Bioinformatics Jobs

We're hiring Bioinformatics Scientists with strong backgrounds in database development, management and analysis as they relate to human health and disease biomarkers, with the goal of improving disease prediction and prevention. With ICR, you'll get to: • Design, build, test and refine multiple large biomarker databases in collaboration with multiple ICR teams • Work with biological data analysts to access and improve large databases of health and disease biomarkers for use in predictive analytics and predictive modeling • Conduct complex bioinformatics analyses on large genomic, transcriptomic and epigenetic data from biofluids and cell lines as well as large protein, cfDNA, miRNA and epigenetic datasets • Design and build streamlined pipelines and algorithms for database querying and multiple other applications to support complex dataset analyses Please apply if you have: • An advanced degree in Bioinformatics or Computer Sciences with a focus on database architecture, access and querying • Extensive database architecture experience (e.g. SQL, MySQL, etc) • Extensive programming experience and intimate knowledge of programming languages for statistical analysis • Experience mining, analyzing and exploring genomic, epigenetic, transcriptomic (RNAseq), proteomic, metabolomic, and other -omic datasets Ideally, you'll also have: • Extensive working knowledge of various AI/machine-learning algorithms and their implementation in biological dataset analysis • A solid understanding of and appreciation for Bayesian statistics and methods • Personal interest in using statistics to evaluate disease models and aging biology And you'll need: • Ability to work in the United States without sponsorship • A can-do attitude and a friendly, easygoing personality Salary Starting base pay range: $155,000/yr - $230,000/yr Starting additional compensation range: $10,000/yr - $30,000/yr Starting position title and compensation are commensurate with experience.

• Job Type: Officer of Administration • Regular/Temporary: Regular • Hours Per Week: 35 • Salary Range: $85,000 - $95,000 The salary of the finalist selected for this role will be set based on a variety of factors, including but not limited to departmental budgets, qualifications, experience, education, licenses, specialty, and training. The above hiring range represents the University's good faith and reasonable estimate of the range of possible compensation at the time of posting. Position Summary We are seeking a highly motivated bioinformatician to join our innovative research team at the Center for Precision Medicine and Genomics (CPMG). Our mission is to revolutionize healthcare through the integration of personalized medicine into clinical practice. We collaborate closely with clinicians, research scientists, and genetic counselors to drive groundbreaking research and translate genomic discoveries into improved patient outcomes. The ideal candidate will be a skilled bioinformatician with a passion for leveraging genomic data to address complex biomedical challenges. You will contribute to a dynamic, interdisciplinary environment and collaborate with researchers from Columbia University and beyond on a variety of national and international projects. This position offers the opportunity to make a significant impact on the field of precision medicine. Responsibilities • Bioinformatics Analysis (40%): Provide comprehensive bioinformatics support for genomic data analysis, including sequence analysis, pipeline optimization, and data management. Utilize both cloud-based and on-premise computational resources (e.g., exome, genome, RNAseq). Collaborate with team members to ensure efficient data access, analysis, and interpretation. • Communication and Dissemination (20%): Effectively communicate complex bioinformatics findings to both technical and non-technical audiences through presentations, reports, and publications. Collaborate with researchers from diverse backgrounds to translate bioinformatics insights into actionable knowledge. • Workflow Development (20%): Design, develop, and optimize bioinformatics workflows and pipelines to efficiently process and analyze large-scale genomic datasets. Explore innovative approaches to data visualization, exploration, and mining. • Mentorship and Collaboration (20%): Mentor junior team members, including students and post-docs, in bioinformatics techniques and research methodologies. Collaborate with researchers across disciplines to drive successful research projects and grant applications. • Perform additional related duties and responsibilities as needed. Minimum Qualifications • Bachelor's degree in computer science, bioinformatics, or a related field with at least four years of relevant experience. • Master's or Doctoral degree in related field would substitute for experience. • Proficiency in programming languages such as R, Python, and Bash. • Strong communication and interpersonal skills. Preferred Qualifications • Master’s or PhD degree in computer science, bioinformatics, or a related field with at least two years of relevant experience. • Expertise in workflow management tools (e.g., CWL, Nextflow, WDL) and cloud computing platforms (AWS, GCP, Azure). • Advanced knowledge of statistical and machine learning techniques. Other Requirements • Successful completion of applicable compliance and systems training requirements. Equal Opportunity Employer / Disability / Veteran Columbia University is committed to the hiring of qualified local residents.

Organization Overview Cancer remains a daunting problem despite decades of active research into its molecular causes. Such studies have predominantly focused on the earliest stages of cancer progression,such as the formation of a cancer or genes involved in the growth of the primary tumor. In humans afflicted by cancer,the primary tumor is typically surgically resected or eliminated by radiation. Vast numbers of patients,nonetheless,die of cancer as a result of metastasis or the spread of cancer cells from the primary tumor site to distal organs. This process is,in fact,the overwhelming cause of death from cancer,and its occurrence changes a patient's prognosis to incurable. Despite its vast clinical significance and inherently fascinating underlying biology,the metastatic program is poorly understood both at the molecular level and at the cellular/tissue micro-environment levels. Our laboratory employs a multi-disciplinary approach involving molecular,biochemical,computational,imaging,and clinical association methods to characterize the critical regulatory pathways that mediate the steps of this process. By implanting human cancer cells obtained from patients with breast or colon cancer into recipient mice,we study and interfere with the various stages of metastasis. By comparing human cancer cells that are highly metastatic to those that fail to metastasize,we have uncovered a set of small RNA molecules (microRNAs) that suppress metastasis. Our future work is aimed at gaining a better understanding of the mechanisms by which these microRNAs block metastasis. Our hope is that a better understanding of this process will enhance our therapeutic arsenal against it. Overview As a Bioinformatics Assistant II, you will be trained in the analysis and interpretation of next-generation sequencing (NGS) data, originating from mouse experiments of cancer metastasis as well as patients, under the guidance of postdoctoral scientists and bioinformaticians. Responsibilities Responsibilities include: • Learn and assist in analyzing sequencing data using established pipelines • Learn and perform appropriate QC measures • Learn and develop/benchmark new tools for sequencing data analysis • Assist and collaborate with internal and external researchers in interpretation of sequencing data • Other responsibilities, as assigned Qualifications Requirements: • Bachelor's degree is required; Master's degree or equivalent experience preferred • Team-oriented • Excellent written and verbal communication skills • Collaboration skills and an eagerness to learn • A working understanding of code and script Preferred: • Exposure to NGS data analysis preferred • Training in statistics or machine learning is a plus. The Rockefeller University does not discriminate in employment on the basis of race, color, religion, sex (including pregnancy, gender identity), national origin, political affiliation, sexual orientation, marital status, disability, genetic information, age, membership in an employee organization, retaliation, parental status, military service or other non-merit factor. All qualified applicants will receive consideration for employment without regard to the characteristics listed above. The salary of the finalist selected for this role will be set based on various factors, including but not limited to organizational budgets, qualifications, experience, education, licenses, specialty, and training. The hiring range provided represents The Rockefeller University's good faith and reasonable estimate of the range of possible compensation at the time of posting. Compensation Range: Min USD $55,000.00/Yr. Compensation Range: Max USD $65,000.00/Yr.

Pay Range $131,800.00-$217,500.00 Company Overview The people of Memorial Sloan Kettering Cancer Center (MSK) are united by a singular mission: ending cancer for life. Our specialized care teams provide personalized, compassionate, expert care to patients of all ages. Informed by basic research done at our Sloan Kettering Institute, scientists across MSK collaborate to conduct innovative translational and clinical research that is driving a revolution in our understanding of cancer as a disease and improving the ability to prevent, diagnose, and treat it. MSK is dedicated to training the next generation of scientists and clinicians, who go on to pursue our mission at MSK and around the globe. Please review important announcements about vaccination requirements and our upcoming EHR implementation by clicking here. Important Note for MSK Employees: Your Career Hub profile is submitted to the hiring team as your internal resume. Please be sure your profile is fully complete with your skills, relevant experience and education (if required). Click here to learn more. Please note, this link is only accessible for MSK employees. Job Description Exciting Opportunity at MSK: Are you a Software Engineer enthusiastic about helping solve problems in cancer biology, genomics, and their clinical applications? Join us as a Bioinformatics Software Engineer IV! In this role you will lead the software engineering team who is developing the FDA-recognized precision oncology database OncoKB. OncoKB is an integral component of the clinical genomics platform at MSK, codifying MSK’s immense expertise on genomic biomarkers and their clinical applications. OncoKB is currently being used to annotate all patient sequencing reports at MSK as well as thousands of patients in retrospective cohorts for cancer researchers worldwide. The OncoKB software suite has been developed in-house at MSK since 2013. It includes a curation interface that supports content curation, a public website (oncokb.org) that hosts more than 1000 daily user visits worldwide, as well as a database and API that support real-time annotation of genomic variants identified in cancer patients. To better support clinical decisions and cancer research, we are looking to expand features of all OncoKB components. The Center for Molecular Oncology’s (CMO) mission is to promote precision oncology through genomic analysis to guide the diagnosis and treatment of cancer patients. The CMO brings together clinicians and scientists throughout MSK to conduct large-scale translational research involving molecular characterization of patient tumor specimens to identify genomic features that drive clinical outcomes. Role Overview: • Execute and oversee the systems, programs, and computational aspects of OncoKB. This includes leading the development and implementation of new features, ensuring the platform's stability and scalability, and leading all aspects of data management and integration. • Lead and develop a team of software engineers, providing technical guidance, mentorship, and support. This involves fostering a collaborative and productive work environment, setting clear goals and expectations, and conducting performance reviews. • Collaborate with the OncoKB Lead Scientist and SCMT to translate scientific and clinical requirements into technical specifications. This includes participating in meetings, reviewing documentation, and providing input on the feasibility and implementation of new features. • Lead all aspects of the deployment of OncoKB to its various outputs, including the public website (www.oncokb.org), cBioPortal for Cancer Genomics, and MSK-IMPACT clinical reports. This involves working closely with IT and other collaborators to ensure seamless integration and data transfer. • Ensure the security and integrity of OncoKB data, implementing appropriate access controls, data backup and recovery procedures, and data validation protocols. • Stay abreast of emerging technologies and best practices in software engineering, evaluating and adopting new tools and methodologies to enhance the functionality and performance of the OncoKB platform. Key Qualifications: • Master’s degree with 5 years of experience or Bachelor's degree with 7 years of proven ability in computer science, bioinformatics, or a related field, or equivalent professional experience. • Strong leadership and management skills, with the ability to motivate and guide a team of engineers. • Demonstrated expertise in web application development, including proficiency in HTML5, CSS, Java, and Python. • Extensive experience with databases such as MySQL and MongoDB. • Strong understanding of cloud deployment principles and technologies. • Experience with software development in a team environment using Git/GitHub or other source code control systems. • Excellent communication and collaboration skills, with the ability to effectively interact with scientists, clinicians, and other stakeholders. Core Skills: • Experience with Google Firebase or similar platforms. • Knowledge of user interface design principles and best practices. • Prior experience working on open-source projects related to bioinformatics or cancer genomics. • Familiarity with the principles of precision oncology and cancer variant interpretation. Additional Information: • Schedule: 37.5 hours Monday - Friday, hybrid• Location: 323 E. 61st Street (Maclowe)• Reporting to: Attending Associate Pay Range: $131,800.00-$217,500.00 #LI-hybrid Helpful Links: • MSK Compensation Philosophy • Review Our Greats Benefits Offerings Please click to learn more about MSK’s compensation philosophy. Closing MSK is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sexual orientation, national origin, age, religion, creed, disability, veteran status or any other factor which cannot lawfully be used as a basis for an employment decision. Federal law requires employers to provide reasonable accommodation to qualified individuals with disabilities. Please tell us if you require a reasonable accommodation to apply for a job or to perform your job. Examples of reasonable accommodation include making a change to the application process or work procedures, providing documents in an alternate format, using a sign language interpreter, or using specialized equipment.

Organization Overview Our Vertebrate Genome Laboratory conducts research and services for individual and large vertebrate genome projects such as the Vertebrate Genomes Project (VGP/G10K) that aims to sequence high-quality genomes for all 66,000 vertebrate species on the planet. https://vertebrategenomesproject.org/. Overview We seek a highly motivated individual with a strong background in Computer Science and Genomics to join the Bioinformatics team of the Vertebrate Genome Laboratory (www.vertebrategenomelab.org) at the Rockefeller University. This person will generate reference genomes of eukaryotic species as part of the Vertebrate Genomes Project (VGP, www.vertebrategenomesproject.org) and the Earth Biogenome Project (EBP, https://www.earthbiogenome.org/). In particular, the individual is expected to help achieve the following goals: • Work closely with the VGL data production and bioinformatics teams, and the broader international scientific community of the VGP, to actively generate draft high-quality genomes. • Help make the current pipeline, which is already heavily streamlined, fully automated, such that the sequencing data is automatically processed into draft assemblies along with QC, ready for manual curation. • Consistently improve the pipeline for genome assembly quality and efficiency, based on feedback from genome curators, incorporating novel data types, and adding or help in designing novel tools. Our current workflow involves: 1) in-house generation of a variety of long- (PacBio, Nanopore) and short- (Hi-C, Element, Illumina) read data; 2) in-house generation of reference-grade draft genome assemblies; 3) manual curation of the draft assemblies; 4) submission of the final, curated assemblies to the public archives. The individual will be integrated in step 2, and will be responsible to run, maintain, further develop, and improve the VGL genome assembly pipeline currently implemented in Galaxy (Lariviere et al. 2024 Nature Biotechnology DOI: 10.1038/s41587-023-02100-3). Responsibilities Responsibilities include: • Genome assembly • Genome assembly pipeline maintenance Qualifications The ideal candidate will have a sound knowledge of genomics, ideally with insights into genome assembly, genome curation and genome analysis. Required: • Master's degree required, Ph.D. preferred • Educational emphasis in computer science or computational biology • Strong programming skills, includin knowledge of computational data-analysis workflows (e.g. CWL) • Familiarity with Unix and HPC environments • The ability to work both independently and as part of a team Preferred: • Previous experience with Galaxy workflows is a plus • The ability to organize, prioritize and plan a diverse range of work to meet deadlines • An investigative and solution-orient mindset • Good communication skills • Skilled in working effectively within large national and international scientific consortia The Rockefeller University does not discriminate in employment on the basis of race, color, religion, sex (including pregnancy, gender identity), national origin, political affiliation, sexual orientation, marital status, disability, genetic information, age, membership in an employee organization, retaliation, parental status, military service or other non-merit factor. All qualified applicants will receive consideration for employment without regard to the characteristics listed above. The salary of the finalist selected for this role will be set based on various factors, including but not limited to organizational budgets, qualifications, experience, education, licenses, specialty, and training. The hiring range provided represents The Rockefeller University's good faith and reasonable estimate of the range of possible compensation at the time of posting. Compensation Range: Min USD $62,400.00/Yr. Compensation Range: Max USD $80,000.00/Yr.

NYU Grossman School of Medicine is one of the nation's top-ranked medical schools. For 175 years, NYU Grossman School of Medicine has trained thousands of physicians and scientists who have helped to shape the course of medical history and enrich the lives of countless people. An integral part of NYU Langone Health, the Grossman School of Medicine at its core is committed to improving the human condition through medical education, scientific research, and direct patient care. At NYU Langone Health, equity, diversity, and inclusion are fundamental values. We strive to be a place where our exceptionally talented faculty, staff, and students of all identities can thrive. We embrace diversity, inclusion, and individual skills, ideas, and knowledge. For more information, go to med.nyu.edu, and interact with us on LinkedIn, Glassdoor, Indeed, Facebook, Twitter and Instagram. Position Summary: We have an exciting opportunity to join our team as a Bioinformatics Analyst. NYU Langone Health, a world-class, patient-centered, integrated, academic medical center, and one of the nations premier centers for excellence in clinical care, biomedical research and medical education, is seeking highly motivated, enthusiastic individual to join the Imielinski Lab at the Perlmutter Cancer Center. The successful candidate will be responsible for genome analysis, algorithm development, and innovative cutting-edge cancer research conducted in the Imielinski Lab and Perlmutter Cancer Center. Job Responsibilities: Assist in preparing concise presentations of computational results. Work with the Perlmutter Cancer Center cancer genomics team to integrate different types of genomics data. Adapt genomic data analysis pipelines in a rapidly evolving research environment. Assist in the design, implementation and execution of novel algorithms in lab centered and collaborative research projects. Assist in the design, implementation, and execution standard pipelines for routine genomics data analyses Perform robust data quality control and validation. Develop expertise in various types of sequencing data analysis (e.g. , whole genome sequencing and 3D chromatin data from short and long reads, optical mapping, and single-cell sequencing.). Other duties as assigned. Work closely with bench scientists to understand and help accomplish their research goals. Minimum Qualifications: To qualify you must have a B.S. in mathematics, biological sciences, computer science or related disciplines. Experience in Unix/Linux systems including HPC environments; Scripting languages: Python or Perl; Statistical packages: R (preferred) or Matlab. Excellent communication skills with proficiency in written and oral English. Qualified candidates must be able to effectively communicate with all levels of the organization. NYU Grossman School of Medicine provides its staff with far more than just a place to work. Rather, we are an institution you can be proud of, an institution where you'll feel good about devoting your time and your talents. NYU Grossman School of Medicine is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sex, sexual orientation, transgender status, gender dysphoria, national origin, age, religion, disability, military and veteran status, marital or parental status, citizenship status, genetic information or any other factor which cannot lawfully be used as a basis for an employment decision. We require applications to be completed online. If you wish to view NYU Grossman School of Medicine's EEO policies, please click here. Please click here to view the Federal "EEO is the law" poster or visit https://www.dol.gov/ofccp/regs/compliance/posters/ofccpost.htm for more information. NYU Langone Health provides a salary range to comply with the New York state Law on Salary Transparency in Job Advertisements. The salary range for the role is $67,771.14 - $71,000.00 Annually. Actual salaries depend on a variety of factors, including experience, specialty, 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. To view the Pay Transparency Notice, please click here

Description Are you passionate about identifying, defining, and solving some of the nation's hardest problems? Do you enjoy being a part of diverse, interdisciplinary teams? If so, we are looking for someone like you to join our team at APL! The Applied Biological Sciences Group (QLA), located within the Asymmetric Operations Sector (AOS), is committed to APL's mission to provide critical contributions to critical challenges. We seek a highly motivated scientist with expertise in bioinformatics and computational biology to develop technical solutions to address the challenges facing our nation. Candidates should be curious, collaborative, and dedicated to leveraging world class expertise to develop real-world solutions for national security and health application spaces as part of a dynamic and innovative interdisciplinary team. APL works across the US Government applying the full spectrum of science and engineering to improve the nation’s ability to safely mitigate biological threats. We partner closely across the whole of the Johns Hopkins enterprise, and with collaborators in government, academia, and industry, to develop innovative science and technology solutions to biosecurity challenges. We strive to ensure the health of individuals and the nation through applied research, which drives development and implementation of ground-breaking capabilities in sensing and detection, threat characterization, modeling and simulation, and more. As a bioinformatics and computational biology professional, you will… • Lead and support bioinformatics and data science aspects of genomics and systems biology projects • Use open-source tools and custom pipelines on a High-Performance Computing (HPC) Cluster • Be able to operate in a Linux environment, using at a minimum BASH, Python, and R languages • Perform sequence analysis on Illumina, PacBio, and Oxford Nanopore data • Support internal Laboratory Information Management System (LIMS) for sample tracking through analysis pipelines • Identify and implement analysis tools for multi-omic analysis • Develop novel bioinformatics and computational biology approaches and tools Qualifications You meet our minimum qualifications for the job if you have... • A Master's degree in Bioinformatics, Computer Science, Applied Mathematics, or a combination of equivalent level experience/education • The ability to model and simulate biological systems in silico using mathematical concepts such as matrices, differential equations, and standard modeling concepts • Familiarity with algorithms in computer science and applied mathematics commonly used for analyzing biological data, such as Expectation-Maximization, Dynamic Programming, K-Nearest-Neighbors (KNN), Support Vector Machines (SVMs), and other Artificial Intelligence (AI) and Machine Learning (ML) approaches to data analysis and decision support • The ability to troubleshoot algorithms and implement software programs for the analysis of complex data sets • Experience with cluster computing environment and/or resource schedulers for high throughput (parallel) computations, and heuristics for dealing with large data sets; The ability to scale analyses from low computational loads to high, and vice versa • Familiarity with open-source software and published literature related to new tools and an ability to examine the capabilities and limitations of such tools for sponsor related requirements • Experience with BASH, Python, R and Linux environments • Are able to obtain a Secret level clearance. If selected, you will be subject to a government security clearance investigation and must meet the requirements for access to classified information. Eligibility requirements include U.S. citizenship You'll go above and beyond our minimum requirements if you have... • A PhD degree in Bioinformatics, Computer Science, Applied Mathematics, or related field • Experience developing and leading large bioinformatics and computational biology efforts • Experience performing (or familiarity with) laboratory sequencing preparations and workflows • Experience with molecular and laboratory techniques • Experience leading multidisciplinary teams and projects • Outstanding interpersonal skills and the ability to clearly communicate complex topics • Experience working in Unclassified and Classified areas • A publication record in computational biology and/or bioinformatics analysis Why work at APL? The Johns Hopkins University Applied Physics Laboratory (APL) brings world-class expertise to our nation’s most critical defense, security, space and science challenges. While we are dedicated to solving complex challenges and pioneering new technologies, what makes us truly outstanding is our culture. We offer a vibrant, welcoming atmosphere where you can bring your authentic self to work, continue to grow, and build strong connections with inspiring teammates. At APL, we celebrate our differences and encourage creativity and bold, new ideas. Our employees enjoy generous benefits, including a robust education assistance program, unparalleled retirement contributions, and a healthy work/life balance. APL’s campus is located in the Baltimore-Washington metro area. Learn more about our career opportunities at http://www.jhuapl.edu/careers. About Us APL is an Equal Opportunity/Affirmative Action employer. All qualified applicants will receive consideration for employment without regard to race, creed, color, religion, sex, gender identity or expression, sexual orientation, national origin, age, physical or mental disability, genetic information, veteran status, occupation, marital or familial status, political opinion, personal appearance, or any other characteristic protected by applicable law. APL is committed to promoting an innovative environment that embraces diversity, encourages creativity, and supports inclusion of new ideas. In doing so, we are committed to providing reasonable accommodation to individuals of all abilities, including those with disabilities. If you require a reasonable accommodation to participate in any part of the hiring process, please contact Accommodations@jhuapl.edu. Only by ensuring that everyone’s voice is heard are we empowered to be bold, do great things, and make the world a better place. The referenced pay range is based on JHU APL’s good faith belief at the time of posting. Actual compensation may vary based on factors such as geographic location, work experience, market conditions, education/training and skill level with consideration for internal parity. For salaried employees scheduled to work less than 40 hours per week, annual salary will be prorated based on the number of hours worked. APL may offer bonuses or other forms of compensation per internal policy and/or contractual designation. Additional compensation may be provided in the form of a sign-on bonus, relocation benefits, locality allowance or discretionary payments for exceptional performance. APL provides eligible staff with a comprehensive benefits package including retirement plans, paid time off, medical, dental, vision, life insurance, short-term disability, long-term disability, flexible spending accounts, education assistance, and training and development. Applications are accepted on a rolling basis. Minimum Rate $90,000 Annually Maximum Rate $230,000 Annually

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

Assistant Professor Tenure Track Immunogenetics and Bioinformatics at Childrens Hospital of Philadelphia (CHOP) Perelman School of Medicine - Pathology and Laboratory Medicine Location: Philadelphia, PA Open Date: Sep 28, 2021 Deadline: Sep 28, 2023 at 11:59 PM Eastern Time Children's Hospital of Philadelphia and the Department of Pathology and Laboratory Medicine at the Perelman School of Medicine at the University of Pennsylvania seek candidates for an Assistant Professor position in the tenure track. Expertise is required in the specific area of Immunogenetics and Bioinformatics, with demonstrated excellence in research, clinical service, and teaching. The successful applicant will develop and harness computational and big data approaches to drive biological discoveries and medical innovations. Computational biologists who incorporate wet lab research programs are welcome to apply. Applicants must be American College of Histocompatibility & Immunogenetics certified, or board eligible. Applicants must have an M.D. or equivalent degree. Teaching responsibilities may include establishing and maintaining an independent, extramurally funded research program, and teaching and mentoring graduate and medical students. Clinical responsibilities may include serving as Assistant Director for, and signing out cases in, the Clinical Immunogenetics Laboratory of the Children's Hospital of Philadelphia. Research or scholarship responsibilities may include advanced image analyses, machine learning approaches to laboratory data, and integration of disparate data sets into supervised learning models.". The position is affiliated with the newly founded Center for Computational and Genomic Medicine (CCGM) at the Children's Hospital of Philadelphia. CCGM is housed in the state-of-the-art Colket Translational Research Building. A generous recruitment package and lab space will be provided, together with excellent institutional and core research resources. The recruitment is part of a campus-wide initiative to promote innovative computational strategies for advancing human health and therapy development. We seek candidates who embrace and reflect diversity in the broadest sense. The University of Pennsylvania and Children's Hospital of Philadelphia are EOEs. Minorities/women/individuals with disabilities/protected veterans are encouraged to apply. To apply, visit https://apply.interfolio.com/94529 The University of Pennsylvania values diversity and seeks talented students, faculty and staff from diverse backgrounds. The University of Pennsylvania is an equal opportunity and affirmative action employer. Candidates are considered for employment without regard to race, color, sex, sexual orientation, gender identity, religion, creed, national or ethnic origin, citizenship status, age, disability, veteran status or any other legally protected class. Questions or concerns about this should be directed to the Executive Director of the Office of Affirmative Action and Equal Opportunity Programs, University of Pennsylvania, 421 Franklin Building, 3451 Walnut Street, Philadelphia, PA 19104-6205; or (215) 898-6993 (Voice) or (215) 898-7803 (TDD). Copyright ©2021 Jobelephant.com Inc. All rights reserved. Posted by the FREE value-added recruitment advertising agency jeid-17f25d524152d542be0423e3549066e2

RISE Bioinformatics Engineer https://www.icds.psu.edu/ at Penn State is seeking a Bioinformatician or Computational Biologist for their https://www.icds.psu.edu/computing-services/rise/ Engagement team. You will be an integral contributor to a fast-paced and growing team of specialists supported by an exciting, ongoing $125 million Penn State investment in ICDS cyber-ecosystem, called “Roar”. With ICDS, our RISE team members have the unique opportunity to support and participate in groundbreaking academic research at Penn State. This position will primarily focus on supporting a new interdisciplinary center, which sits at the intersection of Data Sciences and Molecular and Cellular Sciences. The center will serve as a leader in integrating various publicly accessible data sets, which diverse teams of scientists will synthesize to answer cutting-edge questions. Work Arrangement: This position has the potential to be a hybrid of remote and on-site work, with a minimum of 3 days per week on-site. This position may not be supportive of fully remote work. This is a limited-term position funded for 3 years from the start date, with excellent chances of renewal. As a RISE Bioinformatician or Computational Biologist, you would have the following responsibilities: • Provide advanced engineering and support in the design and development of bioinformatics science gateways and pipelines, with a particular emphasis on analysis of mass spectrometry, genomics, transcriptomics, proteomics, and metabolomics datasets. • Formulate and define the scope, objectives, and detailed specifications for bioinformatics projects. Collaborate with researchers to understand their data requirements and design custom solutions. • Offer guidance and support on the selection and application of bioinformatics and computational biology tools and pipelines, especially those related to sequence alignment, gene expression analysis, and variant calling, following open and reproducible science best practices. Develop and maintain quality assurance protocols for workflows to guarantee the reliability and reproducibility of results. • Stay up-to-date with the latest advancements in bioinformatics, computational biology, and available biological datasets. • Work with the center project manager, scientific working groups, and graduate students to deliver work products on time and to predefined specifications. • Provide technical expertise in the wrangling, harmonizing, and standardizing of existing biological datasets, including advanced experience with mass spectrometry data and/or next-generation sequencing data. Implement comprehensive quality control measures to ensure data accuracy and consistency. • Project manage graduate students who will work with you to support data science efforts. Education and Experience: This position will be filled at an Intermediate or Advanced Professional level, depending on the successful candidate's experience and education or an equivalent combination. • Minimum education and experience are a Bachelor's degree in Computational Biology or Bioinformatics, and 1 years of experience, or an equivalent combination of education and experience. • Candidates with a PhD in Bioinformatics, Computational Biology, or a related discipline and 3 years of experience, or an equivalent combination of education and experience are strongly preferred. Skills and Abilities: • Advanced expertise in Python and/or R for complex data analysis, scripting, and statistical modeling, with a particular focus on sequence alignment algorithms, structural prediction, gene expression analysis, and variant calling. Additional proficiency in languages like Perl or C is beneficial for systems-level bioinformatics applications. • Mastery in using bioinformatics or computational biology software (like BLAST, GATK, Bioconductor) • Experience in working with large-scale biological databases using SQL or NoSQL, with strong skills in big data analytics, ETL processes, and the ability to extract meaningful insights from complex datasets. • Understanding of genetic principles, molecular biology techniques, and genomic databases. • Familiarity with next-generation sequencing (NGS) data, its analysis, interpretation, and integration with mass spectrometry and other omics data. • Practical experience with any of the following datasets: XL-MS (PRIDE), AlphaFold (EBI), M.S.A., DMS (MAVE), P.P.I. (STRINGS), Metabolic networks (KEGG), Expression (GEO, SRA), Seq-methods (e.g., Hi-C, CRISPRi, etc.) In addition, our desired qualifications and skills include but are not limited to the following: • Proven track record of publications in peer-reviewed journals and/or conference proceedings, demonstrating significant contributions to the field. • Expertise in machine learning algorithms for pattern recognition and predictive modeling in biological data. • Experience developing new bioinformatics tools as dictated by research needs. • Experience with high-performance computing (HPC) environments, parallel computing, and cloud-based computational resources. • Experience with software containerization, workflow management systems, and adherence to open and reproducible science practices. • Proficiency in creating sophisticated data visualizations to represent complex biological data and trends. Candidates must also have impeccable ethics and integrity with a strong work ethic, strong interpersonal and written skills, and the ability to work well in a team environment. Candidates are required to provide the following: • A current Curriculum Vitae (CV) or Resume • A cover letter expressing detailing the candidate's interest in the role http://psu.edu/ is committed to and accountable for advancing diversity, equity, and inclusion in all its forms. We embrace individual uniqueness, foster a culture of inclusive excellence that supports both broad and specific diversity initiatives, leverage the educational and institutional benefits of diversity, and engage all individuals to help them thrive. We value inclusive excellence as a core strength and an essential element of our public service mission. Penn State offers a generous benefits package that includes health insurance, dental and vision plans, retirement plans, a 75% tuition discount for full-time employees, their spouse, and children to attend any Penn State campus, and paid vacation and sick days. More information about benefits is available here: https://hr.psu.edu/benefits Apply online at https://apptrkr.com/5800085 CAMPUS SECURITY CRIME STATISTICS: For more about safety at Penn State, and to review the Annual Security Report which contains information about crime statistics and other safety and security matters, please go to http://www.police.psu.edu/clery/, which will also provide you with detail on how to request a hard copy of the Annual Security Report. 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