Bioinformatics Jobs

Job Description: The successful candidate will work closely with stakeholders in the Quantitative Medicine and Genomics (QM&G) organization to develop predictive AI/ML models using large-scale transcriptomic and imaging datasets to elucidate drug mechanism of action (MOA). Key responsibilities can include ingesting public data, performing data clean-up to ensure model compatibility, integrating external and internal datasets, and optimizing multi-model models. This role offers the opportunity to make a direct impact on drug development by delivering innovative data science solutions across cross-functional projects. Responsibilities: • Support senior analysts in implementing, training, and troubleshooting AI models. • Ingest, clean, and preprocess large-scale transcriptomic and imaging datasets for AI workflows. • Collaborate with scientific and technical teams to translate biological questions into computational solutions. • Document processes and outcomes ensuring reproducibility and transparency. • Assist in interpreting model outputs to advance the understanding of drug MOA. • Work with agility on time-bound projects with critical deliverables. Requirements: • MS degree (5+ years of experience) or PhD (0 years of experience) in a quantitative field (Bioinformatics, Computer Science, Computational Genetics, Biostatistics, AI/ Machine Learning Engineer or other field with a strong quantitative and computational background) Proficiency in Python and standard ML libraries. • Proficiency working on HPC or cloud environments. • Domain knowledge in bioinformatics/computational biology. • Strong attention to detail, documentation, and communication skills. • Ability to independently execute and troubleshoot research plan. Preferred skills: • Experience with NumPy, Pandas, Scikit-learn, Matplotlib, and seaborn. • Experience with TensorFlow, and/or PyTorch. • Experience with git for version control and collaboration. • Experience with OpenCV, Scikit-image, and computer vision deep learning models. • Experience with multi-modal models. Top skills: • Implementing, training AI/ML models. • Data pre-processing for AI compatibility. • Domain knowledge of bioinformatics. • Experience working with genomic data. • Ability to communicate results clearly.

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 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 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 Senior Bioinformatics Programmer. The Center for Human Genetics and Genomics is seeking an experienced bioinformatics programmer to join the deciphEHR team, pioneering genomic medicine at NYU Grossman School of Medicine. This role is a key part of a dynamic and rapidly growing project. The candidate will write software to optimize and integrate large-scale whole genome sequencing (WGS) processing and electronic health records (her) data. Specifically, the individual will develop the data infrastructure for processing and querying large genomic datasets by our end users, as well as be involved in cutting edge genomic medicine research. We seek an individual experienced in writing production grade bioinformatics pipelines with experience in database/ data warehouse integration in a research or clinical setting. Job Responsibilities: Develop production genomic workflows on HPC as well as cloud environments Develop a genomic data warehouse for efficient querying of large data using Glow Perform data processing and QC for genomic and clinical datasets Participate in data and software maintenance work for our team Document all required software, code, and experiments Extract and manage multidimensional descriptive, numeric and digital data from the EPIC EHR database for phenotype analysis Minimum Qualifications: To qualify you must have a Master's degree in computer science/data science/bioinformatics/Statistics/Information Science or related technical disciplines. Proven programming skills in Python, Bash/UNIX, R. Proficient in Git for version control. At least one year experience with a big data technology such as Spark, Hadoop, etc. At least 3 years of experience with a workflow language (WDL, Snake-make), Docker/Singularity, and HPC. At least 4 years of experience with standard genomics bioinformatics tools (PLINK, GATK, etc). Must be able to work in a demanding and dynamic team environment and work independently. Knowledge of algorithms and data-structures. Experience with Web-based application development languages such as HTML/JavaScript. Must demonstrate excellent communication skills, both oral and written, within the team and end users. Preferred Qualifications: Ph.D. in Computer Science / Data Science / Bioinformatics/ Statistics/Information Science or related technical disciplines. Candidates with a Master’s degree in the above fields will be considered if they possess significant relevant experience. Familiarity with Databricks for big data analytics and managing large-scale genomic datasets 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. At NYU Langone Health, we are committed to supporting our workforce and their loved ones with a comprehensive benefits and wellness package. Our offerings provide a robust support system for any stage of life, whether it's developing your career, starting a family, or saving for retirement. The support employees receive goes beyond a standard benefit offering, where employees have access to financial security benefits, a generous time-off program and employee resources groups for peer support. Additionally, all employees have access to our holistic employee wellness program, which focuses on seven key areas of well-being: physical, mental, nutritional, sleep, social, financial, and preventive care. The benefits and wellness package is designed to allow you to focus on what truly matters. Join us and experience the extensive resources and services designed to enhance your overall quality of life for you and your family. NYU Grossman School of Medicine is an equal opportunity employer and committed to inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration. We require applications to be completed online. View Know Your Rights: Workplace discrimination is illegal. 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 $81,325.15 - $128,785.23 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

The Division of Disease Control's mission is to safeguard the health of New Yorkers through identification, surveillance, treatment, control, and prevention of infectious diseases, which is achieved through varied and interrelated endeavors of its seven Bureaus. The NYC Public Health Laboratory (PHL) is one of the largest local public health laboratories in the United States where employees contribute to the health and safety of NYC residents by providing clinical and environmental laboratory testing services. PHL is committed to its mission to safeguard the health of all NYC residents by providing quality laboratory testing services that support the priorities of DOHMH and its community partners to prevent and respond to clinical and environmental public health concerns. Position Summary: The Chief of Bioinformatics will provide strategic and scientific leadership for the development, implementation, and application of bioinformatics tools and data-driven approaches within the Public Health Laboratory (PHL). This role will oversee the analysis and interpretation of high-throughput sequencing and other complex laboratory data, ensuring timely, accurate, and actionable insights that support public health surveillance, outbreak response, and research. The Chief will collaborate closely with epidemiologists, data scientists, and information technology teams across the Department of Health and Mental Hygiene (DOHMH) to integrate bioinformatics and data analytics into routine public health practice. Bioinformatics and data analytics play a vital role in PHL's mission and have been central to New York City's response to the COVID-19 pandemic as well as other respiratory, foodborne, and waterborne disease outbreaks. Reporting to PHL senior leadership, the Chief will lead a team of six scientists and guide the continued growth of the bioinformatics and data analytics program. This is an exceptional opportunity to join a multidisciplinary team of more than 200 laboratory professionals and collaborate with state, federal, and academic partners, including the New York State Wadsworth Center and the Centers for Disease Control and Prevention (CDC). Selected publications and news: Legionella: https://www.nytimes.com/2025/08/27/nyregion/legionnaires-disease-new-york-lab.html Mpox: https://www.nature.com/articles/s41467-025-60486-x COVID-19: https://pmc.ncbi.nlm.nih.gov/articles/PMC9949853/ Wastewater surveillance: https://bmcpublichealth.biomedcentral.com/articles/10.1186/s12889-025-22306-1 DUTIES WILL INCLUDE BUT NOT BE LIMITED TO: - Supervise and mentor a team of bioinformatics and data analytics scientists, providing technical guidance and performance oversight. - Train and develop staff in bioinformatics tools, pipelines, and analytical best practices. - Design, implement, and apply state-of-the-art computational methods for high-throughput sequencing (HTS) data analysis, including pathogen identification, outbreak tracking, detection of drug-resistance determinants, variant analysis, genome annotation, and phylogenetics. - Support the development of innovative computational solutions to software and analytical challenges across diverse projects involving microbial, viral, fungal, and parasitic HTS data. - Maintain rigorous quality assurance and quality control (QA/QC) processes to ensure the accuracy, reproducibility, and integrity of HTS data and downstream analyses. - Promote best practices in code development, version control, documentation, and data management to support transparency and reproducibility. - Educate and provide expert guidance to internal staff and Department of Health and Mental Hygiene (DOHMH) partners on data interpretation and the application of bioinformatics results to public health investigations. - Lead data modernization initiatives. - Contribute to the development and implementation of policies, procedures, and standards for clinical and public health testing that incorporate bioinformatics analyses. - Lead and participate in research studies involving HTS technologies; oversee staff in the design, execution, and analysis of research projects. - Communicate findings and results clearly and effectively through technical reports, scientific presentations, and peer-reviewed publications. PREFERRED SKILLS: - Demonstrated ability to develop complex bioinformatics solutions independently and with minimal supervision. - Advanced proficiency in at least one scripting language (e.g., Python, Perl, or Bash) and experience working in a Linux computing environment. - Experience with containerization technologies such as Docker, Podman or Singularity. - Proficiency in SQL for data querying and management. - Proficiency in Git. - Strong experience with statistical and data analysis tools, including R and associated packages. - Proven ability to provide expert guidance and technical leadership during the design, development, validation, and implementation of bioinformatics projects. - Experience contributing to the preparation of high-quality scientific manuscripts, presentations, and grant proposals. - Ability to mentor, train, and supervise junior or mid-level bioinformatics and data analytics staff. Why you should work for us: - Benefits: City employees are entitled to unmatched benefits such as: o a premium-free health insurance plan that saves employees over $10K annually, per a 2024 assessment. o additional health, fitness, and financial benefits may be available based on the position’s associated union/benefit fund. o a public sector defined benefit pension plan with steady monthly payments in retirement. o a tax-deferred savings program and o a robust Worksite Wellness Program that offers resources and opportunities to keep you healthy while serving New Yorkers. - Work From Home Policy: Depending on your position, you may be able to work up to two days during the week from home. - Job Security - you could enjoy more job security compared to private sector employment and be able to contribute to making NYC a healthy place to live and work. Established in 1805, the New York City Department of Health and Mental Hygiene (NYC Health Department) is the oldest and largest health department in the U.S., dedicated to protecting and improving the health of NYC. Our mission is to safeguard the health of every resident and cultivate a city where everyone, regardless of age, background, or location, can achieve their optimal health. We provide a wide array of programs and services focused on food and nutrition, anti-tobacco support, chronic disease prevention, HIV/AIDS treatment, family and child health, environmental health, mental health, and social justice initiatives. As the primary population health strategist and policy authority for NYC, with a rich history of public health initiatives and scientific advancements, from addressing the 1822 yellow fever outbreak to the COVID-19 pandemic, we serve as a global leader in public health innovation and expertise. Come join us and help to continue our efforts in making a difference in the lives of all New Yorkers! The NYC Health Department is an inclusive equal opportunity employer committed to providing access and reasonable accommodation to all individuals. To request reasonable accommodation to participate in the job application or interview process, contact Sye-Eun Ahn, Director of the Office of Equal Employment Opportunity, at sahn1@health.nyc.gov or 347-396-6549. CITY RESEARCH SCIENTIST - 21744 Minimum Qualifications 1. For Assignment Level I (only physical, biological and environmental sciences and public health) A master's degree from an accredited college or university with a specialization in an appropriate field of physical, biological or environmental science or in public health. To be appointed to Assignment Level II and above, candidates must have: 1. A doctorate degree from an accredited college or university with specialization in an appropriate field of physical, biological, environmental or social science and one year of full-time experience in a responsible supervisory, administrative or research capacity in the appropriate field of specialization; or 2. A master's degree from an accredited college or university with specialization in an appropriate field of physical, biological, environmental or social science and three years of responsible full-time research experience in the appropriate field of specialization; or 3. Education and/or experience which is equivalent to "1" or "2" above. However, all candidates must have at least a master's degree in an appropriate field of specialization and at least two years of experience described in "2" above. Two years as a City Research Scientist Level I can be substituted for the experience required in "1" and "2" above. NOTE: Probationary Period Appointments to this position are subject to a minimum probationary period of one year. Public Service Loan Forgiveness As a prospective employee of the City of New York, you may be eligible for federal loan forgiveness programs and state repayment assistance programs. For more information, please visit the U.S. Department of Education’s website at https://studentaid.gov/pslf/. Residency Requirement New York City residency is generally required within 90 days of appointment. However, City Employees in certain titles who have worked for the City for 2 continuous years may also be eligible to reside in Nassau, Suffolk, Putnam, Westchester, Rockland, or Orange County. To determine if the residency requirement applies to you, please discuss with the agency representative at the time of interview. Additional Information The City of New York is an inclusive equal opportunity employer committed to recruiting and retaining a diverse workforce and providing a work environment that is free from discrimination and harassment based upon any legally protected status or protected characteristic, including but not limited to an individual's sex, race, color, ethnicity, national origin, age, religion, disability, sexual orientation, veteran status, gender identity, or pregnancy.

We're hiring Bioinformatics Scientists with strong backgrounds in computational biology and data science. A deep understanding of both biology and machine learning is required. The position's goals are varied, but include using personalized biomarker discovery and integrative-omics to diagnose "hard-to-diagnose" diseases. In this position at ICR, you'll get to: • Conduct complex bioinformatics analyses on large genomics, transcriptomic, proteomic, metabolomic, and lipidomic datasets from biofluids and cell lines • Engage in multi-omic integration under a personalized medicine paradigm • Discover personalized biomarkers to aid in unraveling complex and obscure phenotypes Please apply if you have: • An MS or PhD in a Biomedical Science and extensive experience with computational biology, bioinformatics and data science • Experience incorporating AI tools into bioinformatics workflows • Expertise in multi-omics integration, systems biology, network medicine, precision and personalized medicine • Expertise in perturbation analysis and pathway enrichment analysis (eg. KEGG, Reactome, MSigDB) • Machine learning skills (eg. LR, SVM, RF, XGBoost) and extensive experience with: Bayesian/probabilistic modeling, network-based sample similarity algorithms and factorization methods, data cleaning, such as batch effect removal and imputation, and data transformation and visualization • A solid statistical foundation • Expertise programming machine learning and statistical pipelines, preferably in Python • GitHub repository showing your work, preferably linked to publications Ideally, you'll also have experience with: • iOS app development • R programming • Linux environments • Outlier detection And you'll need: • Ability to work in the United States without sponsorship • A can-do attitude and a friendly, easygoing personality Position title and compensation are commensurate with experience. The compensation ranges listed below are starting ranges. Starting base salary range: $155,000/yr - $230,000/yr Starting bonus range: $10,000/yr - $40,000/yr

Reference #: 1020495 SHIFT:Day (United States of America) Seeking Breakthrough Makers Children's Hospital of Philadelphia (CHOP) offers countless ways to change lives. Our diverse community of more than 20,000 Breakthrough Makers will inspire you to pursue passions, develop expertise, and drive innovation. At CHOP, your experience is valued; your voice is heard; and your contributions make a difference for patients and families. Join us as we build on our promise to advance pediatric care-and your career. CHOP does not discriminate on the basis of race, color, sex, national origin, religion, or any other legally protected categories in any employment, training, or vendor decisions or programs. CHOP recognizes the critical importance of a workforce rich in varied backgrounds and experiences and engages in ongoing efforts to achieve that through equally varied and non-discriminatory means. A Brief Overview The Principal Bioinformatics Scientist position is an advanced level position for a PhD level professional and serves as the final stage of the bioinformatics staff individual contributor. Further advancement in this area is either within the academic faculty ladder or bioinformatics management. The focus of the position is a completely enabled subject matter expert who performs both independent, high-functioning collaboration with biomedical investigators and independent bioinformatics methods research. The position allows for a wide variety of activities described within the job responsibilities and encompasses positions within both research and clinical environments. Activities occur with minimal supervision and expectation for highly independent judgment, development of bioinformatics workflows and processes, and presentation of results. The Principal Bioinformatics Scientist will define best practices in collaborative science as a bioinformatics domain scientific collaborator. Academic output is a focus of this position and is expected with no formal supervision. The Principal Bioinformatics Scientist is considered a preeminent scientist within the group and a leader in the bioinformatics discipline as commonly recognized by all stakeholders (collaborators, peers, management). The individual mentors other team members regularly. This individual is capable of leading complex bioinformatics projects critical to the organization based on both technical, academic, and social prowess. The Principal Bioinformatics Scientist must be able to perform all responsibilities listed in the Bioinformatics Scientist III job description. All responsibilities listed in this description are additional. What you will do Pre-Analysis (5%): Lead development of application portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provide efficient data management support. Understand and help define strategic evolution of shared data processing resources relative to industry Help define boundaries and limitations of shared resources such as complex data manipulation pipelines, etc. Help to define governance of shared resources Advocate for advanced solutions and effective management of shared resources Coding (5%): Code and generally support code and applications on behalf of collaborative project and/or team. Help define strategy, governance, and policy for code sharing, language standards, QC, and code reviews Data Analysis (20%): Analyze data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data with limited direction from collaborative team Lead multiple specialty analytical and/or biomedical areas that serve one or more collaborative teams Regularly promote analytical best practices in specialty analytical areas for adoption throughout the organization Collaboration (40%): Lead bioinformatics portion of scientific collaborations as the primary bioinformatics resource Serve as equivalent scientific voice/role to principal investigator As bioinformatics point, assume lead management role for projects of high complexity, including all aspects of timelines, risk identification and mitigation strategies, and communication mechanisms Lead project-based satisfaction and performance activities in order to achieve aims Lead continual objective, hard discussions about overall health of project and relationship Regularly develop new collaborations as a result of subject matter expert role throughout organization Academic Output (30%): Lead project-based presentations, grants, and manuscripts, with subsequent review by peers and mentors Lead or senior authorship on regular bioinformatics-focused manuscripts and publications Lead or senior authorship on regular podium presentations and posters Lead authorship on entire grant and award proposals Education Qualifications Doctorate - Required Doctorate biological or computational discipline - Preferred Experience Qualifications At least ten (10) years experience in applied bioinformatics, genomics, and computational work - Required Skills and Abilities Ability to independently conceive of, plan, implement, validate, and disseminate entire research projects is required. Understanding or the molecular etiopathology of common diseases and syndromes is required. Ability to assume principal investigator or similar role in academic research is required. Strong UNIX/LINUX expertise required. Proficiency in R or similar commonly used bioinformatics language required Experience with Python, Perl, or other languages required. Experience with pipeline or workflow development frameworks required. Experience with management and analysis of complex data @types required. Proficiency in various open source and commercial bioinformatics resources and software required. Experience with genomic/proteomic data analysis methods required. Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture required. Knowledge of the working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies and awareness of their strengths and weaknesses, as well as applicability to a specific biological problem is required. Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases is required. Ability to correctly select and perform statistical tests for most @types of genomic data, and to properly interpret their results in the scenario of a specific study is required. Ability to leverage unique knowledge of bioinformatics, applied biostatistics, molecular biology, and measurement platforms for effective scientific discussion with biologists and clinicians is required. Ability to determine most favorable academic output as a primary research outcome is required. Ability to objectively critique results and present as valid or questionable, taking into account all aspects of study design, technical issues, and limitations of workflows is required. Ability to objectively assess significance of results relative to larger academic and commercial domain is required. Ability to identify, troubleshoot data or result abnormalities by reviewing all major aspects of a study is required. Accountability and attention to timelines. Excellent organization and communication skills with an emphasis on strong presentation skills Ability to independently plan and execute analyses of the highest complexity required Ability to provide objective validation of re

Organization Overview The Laboratory of Chemical Immunology and Proteomics applies synthetic chemistry, chemical biology, and proteomics methods toward the goals of discovering and characterizing (a) novel selective chemical probes that perturb the functions of key proteins regulating immunological and neuroimmunological processes; (b) new mechanisms for small molecule-induced protein degradation; and, more broadly, (c) the pharmacological landscape and signal transduction pathways in immune and neuroimmunological disorders. By developing and applying innovative chemical proteomic profiling technologies, we aim to enrich our understanding of the molecular differences between pathologic and physiologic states in immune cells and cells of the nervous system and to leverage them from a pharmacological perspective for the development of new therapies that not only target specific immune cell subtypes, but also the defined activation states of these cells. Please see www.vinogradovalab.com for more information. Overview We seek a highly motivated Bioinformatics Assistant to join the Laboratory of Chemical Immunology and Proteomics. Responsibilities Responsibilities include: • Facilitating proteomics and genomics workflows for data processing and analysis • The development and application of data analysis and visualization tools Qualifications REQUIRED QUALIFICATIONS: • Bachelor’s degree in Computational Biology, Computer Science, Bioinformatics, Biostatistics, Mathematics, or related field • At least one year of work experience in large scale biological data analysis (Proteomics and NGS - preferred) PREFERRED QUALIFICATIONS: • Proficiency in Python, and other relevant computer languages, with working knowledge of statistical methods and data analysis methods • Must be able to work independently as well as part of a team in a fast-paced, highly collaborative environment • Strong organizational, record-keeping, and interpersonal skills • Excellent critical thinking, and analytical skills The Rockefeller University is an equal opportunity employer – veterans/individuals with disabilities. Qualified applicants will receive consideration for employment without regard to characteristics protected by applicable local, state or federal law, including but not limited to disability and protected veteran status. 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 $50,000.00/Yr. Compensation Range: Max USD $56,000.00/Yr.

Join the DataAnnotation team and contribute to developing cutting-edge AI systems, while enjoying the flexibility of remote work and setting your own schedule. We are looking for an expert Biologist (part-time work from home) to help advance AI development. As a member of DataAnnotation’s Biology team, you’ll be part of a growing community of over 100,000 experts who are driving real-world impact in AI development. Our platform offers an engaging blend of flexibility and challenge: you’ll work closely with state-of the art AI models to take on programming tasks that include solving challenging biology problems and synthesizing insights through data analysis and visualization. Your work directly contributes to refining intelligent systems that learn, adapt, and evolve. Some team members fit this work alongside a full-time role, while others treat it as their primary focus, choosing projects and schedules that align with their availability and goals. To get started, once you sign up for an account, you'll take a short assessment (this serves as our version of an interview). If you pass that assessment, you’ll receive an email confirmation, and paid work will become available to you through our platform. Benefits: • This is a full-time or part-time REMOTE position • You’ll be able to choose which projects you want to work on • You can work on your own schedule • Projects are paid hourly starting at $40+ USD per hour, with bonuses on high-quality and high-volume work Responsibilities: • Give AI chatbots complex biology questions and evaluate their outputs • Evaluate the quality produced by AI models for correctness and performance Qualifications: • Fluency in English (native or bilingual level) • Detail-oriented • Understanding of cell biology, genetics, biochemistry, and experimental methods • A current, in progress, or completed Master's and/or PhD is preferred but not required Note: Payment is made via PayPal. We will never ask for any money from you. PayPal will handle any currency conversions from USD. This job is only available to those in the US, Canada, UK, Ireland, Australia, and New Zealand. Those located outside of these countries will not see work or assessments available on our site at this time. #bio

• Job Type: Officer of Administration • Regular/Temporary: Regular • Hours Per Week: 35 • Salary Range: $66,300 - $70,000 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 dynamic and motivated individual to join our research team in exploring genetic and molecular variations within precision medicine. At the Center for Precision Medicine and Genomics (CPMG), our mission is to enhance disease prevention, diagnosis, and treatment through cutting-edge research. We are dedicated to integrating personalized medicine into clinical practice and establishing genetic medicine as a standard of care. The ideal candidate will be an integral part of a cohesive team composed of clinicians, research scientists, and genetic counselors, all working collaboratively on transformative projects. This role offers an engaging, interdisciplinary environment with opportunities to learn the fundamentals of genomics and precision medicine. Responsibilities Under the close supervision of the Bioinformatics Lead and the Director of CPMG, the Bioinformatics Analyst will: • Collaborate with faculty and a team of genome analysts to analyze and interpret sequence data. • Support research studies through bioinformatics and statistical analyses, including the implementation of computational models, database management, and the use of various statistical packages. • Contribute to the development of new platforms and solutions for large-scale integrative analysis of genomic data. • Assist in the evaluation and implementation of new pipelines and methods for analyzing next-generation sequencing (NGS) datasets. • Perform other related duties as necessary. Minimum Qualifications • Bachelor’s degree in a STEM discipline or equivalent education, training, and experience, plus two years of related experience. • Demonstrated problem-solving skills. • Ability to work effectively within a team. • Strong organizational and communication skills. • Willingness and initiative to learn and adopt novel tools, methods, and technologies in a rapidly evolving field. Preferred Qualifications • Strong programming skills (e.g., Python, Java, R) and experience in *NIX environments. • Solid understanding of genetics, bioinformatics, and statistics as applied to NGS datasets. • Experience in analyzing large NGS datasets. • Proven problem-solving abilities and strong organizational and communication skills, with a desire and capability to work effectively in a team environment. 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.

Description We are seeking an experienced bioinformatician for the Tisch Cancer Institute Bioinformatics for Next Generation Sequencing (BiNGS) shared resource facility, to lead transcriptomics and epigenetics data analysis projects in Cancer biology. The mission of BiNGS is to enhance scholarship and facilitate NGS data analysis in the ISMMS community by providing access to state-of-the-art tools and training. The BiNGS staff support a broad range of bioinformatics analyses for multiple applications spanning bulk ATAC-, RNA-, and ChIP-seq, CUT&RUN and HiC, single cell ATAC- and RNA-seq, single cell Multiome and Spatial Transcriptomics, WGS and WES. BiNGS further provides services for data management, bioinformatics tools development, access to biocomputing resources, web-based app development, and advanced computational training in data analysis. We are focused on delivering a comprehensive, rapid and user-friendly service. More specifically, we are working on multiple projects together with PIs in the Tisch Cancer institute and the broader Mount Sinai community to analyze NGS related datasets. For example, we are working to understand the role of RAS mutations in the development of Leukemia utilizing single cell RNA- and ATAC-seq; understand the role of histone variants in cancer development utilizing enhancers analysis, transcriptomic analysis, open chromatin analysis and transcription factor network analysis; in another project, we are utilizing bulk and single cell, and spatial transcriptomics to understand breast cancer metastasis to bone. Finally, we are utilizing FIBER-seq (third generation PacBio long read sequencing), to better understand how chromatin remodelers shape the chromatin landscape. We are seeking a highly motivated senior Bioinformatic Scientist who wants the opportunity to significantly impact the growth and success of our research programs, the bioinformatics core and the services we provide. The candidate will work closely with investigators to facilitate and enhance the processing of their projects. Commitment to accuracy, high attention-to-details, and ability to work independently are critical competencies for the role. The ability to lead projects is a must. We feel that BiNGS presents a unique opportunity for bioinformaticians who seek to expand their data analysis skills; their understanding of transcriptional and epigenetic programs and their role in driving cancer initiation, progression and metastasis, and other diseases; their ability to communicate science clearly and efficiently; their ability to lead a small team of junior of bioinformaticians, and their involvement in reducing racial bias in science through mentorship of URM in Science. Responsibilities • Execute computational analysis for bulk RNA-seq, ATAC-seq, scRNA-seq, and ChIP-seq and CUT&RUN. • Tracking and reporting of ongoing projects including presentation of analysis progress in internal meetings and communications with PI to present results, interpret data and come up with new hypotheses. • Integrate data across different datatypes and from publicly available resources (e.g., ENCODE and TCGA), with experimental data generated by PIs. For example; correlation with gene expression signatures, and Histone PTM enrichment analysis. The ideal candidate will be able to navigate the available datasets and extract meaningful data based on the system he/she works on. • Provide analyses and visualization for presentations and publications.Participate in the implementation of new software tools (e.g., MOFA and SNF) to process, analyze and visualize high-throughput multidimensional sequencing data. The candidate will be required to identify the main requirements based on relevant questions, identify available tools, implement and test. • Manage data and interactive tools on local HPC and commercially available clouds preferably Amazon Web Services. The candidate will execute all data analysis on HPC using bash and manage the storage and archiving of all NGS datasets on the MSSM HPC. Further managing of our HTML reports will be done on Amazon cloud • Provide training to TCI investigators and trainees. Qualifications • B.S. in Biological Sciences, Bioinformatics, Computer Sciences, Statistics or related discipline; M.S. preferred • 3 years experience required • Working experience with genetics or statistics analysis software and online resources. Experience in programming environments such as Matlab, R statistical package, BioConductor, Perl or C++. Preferred Skillset • MSc in Bioinformatics or Computational biology with a focus on genomics or related discipline. • Experience in analyzing and integrating bulk RNA-seq, ATAC-seq. • Knowledge of cancer biology, chromatin biology, and technologies such as next-generation sequencing. • Proven experience with Perl, R and Unix. Additional experience with standard genomics tools for high-throughput sequencing data analysis is preferred (e.g. Bowtie2, Cellranger, Samtools, STAR, MACS2 and the UCSC genome browser). • Experience in batch HPC cluster environment with a parallel file system. • Ability to research, analyze, recommend, communicate and implement data analysis solutions. • Must be able to work as an individual while part of a small team. Employer Description Strength through Unity and Inclusion The Mount Sinai Health System is committed to fostering an environment where everyone can contribute to excellence. We share a common dedication to delivering outstanding patient care. When you join us, you become part of Mount Sinai’s unparalleled legacy of achievement, education, and innovation as we work together to transform healthcare. We encourage all team members to actively participate in creating a culture that ensures fair access to opportunities, promotes inclusive practices, and supports the success of every individual. At Mount Sinai, our leaders are committed to fostering a workplace where all employees feel valued, respected, and empowered to grow. We strive to create an environment where collaboration, fairness, and continuous learning drive positive change, improving the well-being of our staff, patients, and organization. Our leaders are expected to challenge outdated practices, promote a culture of respect, and work toward meaningful improvements that enhance patient care and workplace experiences. We are dedicated to building a supportive and welcoming environment where everyone has the opportunity to thrive and advance professionally. Explore this opportunity and be part of the next chapter in our history. About the Mount Sinai Health System: Mount Sinai Health System is one of the largest academic medical systems in the New York metro area, with more than 48,000 employees working across eight hospitals, more than 400 outpatient practices, more than 300 labs, a school of nursing, and a leading school of medicine and graduate education. Mount Sinai advances health for all people, everywhere, by taking on the most complex health care challenges of our time — discovering and applying new scientific learning and knowledge; developing safer, more effective treatments; educating the next generation of medical leaders and innovators; and supporting local communities by delivering high-quality care to all who need it. Through the integration of its hospitals, labs, and schools, Mount Sinai offers comprehensive health care solutions from birth through geriatrics, leveraging innovative approaches such as artificial intelligence and informatics while keeping patients’ medical and emotional needs at the center of all treatment. The Health System includes more than 9,000 primary and specialty care physicians; 13 joint-venture outpatient surgery centers throughout the five boroughs of New York City, Westchester, Long Island, and Florida; and more than 30 affiliated community health centers. We are consistently ranked by U.S. News & World Report's Best Hospitals, receiving high "Honor Roll" status, and are highly ranked: No. 1 in Geriatrics, top 5 in Cardiology/Heart Surgery, and top 20 in Diabetes/Endocrinology, Gastroenterology/GI Surgery, Neurology/Neurosurgery, Orthopedics, Pulmonology/Lung Surgery, Rehabilitation, and Urology. New York Eye and Ear Infirmary of Mount Sinai is ranked No. 12 in Ophthalmology. U.S. News & World Report’s “Best Children’s Hospitals” ranks Mount Sinai Kravis Children's Hospital among the country’s best in several pediatric specialties. The Icahn School of Medicine at Mount Sinai is ranked No. 11 nationwide in National Institutes of Health funding and in the 99th percentile in research dollars per investigator according to the Association of American Medical Colleges. Newsweek’s “The World’s Best Smart Hospitals” ranks The Mount Sinai Hospital as No. 1 in New York and in the top five globally, and Mount Sinai Morningside in the top 20 globally. Equal Opportunity Employer The Mount Sinai Health System is an equal opportunity employer, complying with all applicable federal civil rights laws. We do not discriminate, exclude, or treat individuals differently based on race, color, national origin, age, religion, disability, sex, sexual orientation, gender, veteran status, or any other characteristic protected by law. We are deeply committed to fostering an environment where all faculty, staff, students, trainees, patients, visitors, and the communities we serve feel respected and supported. Our goal is to create a healthcare and learning institution that actively works to remove barriers, address challenges, and promote fairness in all aspects of our organization. Compensation The Mount Sinai Health System (MSHS) provides salary ranges that comply with the New York City Law on Salary Transparency in Job Advertisements. The salary range for the role is $65000.17 - $87610 Annually. Actual salaries depend on a variety of factors, including experience, education, and operational need. The salary range or contractual rate listed does not include bonuses/incentive, differential pay or other forms of compensation or benefits.