Bioinformatics Jobs

Payroll Title: BIOINFORMATICS PROGR 3 Department: MEDICINE/Genomics & Precision Medicine Hiring Pay Scale $94,400 - $123,000/YR. Worksite: Campus Appointment Type: Career Appointment Percent: 100% Union: Uncovered Total Openings: 1 Work Schedule: Days, 8 Hour Shifts, Monday-Friday #132297 Bioinformatics and Data Science Resource - Hybrid Filing Deadline: Thu 10/3/2024 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 9/23/24 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Special Selection Applicants: Apply by 10/03/24. Eligible Special Selection clients should contact their Disability Counselor for assistance. DESCRIPTION The Department of Medicine is responsible for fulfilling the teaching, research, and clinical missions of the University of California, San Diego and employs 500+ full-time salaried faculty members and 150+ academic appointees. Staff personnel include 800+ staff in 9 bargaining units, students, and volunteers. There are over 250 clinical faculties practicing at multiple sites and hospitals. Under general supervision of the PI, the incumbent will perform programming and/or assist in design and analysis of systems to decipher the role of genetic variation on human traits. Projects will focus on investigation of structurally complex regions of the genome associated with human diseases using a variety of techniques including graph-based genome representations. The incumbent will be responsible for maintaining computational pipelines for processing, analyzing, and visualizing large volumes of whole genome sequence data and analysis of large biobanks. Pipelines will consist of open source as well as custom software. The incumbent will also develop and maintain web applications and assist in packaging custom software as open source tools. Finally, the incumbent will occasionally be required to coordinate with an international team of scientists to develop data acquisition, analysis, and visualization strategies. Uses skills as a seasoned, experienced bioinformatics programming professional with a broad understanding of computational algorithms; identifies and resolves a wide range of issues / software bugs. Demonstrates good judgment in selecting methods and techniques for obtaining solutions. Operates independently. MINIMUM QUALIFICATIONS • Seven years of related experience, education/training, OR a Bachelor's degree in related area plus three years of related experience/training. • Thorough knowledge of bioinformatics methods, applications programming, web development and data structures. • Communication skills to work with both technical and non-technical personnel in multiple fields of expertise and at various levels in the organization. Demonstrated interpersonal, written and verbal communication skills and ability to interact effectively and tactfully withindividuals and groups, both within and outside the university. • Demonstrated experience using Github or a related platform for code maintenance and collaboration. • Thorough knowledge of bioinformatics programming design, modification and implementation. Demonstrated programming skills in C/C++, Python, R with the ability to work comfortably in a Linux environment. • Understanding of relational databases, web interfaces, and operating systems. • Strong project management skills. • Thorough knowledge of modern biology and applicable field of research. • Ability to communicate technical information in a clear and concise manner. • Ability to interface with management on a regular basis. • Self motivated, work independently or as part of a team, able to learn quickly, meet deadlines and demonstrate problem solving skills. • Thorough knowledge of web, application and data security concepts and methods. Demonstrated understanding of network computer operating system configurations, and experience with managingcross platform network communications and protocols, computer systems analysis and debugging methods, and current techniques for troubleshooting applications and system problems, including general knowledge of data structures, memory management, file systems, and database management techniques. • Demonstrated ability to maintain high level of confidentiality in handling files and data and clear understanding of the Universities data privacy and acceptable use policies and procedures. • Demonstrated ability to work comfortably in cloud computing environments, such as Amazon Web Resources. • Demonstrated experience in virtual machines and designing and creating web applications in HTML, CSS, and Javascript. • Demonstrated experience with HPC, including job submission and resource management. PREFERRED QUALIFICATIONS • Understanding of whole genome sequencing using various technologies (e.g. short and long reads). SPECIAL CONDITIONS • Employment is subject to a criminal background check. Pay Transparency Act Annual Full Pay Range: $94,400 - $176,800 (will be prorated if the appointment percentage is less than 100%) Hourly Equivalent: $45.21 - $84.67 Factors in determining the appropriate compensation for a role include experience, skills, knowledge, abilities, education, licensure and certifications, and other business and organizational needs. The Hiring Pay Scale referenced in the job posting is the budgeted salary or hourly range that the University reasonably expects to pay for this position. The Annual Full Pay Range may be broader than what the University anticipates to pay for this position, based on internal equity, budget, and collective bargaining agreements (when applicable). Apply Now If employed by the University of California, you will be required to comply with our Policy on Vaccination Programs, which may be amended or revised from time to time. Federal, state, or local public health directives may impose additional requirements. If applicable, life-support certifications (BLS, NRP, ACLS, etc.) must include hands-on practice and in-person skills assessment; online-only certification is not acceptable. UC San Diego Health Sciences is comprised of our School of Medicine, Skaggs School of Pharmacy and Pharmaceutical Sciences, The Herbert Wertheim School of Public Health and Human Longevity Science, and our Student Health and Well-Being Department. We have long been at the forefront of translational - or "bench-to-bedside" - research, transforming patient care through discovery and innovation leading to new drugs and technologies. Translational research is carried out every day in the hundreds of clinical trials of promising new therapies offered through UC San Diego Health, and in the drive of our researchers and clinician-scientists who are committed to having a significant impact on patient care. We invite you to join our team! Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached. To foster the best possible working and learning environment, UC San Diego strives to cultivate a rich and diverse environment, inclusive and supportive of all students, faculty, staff and visitors. For more information, please visit UC San Diego Principles of Community. 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.

Part-time Bioinformatics Analyst Back Apply Share • Requisition no: 538199 • Work type: Part Time • Location: Medical Center • School/Department: Systems Biology • Grade: Grade 103 • Categories: Information Technology • Job Type: Officer of Administration • Bargaining Unit: • Regular/Temporary: Regular • End Date if Temporary: • Hours Per Week: 20 • Standard Work Schedule: • Building: • Salary Range: $35,000 - $35,000 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 The Department of Systems Biology at Columbia University Irving Medical Center is seeking to hire a part-time Bioinformatics Analyst to work in Dr. Yufeng Shen's lab. The Bioinformatics Analyst will participate in analysis of large-scale genomic data in genetic studies of human conditions and diseases. Responsibilities • Participate in computational and statistical model development for predicting genetic effect of genomic variation. • Participate in computational analysis of large-scale genomic data to identify risk variants and genes in human conditions and diseases, such as autism and neurodevelopmental disorders. • Maintain and improve bioinformatics pipelines for genomic variants annotation. Minimum Qualifications • Bachelor's degree or equivalent in education and experience Preferred Qualifications • Bachelor's degree in Science or Engineering • At least one year of experience in projects with data science or machine learning as a core component • Proficient in Python, git, and modern data science frameworks Equal Opportunity Employer / Disability / Veteran Columbia University is committed to the hiring of qualified local residents. Applications open: Aug 08 2023 Eastern Daylight Time Applications close: Back Apply Share

This is a full-time, hybrid position based out of either our Berkeley, CA or New York, NY office. At Glyphic Biotechnologies, we plan to create the protein revolution for which scientists and researchers have been waiting. We are developing a massively parallel, single-molecule protein sequencing platform that will transform proteomics and usher in a new era of insights into human biology and disease. To date, we have raised >$50M from venture partners and non-dilutive grant funding to achieve our vision of next generation protein sequencing. What We Are Looking For In You We are seeking an experienced bioinformatics scientist with industry experience to support Glyphic Bio’s development of a next-generation protein sequencing platform. This candidate must have demonstrated success in chemical or biological science research and in data analysis and visualization. The scientist would work cross-functionally with all science teams, report to the Founding Scientist, and play an instrumental role in Glyphic’s product and assay development. We value exceptional communication and organization habits, and candidates with a tendency toward systems thinking. Direct experience with SBS/ZMW/nanopore sequencing methods, next generation sequencing, and proteomics strongly preferred. This is a full-time, exempt, hybrid role and applicants should expect to work >50% of their time on-site in either our Berkeley, CA or New York, NY office. Primary Duties And Responsibilities • Develop and implement methods, algorithms, and novel primary data analysis tools for SBS/ZMW/nanopore-based raw data and sequencing data • Propose and create signal processing metrics to quantitatively describe and evaluate data generated by Glyphic's platform • Establish dedicated analysis and informatics to support company milestones. • Collaborate and engage with Glyphic’s R&D and Product development teams, and support internal projects. • Actively assess Glyphic teams' needs and develop streamlined data analysis methods to support company goals • Automate data analysis pipelines, maintain SOPs for multi-team use, and provide troubleshooting support as needed. • Maintain a centralized, shared and organized historical records of experiments conducted, problems solved, and bugs fixed. • Generate professional reports and visuals on performed data analysis, developed tools, and approaches, playing a critical role in the development of internal processes and eventual customer applications. • Stay abreast of developments in relevant research areas and actively propose directions for novel computational methods Required Competencies • Ph.D. or M.S. in Bioinformatics, Statistics, Computer Science, Computational Neuroscience or a related field. • For Senior Scientist: Ph.D with 4+ years of industry experience; or M.S. with 6+ years of post-graduate experience. • For Staff Scientist: Ph.D with 8+ years of industry experience; or M.S. with 12+ years of post-graduate experience. • Experience applying signal processing and signal filtering techniques to 1D/2D time-varying data. Eg. Image classification, Audio Signal Processing, digital signal from electronics etc. (Preferred experience with raw imaging data from SBS-style DNA sequencing or raw electrical signal from nanopore sequencers) • Experience using or developing machine learning and statistical methods for analyzing 1D/2D time-varying data, or sequence-based data • Visible track record of success in bioinformatics (peer-reviewed publications, patents, or significant contributions to development of commercial product). • Expertise in programming (e.g., Python, R, Perl, MATLAB, C/C++, Java) in a shared infrastructure setting (e.g., Jupyter, DeepNote) • Familiarity with Python-based machine learning frameworks and tools (eg. PyTorch, TensorFlow/Keras, Scikit-Learn) • Experience using bioinformatics tools for sequencing data and interpreting associated results • Experience with database structure, cleaning and management. • A knack for iterative process optimization and not letting perfection be the enemy of progress. • Ability to assess pain points, and identify and communicate solutions very efficiently. • Exceptional communication skills, with the ability to communicate rationale of pipeline design and clear visualization of results. • A tendency toward being hyper-organized. • Ability to work with multiple teams and maintain several projects in parallel. • Ability to work independently with limited oversight. • A commitment to maintaining the highest levels of workplace professionalism. • A willingness to self-start, embrace ambiguity and seek out opportunities for company, team, and individual improvement. Preferred Qualifications • In-depth knowledge of current machine learning approaches • In-depth knowledge of SBS/nanopore sequencing processes and data characteristics Physical/Cognitive Requirements • Prompt and regular attendance, punctuality, and availability to work at assigned work location, including adhering to the Department’s attendance policy (e.g., adhering to your work schedule, including but not limited to: scheduled tasks, meetings, meal/rest breaks, etc.). • Ability to work shifts of at least 8 hours, 5 days per week. • Ability to work from a dedicated space that is distraction-free and has a secure, high-speed, internet connection. • Ability to thrive in a fast-paced, high-intensity work environment. • Ability to remain seated in a stationary position for prolonged periods. • Requires eye-hand coordination and manual dexterity sufficient to operate keyboard, computer, and other standard laboratory and facilities equipment. • No heavy lifting is expected, though occasional exertion of about 20 lbs. of force may be required. • Ability to interact with leadership, employees, and members in an appropriate and respectful manner. • Maintains composure during moments of stress, maintains a helpful disposition at all times, and leverages de-escalation skills and techniques when necessary. • Ability to exercise good judgment, work effectively under time constraints, prioritize work, multi-task, and adapt to changing work demands. Not sure you meet 100% of our qualifications? We encourage anyone who thinks they would excel at Glyphic Bio to apply, no matter their background or how they identify. Benefits And Perks • 100% Coverage for Employees & Dependents on a Comprehensive Health Plan (Medical, Dental, & Vision) • Employer Retirement Contributions // 401(k) • Employee Stock Option Plan • Generous Paid Time Off // Vacation, Sick, & Public Holidays • Commuter Transportation Subsidy // Public Transit & Parking • Paid Maternity and Paternity Leave • Office Workstation Stipend • Free Coffee and Snacks in the Office We are an Equal Opportunity Employer. We celebrate diversity and are committed to creating an inclusive environment for all employees. Individuals seeking employment at Glyphic Biotechnologies are considered without regard to race, color, religion, national origin, age, sex, marital status, ancestry, physical or mental disability, veteran status, gender identity, or sexual orientation. Compensation Range: $120K - $204K

Bioinformatics Programmer Back Apply Share • Requisition no: 540455 • Work type: Full Time • Location: Medical Center • School/Department: Neurology • Grade: Grade 105 • Categories: Research (Lab and Non-Lab) • Job Type: Officer of Administration • Bargaining Unit: • Regular/Temporary: Regular • End Date if Temporary: • Hours Per Week: 35 • Standard Work Schedule: M-F 9am-5pm • Building: • Salary Range: $80,000 - $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 looking for an enthusiastic and energetic individual to join our research effort investigating genetic and molecular variation in the context of human aging, with a focus on brain tissue. This position will work with Menon lab and other inter-disciplinary teams as part of consortium-wide projects to incorporate existing and new experimental data on the trajectory of human aging and neurological disease. The candidate will develop, execute, and maintain bioinformatics pipelines to process and analyze genetic, imaging, transcriptomic (bulk and single-nucleus RNA-seq), epigenetic, and proteomic data from mouse and human brains. In addition, the candidate will incorporate analysis results into a parse-able format for non-bioinformatics experts. The ideal candidate should have a quantitative background (Computer Science, Statistics, Biostatistics, Computational Biology, Applied Mathematics, Computational Neuroscience, Genomics, or Bioinformatics), and extensive experience in standard workflows for analysis of large-scale molecular and imaging data, specifically to answer questions about aging associated changes in human and model system data. In-depth knowledge of at least one flavor of data (genetics, transcriptomics, epigenetics, or proteomics) is required, as well as prior experience with image analysis. Successful applicants will receive on-the-job training for other data modalities in the Menon lab. The candidate should have good knowledge of programming languages for implementing computational algorithms on large-scale data (R, Python, Perl), as well as experience working in Linux/Unix on high-performance computing/cluster platforms. The successful candidate will be part of an integrated team of neurologists, data scientists, and cell biologists who come together to perform team-based projects. The position therefore offers a stimulating and multi-disciplinary environment and the opportunity to work with a variety of researchers at Columbia University and beyond. There will be many opportunities to contribute to multiple ongoing national and international collaborative projects. Responsibilities • Responsible for assembling, executing, and developing the latest bioinformatics pipelines for primary analysis of 'omics data in the context of aging. • Responsible for importing, developing, and implementing image analysis pipelines for tissue-level analysis of cell signatures • Contribute to QA/QC of published and newly generated data sets. • Develop analysis workflows to answer targeted questions about changes in molecular profiles in healthy aging or disease in human. • Display initiative and independence in providing rapid results to various investigators generating experimental data. • Communicate results to non-bioinformatics experts and develop novel analysis approaches in response to new questions or insight. • Prepare summary reports of data and results for dissemination to colleagues and collaborators. • Directly respond to inquiries regarding projects being managed. Produce subsets of data for distribution to collaborators as approved by the principal investigators. Minimum Qualifications • Requires bachelor's degree or equivalent in education and experience, plus four years of related experience. Preferred Qualifications • Master's Degree or PhD in bioinformatics, computational biology, applied mathematics, computational neuroscience, computer science, statistics, biostatistics, physics, or related area. Other Requirements • Demonstrated programming skills • Demonstrated experience with building pipelines for at least one "omics" data modality (genetics, transcriptomics, epigenetics, proteomics). • Strong organizational skills in managing and analyzing large datasets • Programming experience in R, Python, Perl, or C/C++ • Ability to work independently, display initiative within a team environment, and respond rapidly to requests Equal Opportunity Employer / Disability / Veteran Columbia University is committed to the hiring of qualified local residents. Applications open: Nov 30 2023 Eastern Standard Time Applications close: Back Apply Share

POSITION RESPONSIBILITIES • Develop, implement and maintain existing and novel novel bioinformatic pipelines and tools to analyze large-scale epigenetic, transcriptomic and perturb-seq datasets. • Work closely with other lab members and collaborators in a highly collaborative research environment to actively contribute to the design, conception, and execution of molecular and cellular experiments to achieve the goals of the specific projects. • Designing and executing experiments, data management, data analysis, manuscript preparation, presenting research, contributing to grant proposals, and mentoring students. • Provide support and training on data pipelines, protocols, and database tools for all team member projects. • Coordinate and assist with implementation and improvement of data management and data processing protocols. • Prepare and submit manuscripts for publication in peer-reviewed journals, ensuring that the research findings are communicated effectively to the scientific community. • Engage in scientific communication by presenting research findings at conferences and workshops, contributing to the visibility and impact of the lab's work. QUALIFICATIONS Bachelor’s Degree in Bioinformatics, Data Science, Computational Biology, or related field At least 1 year bioinformatics experience. Excellent communication and interpersonal skills, with a strong interest in working as part of a multidisciplinary team.Prior experience in any of the following relevant areas is highly desired:Experience with single cell RNA-sequencing.Experience in advanced genomics, bioinformatics and statistical analysis.Ability to develop and troubleshoot new methodologies.Ability to pursue exciting and fundamental biological questions.Excellent writing and communication skills.Strong publication record in peer reviewed journal. Minimum Salary Range USD $63,000.00/Yr. Maximum Salary Range USD $70,000.00/Yr. About Us The Soldner lab seeks applications for a Bioinformatics analyst to develop and apply methods to analyze epigenetics and functional genomic data sets, such as ATAC/CUT&Tag-seq, single cell transcriptomic and perturb-seq data set generated from human organoid and stem cell models. The focus of the Soldner laboratory is modeling human brain development and function in cell culture as a tool to systematically investigate the genetic, cellular, and molecular basis of complex neurological disorders such as Parkinson’s and Alzheimer’s disease. We employ an interdisciplinary approach, integrating functional genomics approaches in human pluripotent stem cell (hPSC) derived neuronal cells with population genetics and genome-scale epigenetic information to study neurodegenerative disorders in a genetically controlled and systematic manner. We have recently established a novel CRISPR functional genomics platform in monolayer and organoid neuronal cultures to quantitatively dissect how genetic, epigenetic, and environmental factors contribute to the development and progression of neurological diseases and to identify novel therapeutic targets.

The Landau Lab at the New York Genome Center is looking for a highly motivated, detail-oriented individual to join our efforts to study the basic principles of somatic evolution, cancer genomics and epigenomics. As an Associate you will be trained in the analysis and interpretation of next-generation sequencing (NGS) data, originating from patient samples as well as experimental modeling of cancer evolution, under the guidance of advanced bioinformaticians. Job Duties: • 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. The successful applicants will be part of a fast-paced and dynamic team. The Landau Lab will provide significant on-the-job training. We seek a candidate who is motivated and can take independent initiative. This is an excellent opportunity for someone looking to gain experience to move into a PhD program within a couple of years, based on the new skillset they develop at New York Genome Center (though, this is not a requirement). Reasonable accommodations may be made to enable individuals with disabilities to perform essential functions. Required Skills • BS or MS degree, or equivalent experience; • Team-oriented with excellent written and verbal communication skills, collaboration skills and an eagerness to learn; • Exposure to NGS data analysis preferred; • A working understanding of code and script; • Training in statistics or machine learning is a plus. Don’t meet every single requirement? Studies have shown that women and people of color are less likely to apply to jobs unless they meet every single qualification. At NYGC we are dedicated to building a diverse, inclusive and authentic workplace, so if you’re excited about this role but your past experience doesn’t align perfectly with every qualification in the job description, we encourage you to apply anyway. You may be just the right candidate for this or other roles. Competencies • Technical and Professional Skills: Consistently demonstrates skills and knowledge relevant for current role; strives to expand the depth and breadth of technical and professional skills; works with a high level of integrity; exhibits focus and discipline; appropriately prioritizes, manages expectations and delivers on commitments. • Collaborative & Communicative: Models collaboration and teamwork; brings out the best in others; effectively works with all levels, internally and externally; respects and embraces diversity of perspective; communicates clearly and listens carefully; uses good judgment as to what to communicate and when to do so. • Adaptable & Innovative: Adaptable and embraces change; develops new insights and pursues improvements and efficiency; fosters exchange of new ideas and willing to challenge the status quo; takes initiative and is solution-oriented; engages in work with passion and curiosity. Salary & Benefits The pay range for this position is $65,000-85,000 per year; the base pay offered may vary depending on job-related knowledge, skills, and experience. In addition, NYGC offers a full range of medical, financial, and other benefits as well as generous time off. This includes Medical/Dental/Vision for employees & dependent(s); Vacation, Holidays, Sick, and Other Leave, including a paid winter break; a 401(k) match; Life Insurance; Flexible Spending Accounts; employee Tuition Reimbursement; flexible schedules and telework options for some positions; an Employee Assistance Program; and much more. About the Landau Lab The Landau Lab (landaulab.org) develops cutting-edge single-cell multi-omics technologies to study somatic evolution. The lab also pioneers genomics methods development as well as cfDNA technologies. We use both computational and experimental methods to study these questions, with an interdisciplinary integration of approaches from computational genetics, functional genomics, and molecular biology. Dr Landau has a joint lab between Weill Cornell Medicine (WCM) and the New York Genome Center (NYGC). About the New York Genome Center The New York Genome Center (NYGC) is an independent, nonprofit, academic research organization dedicated to advancing genomic research. NYGC scientists and staff are furthering new approaches to diagnosing and treating neurological diseases and cancer through their unique capabilities in whole genome sequencing, RNA sequencing, state-of-the art analytics, and the development of genomic tools. NYGC concentrates specifically on disease-based research in the following areas: neuropsychiatric disease (autism, schizophrenia, bipolar); neurodegenerative disease (ALS, Alzheimer’s, Parkinson’s, Huntington’s), and cancer. Located in Lower Manhattan, the New York Genome Center was founded by and remains closely affiliated with twelve leading academic medical centers and research universities in the New York region and beyond, engaging in research projects with and for these institutions. Essential to our collaborative work is an outstanding faculty, whose members typically hold a joint appointment at NYGC and a partner university. They support our scientific mission by conducting independent research in areas of mutual interest to us and the wider scientific community. Equal Opportunity Diversity, equity, and inclusion are central to the core mission at the NYGC. We strive to create a workplace environment that is welcoming and fair to all regardless of race, ethnicity, gender, sexual orientation, physical ability, or religion. We believe that when people of various backgrounds, life experiences, and perspectives work together in an inclusive and equitable environment we gain new and valuable perspectives that otherwise would have been missed. Valuing and supporting all NYGC employees as individuals while helping them realize their full potential is critical to promoting greater collaboration, innovation, and discovery – fostering a sense of belonging for our greatest strength, our people. The New York Genome Center is a VEVRAA Federal Contractor. All qualified applicants will receive consideration for employment and will not be discriminated against on the basis of race, creed, color, gender, religion, national origin, sexual orientation, age, disability, genetic predisposition or carrier status, protected veteran or military status, domestic violence victim status, partnership status, caregiver status, alienage or citizenship status, marital status, or any other characteristic protected by applicable law. The New York Genome Center takes affirmative action in support of its policy to hire and advance in employment individuals who are minorities, women, protected veterans, and individuals with disabilities. FLSA Status – Exempt This position is not eligible for visa sponsorship.

The Fund for Public Health in New York City (FPHNYC) is a 501(c)3 non-profit organization that is dedicated to the advancement of the health and well-being of all New Yorkers. To this end, in partnership with the New York City Department of Health and Mental Hygiene (DOHMH), FPHNYC incubates innovative public health initiatives implemented by DOHMH to advance community health throughout the city. It facilitates partnerships, often new and unconventional, between the government and the private sector to develop, test, and launch new initiatives. These collaborations speed the execution of demonstration projects, effect expansion of successful pilot programs, and support rapid implementation to meet the public health needs of individuals, families, and communities across New York City. Program Overview The Public Health Laboratory (PHL) mission is to ensure the health of all New York City (NYC) residents by providing quality laboratory testing services that address the needs of the NYC DOHMH and its community partners as they respond to clinical and environmental public health concerns. Position Overview This position will serve as a Bioinformatics analyst & coordinator at the PHL and be involved with sequencing and data management activities within the bureau. Responsibilities • Support onboarding pipelines & data management for current and emerging pathogens such as Tuberculosis, Carbapenem-resistant organisms, and other pathogens. This requires strong skills in BASH shell scripting and R. Python and SQL are good to have skills. • Manage the packaging and publishing of genomic sequences to public repositories such as NCBI and GISAID. • Lead and/or support the data unit in maintaining meta-data datasets for genomic sequences. • Coordinate the implementation and enhancements of high throughput sequencing and bioinformatics projects. • Participate in analytical activities as needed to support outbreak investigations and routine surveillance. • Perform research to identify and implement new analytical tools and visualization methods. • Assist with progress reports to ensure projects run smoothly. • Liaise between units and sections at PHL to identify, prioritize, and finalize goals for pathogen sequencing. • Lead efforts to improve sustainable data management and tracking across multiple units and bureaus. • Communicate effectively with lab technologists and analysts as well as internal and external partners. • Evaluate data, prepare reports, maintain records, and assist in the coordination of research efforts of the Agency. • Maintain and participate in a quality control and assurance program as required by job functions and title assignments in the laboratory. • Recognize, troubleshoot, and initiate corrective action for problems in a timely manner. • Participate in writing original manuscripts for publication based on data analyses. QUALIFICATIONS • Master’s degree in Biological science or Bioinformatics. • Knowledge of biology, high throughput sequencing, and bioinformatics are highly desired. • Strong verbal and written communication skills. Ability to work well within a management team environment. • Excellent project management skills and familiarity with project management tools. • Excellent interpersonal communication skills. SALARY • Salary range is $90,000 to $95,000 WORK SCHEDULE 9:00 am – 5:00 pm Monday through Friday In-office Benefits At a Glance FPHNYC offers a comprehensive benefits package • Generous Paid Time Off (PTO) policy • Medical, dental, and life insurance with low or no employee contribution • A retirement savings plan with generous employer contribution • Flexible spending medical and commuter benefits plan • Meaningful work at an organization striving to advance health equity and social justice RESIDENCY REQUIREMENT You must live in New York City Tri-state area (NY, NJ, CT) in order to be considered for a position at FPHNYC. TO APPLY To apply, upload Resume, including how your experience relates to this position. Applicants who best match the position needs will be contacted. The Fund for Public Health in New York City is an Equal Opportunity Employer and encourages a diverse pool of candidates to apply. Apply Now

Position Description The Cold Spring Harbor Laboratory (CSHL) Cancer Center seeks a highly motivated and collaborative scientist to assist in genomic sequence data analysis and integrating novel bioinformatics tools for the Bioinformatics Shared Resource (BSR). CSHL is renowned for advancing cancer research through genomics approach which promotes better understanding of cancer development and its potential therapeutics. The successful candidate will directly report to the Manager of the BSR, and will have opportunities to develop expertise in highly-demanded bioinformatics pipelines, engage in latest sequencing technology analysis, collaborate with experts in basic cancer research/therapeutics, and join strong community of computational scientists with AI background. Position Responsibilities The BSR collaborates with CSHL scientists on projects related to cancer, neural circuitry, evolution, and plant biology. Recent projects include: • Designing new models of pancreatic cancer for diagnostic/treatments in pre-clinical and clinical setting • Identifying potential non-coding RNAs as biomarkers and targeted therapy in breast and brain cancers • Developing cutting-edge technologies, including long-read, single-cell sequencing, and spatial genomics Position Requirements Education: B.S in a bioinformatics-related field (e.g., Bioinformatics, Biology, Computational Biology, Computer Science, Data Science) with a strong background in basic biology and computational methods. Skills and experience: • The candidate must be fluent in one or more programming languages (Python, R, Perl, etc) and comfortable using UNIX-based high-performance computer clusters. • The candidate must have minimum of 1 year experience working with one of standard sequencing pipelines including RNA-seq, ATAC-seq, or ChIP-seq. • The candidate with biostatistics and good communication skills in a non-computational biology setting is highly preferred. Additional desirable skills include familiarity with: database and web server management. Supplemental Information How to Apply: Come join our team, and we’ll match your excitement for bioinformatics with our interest in developing best practices for advancing diverse biological disciplines. Please submit an online application here: Computational Science Analyst I - Bioinformatics Shared Resource Position 1208. We look forward to reviewing your application. Environment Cold Spring Harbor Laboratory is a world-renowned biomedical research institution in New York. It has shaped contemporary biomedical research and is the home of eight Nobel Prize laureates. Cold Spring Harbor Laboratory provides a highly dynamic and interactive research environment and also a unique opportunity of timely exposure to advances in various biomedical research fields and of interaction with a broad range of researchers from all over the world through its renowned Meetings and Courses program. We believe that science is for everyone. We have had researchers with a variety of backgrounds and believe in the importance of diversity, equity, and inclusion. Compensation and Benefits Our employees are compensated in many ways for their contributions to our mission, including competitive pay, exceptional health benefits, retirement plans, time off, and a range of recognition and wellness programs. Visit our CSHL Benefits sites to learn more. The salary range for this role is $67,600.00 - $78,000.00. The salary range and/or hourly rate listed is a good faith determination of potential base compensation that may be offered to a successful applicant for this position at the time of this job advertisement and may be modified in the future. When determining a base salary and/or rate, several factors may be considered as applicable (e.g., years of relevant experience, education, credentials, and internal equity). CSHL is an EO/AA Employer. All qualified applicants will receive consideration for employment and will not be discriminated against on the basis of race, color, religion, sex, sexual orientation, gender identity, national origin, age, disability or protected veteran status. VEVRAA Federal Contractor

POSITION RESPONSIBILITIES We are looking for a motivated and experienced Bioinformatics Analyst to join Dr. Robert Burk’s research group. This role is critical for supporting our ongoing research projects focused in 2 areas- the human microbiome (gut, oral and cervicovaginal), and human papillomavirus related to cervix neoplasia. The ideal candidate will have a background in epidemiology, computer science, bioinformatics, or related disciplines, with practical demonstrated experience in processing next-generation sequencing (NGS) data. The successful candidate will demonstrate a willingness and eagerness to adapt to new approaches, as the field of bioinformatics is dynamic and constantly evolving. Key Responsibilities in order of priority: • NGS Data Handling: Perform demultiplexing and analysis of NGS data using barcoding primers for multiplex NGS runs. • Practical Experience: The candidate is expected to have practical experience with bioinformatics work (handling NGS reads off the machine, etc.) and be willing and eager to adapt to new approaches. This role will be facilitated with a proactive attitude towards learning and applying new bioinformatics methods and technologies. • Data Processing and Analysis: Utilize existing pipelines to process and analyze high-throughput sequencing data reads, including amplicon sequencing, bisulfite sequencing, metagenomics, and viral integration. • Data Management: Manage and organize bioinformatics sequencing data for our research group, including papillomavirus sequences, microbiome data (16S, ITS1 and shotgun metagenomics), and human genomic data. • Large Dataset Management: Download and handle large Fastq, BAM, and/or Fasta files for analyses. • Software Utilization and Script Modification: Use existing software tools and be able to modify R scripts to generate figures and perform epidemiological analyses. • Phylogenetic Analysis: Construct phylogenetic trees to support ongoing research projects. • Collaboration and Reporting: Work closely with and report directly to Robert D. Burk, M.D., Principal Investigator, and collaborate with other lab members generating NGS data. QUALIFICATIONS • Educational Background: Bachelor’s degree with at least one year of experience in epidemiology, computational biology, or bioinformatics. • Technical Skills: Proficiency in R or Python is required. Experience in microbiome bioinformatic processing is preferred. • Communication Skills: Ability to speak clearly and express oneself well in one-on-one conversations and groups. Develops effective written communications and uses them appropriately. Ability to present at weekly lab meetings using PowerPoint or other presentation programs. • Interpersonal Skills: Interacts and proactively shares information with internal and external contacts where appropriate. Develops effective professional relationships with peers, students, and employees. • Responsibility and Problem-Solving: Assumes responsibility to ensure issues/concerns are addressed and monitors them through to conclusion. Identifies, defines, and analyzes information and situations before recommending a course of action. • Time Management: Effectively manages own time and resources. • Innovation and Technology: Seeks to apply technology and innovation to improve efficiency and solve problems related to the goals of the research group. Minimum Salary Range USD $58,500.00/Yr. Maximum Salary Range USD $65,000.00/Yr.

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.