Information Technology Job Sub-Family Analytics Campus Pittsburgh Minimum Education Level Required Bachelor's Degree Minimum Years of Experience Required 1 Will this position accept substitution in lieu of education or experience? Combination of education and relevant experience will be considered in lieu of education and/ or experience requirement. Work Schedule Shift determined by manager. Work Arrangement Hybrid: Combination of On-Campus and Remote work as determined by the department. Hiring Range TBD Based Upon Qualifications Relocation Offered No Visa Sponsorship Provided No Background Check For position finalists, employment with the University will require successful completion of a background check Child Protection Clearances The following PA Act 153 clearances and background checks are required prior to commencement of employment and as a condition of continued employment: PA State Police Criminal Record Check, FBI Criminal Record Check, PA Child Abuse History Clearance. Required Documents Resume Optional Documents Cover Letter

At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our employees around the world work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and volunteerism. We... give our best effort to our work, and we put people first. We’re looking for people who are determined to make life better for people around the world. The Diabetes, Obesity and Complications Therapeutic Area (DOCTA) of Eli Lilly and Company, focuses on the discovery of biologic, small molecule and genetic therapeutics for the treatment of diabetes, obesity and associated complications. The successful candidate will be responsible for supporting the data, tools and infrastructure that are critical for enabling clinical research objectives that will inform and accelerate the discovery and development of our next generation obesity therapeutics. Specifically, we are seeking a key multi-dimensional individual to integrate and analyze genomic, proteomic, metabolomic and phenotypic data from clinical trials on cloud based clinical multi-omics platforms. Are you interested in working on groundbreaking science? Apply today to join the Lilly Team! You will operate as part of a team of DOCTA early discovery scientists and clinicians, translational scientists, bioinformaticians and geneticists to: • Steward a secure and scalable cloud platform that enables clinical omics collaboration and is tailored to internal and external project needs • Develop, orchestrate, and maintain primary, secondary, and tertiary NGS analytical pipelines • Ingest and integrate large scale omics (genomics, proteomics, etc.) and phenotypic data and surface the data to scientists within DOCTA • Engage and collaborate with other scientists to develop and maintain workflows needed to process and analyze multi-modal data • Function independently within dynamic team-oriented environments and within cross-functional project teams as part of a multi-dimensional role Minimum qualifications: • Bachelors Degree in bioinformatics, computational biology, data science, data engineering, or other applied science with 5+ years of relevant work experience • Masters Degree in bioinformatics, computational biology, data science, data engineering, or other applied science with 3+ years of relevant work experience Additional Skills/Preferences • Experience implementing and deploying bioinformatics pipelines using software and data architectural standard processes in a distributed/cloud environment • Proven experience with AI/ML model development and/or bioinformatic applications through publication in a peer reviewed journal • Expertise in systems biology, bioinformatics, and genomics • Demonstrated communication (oral and written) skills and ability to work collaboratively in a team-oriented environment • Extensive experience in solving scientific problems using programming languages relevant to data analysis such as Python, R, Bash (shell scripting), etc. • Strong problem-solving skills and proven ability to troubleshoot issues Eli Lilly and Company, Lilly USA, LLC and our wholly owned subsidiaries (collectively “Lilly”) are committed to help individuals with disabilities to participate in the workforce and ensure equal opportunity to compete for jobs. If you require an accommodation to submit a resume for positions at Lilly, please email Lilly Human Resources ( Lilly_Recruiting_Compliance@lists.lilly.com ) for further assistance. Please note This email address is intended for use only to request an accommodation as part of the application process. Any other correspondence will not receive a response. Lilly is an EEO/Affirmative Action Employer and does not discriminate on the basis of age, race, color, religion, gender, sexual orientation, gender identity, gender expression, national origin, protected veteran status, disability or any other legally protected status. Our employee resource groups (ERGs) offer strong support networks for their members and help our company develop talented individuals for future leadership roles. Our current groups include: Africa, Middle East, Central Asia Network, African American Network, Chinese Culture Network, Early Career Professionals, Japanese International Leadership Network (JILN), Lilly India Network, Organization of Latinos at Lilly, PRIDE (LGBTQ + Allies), Veterans Leadership Network, Women’s Network, Working and Living with Disabilities. Learn more about all of our groups. #WeAreLilly

Overview IGM Bioinformatics Analyst I... We are looking for a candidate that will assist in all aspects of next-generation sequencing analysis including data generation, analysis, interpretation, and publication. This entry-level position involves maintaining, running, and troubleshooting genomic pipelines for next-generation sequencing assays in clinical, translational and research settings. The ideal candidate will possess strong data processing and data quality control abilities, enjoy solving complex problems and have a desire to make an impact in medical care through advancing our understanding of the role of the human genome in disease. The candidate will also be encouraged to participate in bioinformatics related discussions, group meetings and presentations for the Institute for Genomic Medicine (IGM). Previous experience in bioinformatics or a computational biological background is preferred but not required for this position. Why Nationwide Children's Hospital? The moment you walk through our doors, you feel it. When you meet our patient families, you believe it. And when you talk with anyone who works here, you want to be part of it. Welcome to Nationwide Children’s Hospital, Where Passion Meets Purpose. Here, Diversity, Equity and Inclusion are integrated into our core values and practices. We are passionate about building, sustaining and evolving an inclusive and equitable environment. We are seeking individuals who live these values and want to share their experiences and efforts in support of our collective mission. We’re 14,000 strong. And it takes every one of us to improve the lives of the kids we care for, and the kids around the world we’ll never meet. Kids who live healthier, fuller lives because of the knowledge we share. We know it takes a Collaborative Culture to deliver on our promise to provide the very best, innovative care and to foster new discoveries, made possible by the most groundbreaking research. Anywhere. Ask anyone with a Nationwide Children’s badge what they do for a living. They’ll tell you it’s More Than a Job. It’s a calling. It’s a chance to use and grow your talent to make an impact that truly matters. Because here, we exist simply to help children everywhere. Nationwide Children’s Hospital. A Place to Be Proud. Responsibilities • Analyze a variety of research and clinical genomic data, including: o Running internally developed and commercial pipelines o Managing data storage o Preparing reports and figures for presentations and publications o Delivering and explaining analysis results to investigators • Participate in the validation and deployment of in-house bioinformatics tools • Evaluate and integrate community-developed bioinformatics tools, as well as maintaining awareness of current literature and tools in relevant areas • Collaborate with laboratory personnel to ensure proper data transfer and quality control throughout the sequencing workflow • Perform quality control on data produced for and by the Computational Genomics Group • Work with biologists and bioinformatics scientists to extract biological information from next-generation sequencing data. • Provide efficient data management support including: o Data formatting and manipulation o Integration of data from a variety of experimental and reference resources o Ensuring compliance with data security and privacy regulations • Participate in software development. Training will be provided as necessary, and opportunities will increase with experience. Qualifications Education: • Bachelor’s degree in biology, molecular biology, genetics, computer science, bioinformatics or related field. M.S degree is a plus. Knowledge, Skills and Abilities • Interest in genomics and bioinformatics, and willingness to learn concepts and terminology from these fields • Experience in the following areas a plus: o Genomic or general bioinformatics data analysis o Knowledge of common molecular biology laboratory processes o Scripting and process automation (Python/Perl, shell), as well as experience in a Linux/Unix environment o Working with software in a cloud environment (i.e., AWS) • Superior attention to detail and adherence to quality standards • Excellent verbal and written communication skills • Ability to manage multiple projects in a fast-paced environment with changing priorities • Ability to effectively collaborate in a dynamic, cross-functional matrix environment Minimum Physical Requirements: • Must be able to remain in stationary position for extended periods of time. • Must be able to repeatedly operate a computer and other office productivity machinery, such as a calculator, copy machine, and computer printer. • Must be able to occasionally move about inside the workspace to access objects necessary for the job (file cabinets, printers, etc.). • Must be able to accurately communicate information and ideas in person and through telecommunications. • The above list of duties is intended to describe the general nature and level of work performed by individuals assigned to this classification. It is not to be construed as an exhaustive list of duties performed by the individual so classified, nor is it intended to limit or modify the right of any supervisor to assign, direct, and control the work of employees under his/her supervision. • EOE M/F/Disability/Vet