Bioinformatics Jobs

· We are seeking a Bioinformatics Scientist to join our cross-functional team and provide advanced bioinformatics support to aid genetic-data-driven target discovery for male-pattern baldness. · The successful candidate will use integrated approaches involving a variety of ‘omics data to test and refine biological hypotheses in coordination with wet-lab and computational colleagues. Key responsibilities include: · Upstream processing of ‘omics data (QC, normalization, exploratory data analysis). Downstream processing of bulk, single-cell, and/or spatial transcriptomic data (e.g., cell type annotation, differential gene expression analysis, gene set enrichment analysis, results visualization). · Applicants should be familiar with high-performance computing systems, shell scripting in a Linux environment, and have strong facility with R, including relevant bioinformatics packages (e.g., Seurat, limma). · Those with experience integrating multi-modal data (e.g., scRNAseq + scATACseq, spatial RNAseq + spatial proteomics) and/or incorporating genetic evidence in causal gene discovery are especially encouraged to apply. · A background in human disease biology is helpful but not required. · What are the top 3-5 skills, experience or education required for this position: Qualifications: · PhD in Bioinformatics, Genetics, Molecular and Cellular Biology, or related field or MS with at least 6 years of experience. · Single-cell and/or spatial transcriptome QC and analysis (e.g., with Seurat or Scanpy) · Bulk RNAseq data processing and analysis · Facility with R and/or Python for data exploration and statistical analysis · Experience with high-performance computing (HPC) and job submission systems Company DescriptionCollabera is a Global Digital Solutions Company providing Software Engineering Solutions for the world's most tech-forward organizations in the areas of Engineering, Cloud and Data/AI. With its roots serving the engineering needs of the world's most recognized businesses in Technology, Financial Services, Telecom and Healthcare, Collabera today operates across 60 locations in 11 countries, serves 30% of the Fortune 500, and has exceeded the industry growth rate by 3-4x for several years.

Job Title: Bioinformatics BA / Product owner Duration: Contract Location: Remote Domain: Healthcare Bioinformatics Job Description Maintain active communication with business users and stakeholders to manage expectations. Lead requirements gathering, analysis and verification to write requirement statements that are complete and maintain the same in JIRA/Confluence. Ensure clarity between requirements and team (offsite) Design defines and test project requirements. Communicate complex information in an easy-to-understand manner. Working knowledge of bioinformatics pipeline related to NGS analysis. Knowledge of WGS, WES/WXS and RNA-SEQ analysis. Knows about analysis of Multiplexing data. Must have bioinformatics background specifically in cancer genomics. Understanding about mutations, vcf format and human genome. Must have knowledge of bioinformatics databases like clinvar, dbSNP, UNIPORT, COSMIC etc. Good to have knowledge of bioinformatics tools and databases like ENSEMBL, UCSC. Responsible for Validation and Compliance. Responsible for Trace matrix, SDLC documentation such as UR, FRS etc Comfortable with Linux. Participated and is aware of agile processes.

Company Description AbbVie's mission is to discover and deliver innovative medicines and solutions that solve serious health issues today and address the medical challenges of tomorrow. We strive to have a remarkable impact on people's lives across several key therapeutic areas – immunology, oncology, neuroscience, and eye care – and products and services in our Allergan Aesthetics portfolio. For more information about AbbVie, please visit us at www.abbvie.com. Follow @abbvie on Twitter, Facebook, Instagram, YouTube and LinkedIn. Job Description AbbVie’s Genomics Research Center is looking for a highly motivated computational biologist (Scientist II/Senior Scientist I, Bioinformatics) to join a team of bioinformatics scientists investigating aging and age-related diseases. AbbVie’s GRC is a center of excellence for bioinformatics, functional genomics, and human genetics. The GRC works across all R&D including discovery and clinical development, and multiple areas such as process sciences, global epidemiology, search and evaluation, and corporate strategy. This role is an on site position based out of our Lake County, IL office and the employee must be able to work on site in a hybrid work environment. The ideal candidate will be an experienced computational biologist with extensive experience in designing and implementing bioinformatics methods as well as analysis and interpretation of various types of omics data to solve biological and clinical problems. The candidate should be familiar with developing and improving genomic data workflows on large NGS datasets (scRNA-seq, RNA-seq, spatial transcriptomics), integrating multi-omics datasets, predictive modeling, contemporary data visualization methods, as well as writing clean, well-documented, efficient code in R, bash, and python. Candidates should have demonstrated proficiency in a Linux environment and high-performance distributed computing and should be knowledgeable in the areas of statistical inference. Individuals with experience interpreting biological data related to understanding human disease biology, drug target identification, or treatment mechanism of action are preferred. The successful candidate will be responsible for formulating scientific questions into coherent analytical efforts, developing rigorous statistical methods, and communicating scientific findings to internal and external stakeholders. In addition, the candidate may contribute to presentations at scientific conferences, publications in peer-reviewed journals, and regulatory filings. Qualifications Scientist II - BS or equivalent education with typically 7 or more years of experience or MS or equivalent education with typically 5 or more years of experience. Sr. Scientist I - Bachelor’s Degree or equivalent education and typically 10 years of experience, Master’s Degree or equivalent education and typically 8 years of experience, PhD and no experience necessary. • A high degree of technical competency and strong communication ability, as well as fluency in 2 or more relevant programming languages, such as R, Python or Java. • Candidates should be experienced with high-throughput omics technologies such as gene expression transcriptomics, enrichment analysis, proteomics, metabolomics, epigenomics etc. • Knowledge around contemporary data visualization methods like R Shiny, or Spotfire; as well as experience in database management in SQL, SQLite, or MongoDB • Strong communication skills in a cross-site and collaborative environment Additional skills preferred: • Experience analyzing and interpreting gene expression data for understanding disease mechanisms and model organism prioritization • Background in analyzing and understanding human disease biology with omics data across multiple tissues from affected patients and animal models • Experience handling, visualizing, recording, and managing data with SQL or other enterprise solutions • Fluency with public data repositories like GEO, SRA, and ArrayExpress and mouse model repositories (mgi); familiarity with genomic databases (such as those relating to genome annotation), genetic variants, or consortium disease specific (like the Accelerating Medicines Partnership - Alzheimer's Disease, the Cancer Genome Atlas). Key Leadership Competencies: • Builds strong relationships with peers and cross functionally with partners to enable higher performance Additional Information Applicable only to applicants applying to a position in any location with pay disclosure requirements under state or local law: ​ ​ • The compensation range described below is the range of possible base pay compensation that the Company believes in good faith it will pay for this role at the time of this posting based on the job grade for this position. Individual compensation paid within this range will depend on many factors including geographic location, and we may ultimately pay more or less than the posted range. This range may be modified in the future.​ • We offer a comprehensive package of benefits including paid time off (vacation, holidays, sick), medical/dental/vision insurance and 401(k) to eligible employees.​ • This job is eligible to participate in our short-term incentive programs. ​ ​ Note: No amount of pay is considered to be wages or compensation until such amount is earned, vested, and determinable. The amount and availability of any bonus, commission, incentive, benefits, or any other form of compensation and benefits that are allocable to a particular employee remains in the Company's sole and absolute discretion unless and until paid and may be modified at the Company’s sole and absolute discretion, consistent with applicable law. ​ AbbVie is an equal opportunity employer and is committed to operating with integrity, driving innovation, transforming lives, serving our community and embracing diversity and inclusion. It is AbbVie’s policy to employ qualified persons of the greatest ability without discrimination against any employee or applicant for employment because of race, color, religion, national origin, age, sex (including pregnancy), physical or mental disability, medical condition, genetic information, gender identity or expression, sexual orientation, marital status, status as a protected veteran, or any other legally protected group status. US & Puerto Rico only - to learn more, visit https://www.abbvie.com/join-us/equal-employment-opportunity-employer.html

Help us change lives At Exact Sciences, we’re helping change how the world prevents, detects and guides treatment for cancer. We give patients and clinicians the clarity needed to make confident decisions when they matter most. Join our team to find a purpose-driven career, an inclusive culture, and robust benefits to support your life while you’re working to help others. Position Overview The Bioinformatics Scientist I, with limited guidance from more experienced scientists, works individually and in collaboration with others on multiple projects which are moderate to complex in scope. The Bioinformatics Scientist I plays an active role in planning of projects and analyses and is often the bioinformatics lead responsible for the successful execution of the project. This position involves independently making detailed observations, analyzing data and interpreting results. Working in a team setting, the Bioinformatics Scientist I, will primarily be involved in Research and Development projects serving as a technical lead in translating research ideas and concepts into the product development pipeline towards development of diagnostic assay products. This position is for our Advanced Research Technology (ART) Team and will be focusing on early research. Essential Duties Include, but are not limited to, the following: • Conduct analyses within several product or technology areas and identify problems and discrepancies. • Independently plan and analyze results of bench level experiments within several product or technology areas. • Manage bench-generated data and bioinformatics outputs within high performance computing (HPC) or cloud computing environment. • Utilize and apply methods or technologies effectively and provide ideas for new techniques, when appropriate. • Maintain knowledge of technological industry developments that could assist in completion of an assignment or aid in the development of new processes or procedures. • Provide technical input and participate in decisions affecting project planning and experimental design. • Prepare and provide information and data for scientific abstracts/conferences/project meetings/publication. • Generate, document, and communicate development plans for critical aspects of a project. • Participate in the development of research plans and experimental outlines. • Prepare detailed technical procedures, protocols, and reports. • Evaluate impact of nonconforming data to product or process. • Identify and address trends in study data. • Prepare and approve written reports. • Lead identification of areas for process improvements. • Maintain lab notebook in a clear, complete, and consistent manner, following all legal, ISO, and QSR requirements. • Prepare reports and documentation providing the analysis or summarization of results, outcomes and next steps to supervisor, technical teams/groups, or project teams. • Present results and defend scientific ideas and findings at data meetings, group meetings, project team meetings, and/or departmental meetings; provide technical input as needed. • Demonstrate technical proficiency and knowledge, scientific creativity, collaboration with others, and independent thought and ability to provide insights and defend scientific ideas. • Work on problems of diverse and complex scope in which analysis of data requires evaluation of identifiable factors. • Exercise judgment within generally defined practices and policies in selecting methods and techniques for obtaining solutions. • Work on individual assignments and with project team members as appropriate to meet department and project objectives. • Work within project timeframes that are established collaboratively by team members. • Act as technical leader for one or more projects that are moderate to complex in scope. • Exercise discretion and independent judgement within broadly defined practices and policies in: selecting methods, techniques and evaluation criteria for obtaining and interpreting results; analyzing data and presenting findings in a professional and knowledgeable manner. • Promote an open, collaborative environment built on trust to foster positive teamwork. • Assist in planning and recommendation of activities that account for prioritization of organizational and department goals. • Ability to train and mentor bioinformatics associates. • Ability to organize, present, and convey moderate problems or issues. • Ability to communicate clearly with supervisor and group members. • Demonstrate excellent presentation. • Ability to collaborate, work effectively and contribute within team, department, and cross functional teams. • Demonstrate strong attention to detail skills. • Ability to effectively work on several varied projects at one time, with frequent changing priorities. • Demonstrate excellent analytical, problem solving and decision-making skills. • Apply sound technical knowledge and ability gained through experience and/or learning. • Apply previous knowledge and outcomes to new and valuable problems (able to make predictions based on a deep understanding of the fundamental nature of the inputs into a decision or action). • Uphold company mission and values through accountability, innovation, integrity, quality, and teamwork. • Support and comply with the company’s Quality Management System policies and procedures. • Maintain regular and reliable attendance. • Ability to act with an inclusion mindset and model these behaviors for the organization. • Ability to work on a mobile device, tablet, or in front of a computer screen and/or perform typing for approximately 90% of a typical working day. • Ability to work on a computer and phone simultaneously. • Ability to travel 5% of working time away from work location, may include overnight/weekend travel. Minimum Qualifications • PhD in bioinformatics, computational biology, computer science, mathematics, or related field; or Master’s degree in bioinformatics, computational biology, computer science, mathematics, or related field plus 4 years of experience in lieu of a PhD; or Bachelor’s degree in bioinformatics, computational biology, computer science, mathematics, or related field plus 6 years of experience in lieu of PhD. • 1+ years of experience in medical device/IVD, biotech, life science or pharmaceutical industry. • Extensive experience in Linux-based HPC or cloud computing environments and associated tools. • Ability to write custom code in at least three programming or scripting languages. • Knowledge of molecular biology and/or biochemistry and/or next-generation sequencing (NGS) and genomics. • Working knowledge of statistical and mathematical methods in biology/genetics/genomics, including experience with statistical software, such as JMP or R. • Basic computer skills to include Internet navigation, Email usage, and word processing. • Proficient in Microsoft Office to include Excel, Word, and PowerPoint. • Demonstrated ability to perform the essential duties of the position with or without accommodation. • Authorization to work in the United States without sponsorship. Preferred Qualifications • 2+ years of industry or academic experience, post doc. • Experience in an FDA-regulated environment, ideally in medical device development. • Experience in a biotech manufacturing environment, preferably in an GMP and/or ISO environment. Salary Range: $85,000.00 - $135,000.00 The annual base salary shown is for this position located in US - WI - Madison on a full-time basis. In addition, this position is bonus eligible, and is eligible to receive company stock upon hire as well as annually. Exact Sciences is proud to offer an employee experience that includes paid time off (including days for vacation, holidays, volunteering, and personal time), paid leave for parents and caregivers, a retirement savings plan, wellness support, and health benefits including medical, prescription drug, dental, and vision coverage. Learn more about our benefits. Our success relies on the experiences and perspectives of a diverse team, and Exact Sciences fosters a culture where all employees can develop personally and professionally with a sense of respect and belonging. If you require an accommodation, please contact us here. Not ready to apply? Join our talent community and stay up to date on what’s new at Exact Sciences. We are an equal employment opportunity employer. All qualified applicants will receive consideration for employment without regard to age, color, creed, disability, gender identity, national origin, protected veteran status, race, religion, sex, sexual orientation, and any other status protected by applicable local, state, or federal law. Any applicant or employee may request to view applicable portions of the company’s affirmative action program. To view the Right to Work, E-Verify Employer, and Pay Transparency notices and Federal, Federal Contractor, and State employment law posters, visit our compliance hub. 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About Invenra: We are a biotechnology company focused on employing cutting edge protein engineering and multi-specific antibodies to discover therapeutic solutions to challenging diseases. At Invenra, we start with biology, then employ our extensive technology toolbox and efficient discovery engine to design and create first- and best-in-class drug candidates. Using our proprietary B-BODY® technology, we have generated a robust pipeline of next-generation multi-specific antibodies to address unmet therapeutic needs in immuno-oncology and autoimmunity. Invenra’s employee-focused management and flexible work environment creates a culture of energy and innovation where everyone makes a difference, and everyone benefits from success. For more information, please visit www.invenra.com. Position Summary: Invenra is seeking a highly motivated Programmer or Engineer to join our Bioinformatics team, reporting to our Senior Engineer - Team Manager, Bioinformatics. The successful candidate will use their knowledge of protein chemistry, antibody discovery and software development to support research and development efforts by building tools, supporting infrastructure build-out, sample tracking and assisting with developing data analytics approaches and presenting data summaries internally. Key Responsibilities: • Collaborate with laboratory scientists to automate tasks, build workflows, and develop tools to ease analysis, improve efficiency, and reduce error • Analyze raw data from various inputs including protein modeling, sequencing, binding assays, chromatography, immunoassays, and others • Develop pipelines for high throughput data analysis and entry into a LIMS database • Develop software tools for scientists to create reports or use robotics platforms • Interpret and analyze results from large data queries and present those interpretations to the teams • Harmonize experimental results and build concise, easy-to-interpret reports and figures, experience with R, Spotfire, Tableau, or other visualization software • Create presentations for use as marketing materials by working directly with scientists in communication with existing or potential clients • Assist in the implementation of sample tracking tools and instrument integrations into the database or LIMS • Participate as an active representative for bioinformatics in interdisciplinary working groups; communicate resources, timelines, and priorities • Other duties as assigned Required Education, Experience, and Competencies: • BS in Molecular Biology, Chemistry, Biochemistry, Computer Science, or a related field with minimum of five (5+) years of total experience in an industry role in the wet lab as well as supporting software development, data analytics, or other informatics disciplines • Relational database experience with in depth knowledge of laboratory analytics processes and how to organize incoming data. • In depth knowledge of data structures, handling large datasets, and building analysis pipelines • Experience with building scripts for data processing and exporting those tools and results to other researchers on a team • Experience with at least one software programming language (Python is preferred). Familiarity with best practices for collaborative software development is considered a plus • Experience creating and deploying apps with react, flask, canvas, or other tools • Comfortable working with REST APIs • Comfortable working with unix, linux, and PC • Enthusiasm to learn new methods and a deep curiosity of immunology and medical outcomes • Proven ability to respond to rapidly changing priorities and deliver results • Ability to work well independently and collaboratively in a team environment Preferred, but not required: • Experience with AWS • Dev Ops: Managing software upgrade lifecycle and deploying software updates to users, coordinating with our IT department • Exposure to the use of computational tools for the purpose of understanding relationships between sequence, structure, and function for peptides, DNA and RNA • Experience with instrumentation integration and robotics / automation pipelines Note: All job candidates must be authorized to work in the United States. Benefits: Include a competitive compensation and benefits package composed of medical, dental, vision, short term and long term disability, and life insurance benefits, 401(k) with employer match, stock option grants, PTO, tuition reimbursement, and bonus plan. At Invenra, we believe in maintaining the highest ethical standards and ensuring that all employees have a good work-life balance. Invenra is an Equal Opportunity Employer. Invenra is committed to a diverse workforce. We believe every individual brings their own unique experience, and these experiences foster innovation and success. We are enthusiastically inclusive of age, race, creed, color, disability, marital status, sex, national origin, ancestry, sexual orientation, and military service. This employer uses E-Verify: Click here for more information. Powered by JazzHR eWCeDnp5ey

Overview Versiti is a fusion of donors, scientific curiosity, and precision medicine that recognize the gifts of blood and life are precious. We are home to the world-renowned Blood Research Institute, we enable life saving gifts from our donors, and provide the science behind the medicine through our diagnostic laboratories. Versiti brings together outstanding minds with unparalleled experience in transfusion medicine, transplantation, stem cells and cellular therapies, oncology and genomics, diagnostic lab services, and medical and scientific expertise. This combination of skill and knowledge results in improved patient outcomes, higher quality services and reduced cost of care for hospitals, blood centers, hospital systems, research and educational institutions, and other health care providers. At Versiti, we are passionate about improving the lives of patients and helping our healthcare partners thrive. Position Summary Under the direction of the Investigator, the Analyst Research Bioinformatics is responsible for the analysis and integration of genome-wide type datasets to support hypothesis driven research. This incumbent will develop, implement and maintain bioinformatics pipelines for the analysis and visualization of next-generation sequencing and microarray datasets. The Bioinformatics Analyst is responsible for the primary data analysis to generate useable data which can then be interpreted by the Investigator. In addition, hypothesis-driven secondary analyses will be performed by the analyst in collaboration with the investigator and/or individuals with more advanced education/training. The expectation is that the primary analysis of RNA-seq, microarray, exome sequencing, whole genome sequencing, and ChIP-seq type studies could be performed by the analyst independently. Responsibilities • Develops, implements and maintains bioinformatics pipelines for the analysis and visualization of NGS data, validates and qualifies software packages for research use. • Performs analysis of NGS and array type datasets. • Collaborates with Information Services for the maintenance and archiving of data. • Maintains databases of data and projects • Works with Principal Investigator to support research projects as needed. • Collaborates with colleagues in the lab to analyze and integrate different types of datasets. • Coordinates internal and external resources necessary for completion of a research plan. • Provides direction to Technologists and Technicians. • Generates clear and complete records of experimental work. • Communicates results of research at meetings. • Participates in publication and presentation of research. • Participates in professional activities to maintain current state of knowledge of bioinformatics. • Adheres to all required regulations (BloodCenter, NIH, HIPAA, etc.) • Performs other duties as required or assigned which are reasonably within the scope of the duties in this job classification • Complies with all policies and standards Qualifications Education • Bachelor's Degree in Biology, Engineering, Computer Science or Bioinformatics at minimum. required • Master's Degree in Computer Science or Bioinformatics preferred Experience • 1-3 years experience with next generation sequencing analysis and bioinformatics tools required Knowledge, Skills and Abilities • Demonstrated leadership skills required • Strong foundation in software requirements analysis required • Foundation in computational algorithm design required • Knowledge of programming and scripting languages such as R, Perl, Python, Java, and/or C++Well developed interpersonal and teamwork skills required • Excellent oral and written communication skills required • Strong critical thinking and analysis skills. required • Ability to collaborate with IT staff and external sources to utilize databases, hardware, and additional tools. required • Working knowledge and experience with various database systems preferred required Tools and Technology • Personal Computer required #VBRI Employment Type: FULL_TIME

Overview Versiti is a fusion of donors, scientific curiosity, and precision medicine that recognize the gifts of blood and life are precious. We are home to the world-renowned Blood Research Institute, we enable life saving gifts from our donors, and provide the science behind the medicine through our diagnostic laboratories. Versiti brings together outstanding minds with unparalleled experience in transfusion medicine, transplantation, stem cells and cellular therapies, oncology and genomics, diagnostic lab services, and medical and scientific expertise. This combination of skill and knowledge results in improved patient outcomes, higher quality services and reduced cost of care for hospitals, blood centers, hospital systems, research and educational institutions, and other health care providers. At Versiti, we are passionate about improving the lives of patients and helping our healthcare partners thrive. Position Summary Under the direction of the Investigator, the Analyst Research Bioinformatics is responsible for the analysis and integration of genome-wide type datasets to support hypothesis driven research. This incumbent will develop, implement and maintain bioinformatics pipelines for the analysis and visualization of next-generation sequencing and microarray datasets. The Bioinformatics Analyst is responsible for the primary data analysis to generate useable data which can then be interpreted by the Investigator. In addition, hypothesis-driven secondary analyses will be performed by the analyst in collaboration with the investigator and/or individuals with more advanced education/training. The expectation is that the primary analysis of RNA-seq, microarray, exome sequencing, whole genome sequencing, and ChIP-seq type studies could be performed by the analyst independently. Responsibilities • Develops, implements and maintains bioinformatics pipelines for the analysis and visualization of NGS data, validates and qualifies software packages for research use. • Performs analysis of NGS and array type datasets. • Collaborates with Information Services for the maintenance and archiving of data. • Maintains databases of data and projects • Works with Principal Investigator to support research projects as needed. • Collaborates with colleagues in the lab to analyze and integrate different types of datasets. • Coordinates internal and external resources necessary for completion of a research plan. • Provides direction to Technologists and Technicians. • Generates clear and complete records of experimental work. • Communicates results of research at meetings. • Participates in publication and presentation of research. • Participates in professional activities to maintain current state of knowledge of bioinformatics. • Adheres to all required regulations (BloodCenter, NIH, HIPAA, etc.) • Performs other duties as required or assigned which are reasonably within the scope of the duties in this job classification • Complies with all policies and standards Qualifications Education • Bachelor's Degree in Biology, Engineering, Computer Science or Bioinformatics at minimum. required • Master's Degree in Computer Science or Bioinformatics preferred Experience • 1-3 years experience with next generation sequencing analysis and bioinformatics tools required Knowledge, Skills and Abilities • Demonstrated leadership skills required • Strong foundation in software requirements analysis required • Foundation in computational algorithm design required • Knowledge of programming and scripting languages such as R, Perl, Python, Java, and/or C++Well developed interpersonal and teamwork skills required • Excellent oral and written communication skills required • Strong critical thinking and analysis skills. required • Ability to collaborate with IT staff and external sources to utilize databases, hardware, and additional tools. required • Working knowledge and experience with various database systems preferred required Tools and Technology • Personal Computer required

Opening Full Time 40 hours Range URG 113 Ctr for Advanced Research Tech Schedule 8 AM-5 PM Responsibilities GENERAL PURPOSE: The Genomics Research Center (GRC) at the University of Rochester is seeking a highly trained, motivated, and passionate Bioinformatics Analyst to join a collaborative Bioinformatics group providing applied bioinformatics analytical support to research scientists utilizing high-throughput sequencing and other data types for their research. The ideal candidate should have a solid foundation in molecular biology, genomics, and bioinformatics as well as be able to communicate and work with a diverse research team. Specifically, the applicant will work under supervision of the Director of the GRC and Senior Bioinformatic Scientist to quality control raw data, identify dysregulated gene and pathways, and integrate disparate datasets into regulatory frameworks. In addition, daily responsibilities of data management, experimental design, optimization and maintenance of computational workflows, incorporation of new methodologies, and providing interpretable results to aid in hythothesis generation are expected. The GRC Bioinformatics Group routinely performs analysis of data including, but not limited to mRNA-seq (bulk and single-cell), micro RNA-seq, total RNA-seq, ChIP-seq, ATAC-seq, whole genome and exome sequencing, methylation sequencing, and micro array using cutting edge analytical methods as well as educates the research community on best practices for informatics. The GRC provides a highly interactive environment with collaborative opportunities across basic and clinical departments, access to high performance computing clusters, highly automated analytical pipelines and integration with high-throughput sequencing infrastructure to aid in experimental design and execution for delivery of high-quality results for highly competitive projects. Candidates with a strong background in bioinformatics, computational biology, machine learning are highly encouraged to apply for this position. This position is located in Rochester, NY and located within the Wilmot Cancer Institute. This position will report directly to the Director of the Genomics Research Center (GRC) and will operate with minimal supervision. JOB DUTIES AND RESPONSIBILITIES: • Analyze high-throughput sequencing data generated on high- throughput sequencing instruments. The sequence data will include: genome sequence data from experimental approaches such as whole genome sequencing, exome sequencing, ChiP-Seq, and targeted resequencing panels This requires an extensive working knowledge of linux/unix commands, computer programming languages and application of open-source software tools . • Analyze high-throughput sequencing data generated on high- throughput sequencing instruments. The sequence data will include: epigenetic (ATAC, methylation) data from tissue and cells populations. • Analyze high-throughput sequencing data generated on high- throughput sequencing instruments. The sequence data will include: RNA-seq data from tissues, cells and bacteria and 3) epigenetic (ATAC, methylation) data from tissue and cells populations. Analysis will include assessment of primary sequence data quality. • Participate in experimental design and analysis of sequencing projects. This includes application and development of novel analytical methods to meet each projects research goals, management of project milestones, and integration of multiple genomic data types . • Provide technical training, supervision, and consultation to GRC Bioinformatics team in conjunction with Bioinformatic Staff Scientist. • Provide bioinformatics support and training to research groups, including use of various software for analysis of genomic data, assistance in analysis and interpretation of data sets, and recommendation of best practices for sequencing experiments . • Secondary analyses of processed data including expression profiling, pathway enrichment analysis, functional annotation, transcription factor binding site prediction, putative motif identification, and chromatin accessibility prediction. • Perform other duties as assigned by management QUALIFICATIONS: • Bachelor's degree required. • Master's degree in related discipline such as Bioinformatics, Computational Biology, Data Science or Engineering preferred • 3 years of relevant experience or an equivalent combination of education and experience required. • Experience with Azure/AWS or other cloud platform development/deployment preferred. • Experience in higher education field strongly preferred. • Excellent communications skills, including written communication required. • Proven track record executing multiple work streams and producing consistent results required. • Strong knowledge of basic statistics, linear model building, principal component analysis, and factor analysis • Web interface, design and development experience, JavaScript, Python/Flask or related programming experience, including source control tools such as GIT required. • Experience with statistical programming and data visualization using R/Bioconductor and UNIX/Linux programming required. • Competency with Python, JAVA, Perl, C++, and Cloud computing strongly preferred. • Experience with interface, networking, and data warehousing technologies, as well as design, relational database technologies, and performance tuning strongly preferred. The University of Rochester is committed to fostering, cultivating, and preserving a culture of equity, diversity, and inclusion to advance the University's mission to Learn, Discover, Heal, Create - and Make the World Ever Better. In support of our values and those of our society, the University is committed to not discriminating on the basis of age, color, disability, ethnicity, gender identity or expression, genetic information, marital status, military/veteran status, national origin, race, religion/creed, sex, sexual orientation, citizenship status, or any other status protected by law. This commitment extends to the administration of our policies, admissions, employment, access, and recruitment of candidates from underrepresented populations, veterans, and persons with disabilities consistent with these values and government contractor Affirmative Action obligations. How To Apply All applicants must apply online. EOE Minorities/Females/Protected Veterans/Disabled Pay Range Pay Range: $77,216 - $115,824 Annually The referenced pay range represents the minimum and maximum compensation for this job. Individual annual salaries/hourly rates will be set within the job's compensation range, and will be determined by considering factors including, but not limited to, market data, education, experience, qualifications, expertise of the individual, and internal equity considerations.

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

Senior Bioinformatics Engineer SPARK, launched by the Simons Foundation in 2016, is the largest study of autism ever undertaken. It is open to all individuals living in the U.S. with a professional diagnosis of autism and their family members. The initiative aims to improve the lives of people with autism by identifying the causes of autism and informing more effective therapies, treatments, services, and supports. Participants share medical and behavioral information through online surveys. They can also choose to provide saliva samples for DNA analysis. This data is made available to researchers worldwide to explore the genetic underpinnings of autism, identify potential subtypes, and power downstream research. SPARK also engages the autism community by offering participants access to the latest research findings and potential opportunities to participate in additional studies. POSITION SUMMARY The Bioinformatics team at the Simons Foundation is seeking a full-time senior bioinformatics engineer. The position will play an integral role in returning genetic results to thousands of SPARK participants, including ASD and secondary health-related variants, as well as work with petabytes of genomics data and develop workflows for a variety of informatics needs across SFARI. The ideal candidate will have experience developing bioinformatics pipelines, coding using software development best practices, and performing reproducible genetic analyses. The candidate will be responsible for bioinformatics analysis of the SPARK return of genetic results process, including tracking samples from sequencing to return, developing and running analysis workflows, and working with the SPARK return of results (RoR) team on the review and selection of returnable variants. The candidate will also be responsible for packaging SFARI cohort genetic datasets for release in SFARI Base as new sequencing data is received and as other dataset updates are needed. The senior bioinformatics engineer will report to the Deputy Director of Bioinformatics and will work alongside a growing team, including a software engineer, a data manager, and a data analyst on the Bioinformatics team, as well as with Informatics’ engineering team, the SDBR (SFARI Data and Biospecimen Repository) team, and various SFARI cohort teams (SPARK, Searchlight, ABN, etc.). This is a full-time position based at the Simons Foundation offices in New York City. Essential Functions & Responsibilities Return of Genetic Results • Manage the bioinformatics portion of the return of genetic results process, including delivery of sequencing data, variant analysis, and clinical validation orders • Track data deliveries of samples sent for sequencing • Run quality control pipeline to confirm RoR eligibility • Run variant filtering and annotation pipelines for SNVs/Indels & CNVs • Coordinate lab confirmation orders for predicted pathogenic variants • Analyze and summarize statistics for sequencing batches • Respond to questions from SPARK or lab related to variant predictions/orders Maintenance and Development of Bioinformatics Pipelines • Implement new features in existing pipelines, as needed • Design, develop, and test new bioinformatics pipelines, implementing end-to-end workflows that integrate existing tools, to support the needs and goals of SFARI and Informatics Data Releases • Package SFARI cohort genomics datasets for release by performing quality control, integrating data from various sources/versions, and documenting datasets details and methods descriptions • Answer questions about genomics datasets for data in SFARI Base MINIMUM QUALIFICATIONS Education • Ph.D. in bioinformatics, computational biology, or related field Required Skills & Experience • At least 4+ years of relevant work experience • Strong Python skills and software development best practices • Experience with sequencing data (whole exome or whole genome) and related tools • Experience performing reproducible data analysis • Experience working in an HPC environment • Experience with git/github • Effective oral and written communicator • Ability to thrive in collaborative environments Helpful skills • Project management experience • Experience analyzing large research datasets (>10,000 individuals) • Familiarity with core genetics concepts • Solid understanding of statistical analysis • Experience generating interactive data visualizations or dashboards • Desire to continually learn and stay up-to-date with best practices and the latest methods REQUIRED APPLICATION MATERIALS • Resume / CV • Cover Letter • Example code or repositories (e.g., github) COMPENSATION AND BENEFITS • The full-time annual compensation range for this position is $150,000 – $175,000, depending on experience. • In addition to competitive salaries, the Simons Foundation provides employees with an outstanding benefits package. THE SIMONS FOUNDATION’S DIVERSITY COMMITMENT Many of the greatest ideas and discoveries come from a diverse mix of minds, backgrounds and experiences, and we are committed to cultivating an inclusive work environment. The Simons Foundation actively seeks a diverse applicant pool and encourages candidates of all backgrounds to apply. We provide equal opportunities to all employees and applicants for employment without regard to race, religion, color, age, sex, national origin, sexual orientation, gender identity, genetic disposition, neurodiversity, disability, veteran status, or any other protected category under federal, state and local law. To apply, visit: [Please click the Apply button for the link or address] Tagged as: Data Science, Engineering