Bioinformatics Jobs

Payroll Title: BIOINFORMATICS PROGR 1 Department: MEDICINE/Cardiology Salary Range... Commensurate with Experience Worksite: Campus Appointment Type: Career Appointment Percent: 100% Union: Uncovered Total Openings: 2 Work Schedule: Days, 8 hrs/day, Mon - Fri As a federally-funded institution, UC San Diego Health maintains a marijuana and drug free campus. New employees are subject to drug screening. #115257 Bioinformatics Programmer I Extended Review Date: Wed 11/23/2022 Apply Now UC San Diego values equity, diversity, and inclusion. If you are interested in being part of our team, possess the needed licensure and certifications, and feel that you have most of the qualifications and/or transferable skills for a job opening, we strongly encourage you to apply. For the safety and well-being of the entire university community, the University of California requires, with few exceptions, that all students, faculty and staff be vaccinated against the COVID-19 virus and influenza before they will be allowed on campus or in a facility or office. For more information visit: Flu Vaccine Mandate / COVID Vaccine Policy UCSD Layoff from Career Appointment: Apply by 04/04/2022 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Special Selection Applicants: Apply by 04/14/2022. Eligible Special Selection clients should contact their Disability Counselor for assistance. This position will remain open until a successful candidate has been identified. DESCRIPTION The Department of Medicine (DOM) is the largest department within the UCSD School of Medicine and is responsible for fulfilling the teaching, research, and clinical missions of the University of California, San Diego School of Medicine. The department employs approximately 500 salaried faculty, 168 academic appointees, 331 residents, fellow and postdocs and 479 staff personnel. Computational biologist. Resolves routine programming problems, applying established data processing algorithms to novel data. Works on issues and projects of limited scope. Follows standard programming procedures to analyze situations and data from which answers can be readily obtained. Maintains repositories of published code and answers outside user requests. Aids in the publications of research results, but will not be responsible for algorithm development. Proficiency in python, R, UNIX, and git version control systems required. AWS experience a plus, Understanding of major biological data types (genomic SNPs, single-cell RNA-seq expression, protein-protein interaction networks, ATAC-seq, Chip-seq) is required. Will design and develop bioinformatic programs to process genomics data. Responsible for lab computer and software maintenance and coordination with other computer facilities. Will independently perform cell culture experiments with human ES cells to investigate mesoderm and cardiovascular formation. Under direct supervision, applies professional bioinformatics concepts and computational procedures to complete small projects or portions of projects. Works on assignments of limited scope and complexity. Follows standard programming procedures to analyze situations and data from which answers can be readily obtained. MINIMUM QUALIFICATIONS • Four (4) years of related experience, education/training, OR a Bachelor's degree in biological science, computational / programming, or related area and /or equivalent experience/training. • Basic knowledge of bioinformatics methods and data structures. • Demonstrated experience collecting, processing, and analyzing genomics data. • Proven knowledge of applications programming and web development. • Experience with functional programming, the R class system (both S3 and new classes), the R packaging system, R methods and generic functions. Knowledge of Apache server on Linux, scripting and familiarity with Internet protocols. • Knowledge of modern biology and applicable field of research. Theoretical knowledge in molecular, cellular, or developmental biology. • Effective interpersonal skills in order to work with both technical and non-technical personnel at various levels in the organization. • Strong ability to communicate technical information in a clear and concise manner. • Basic knowledge of application and data security concepts. PREFERRED QUALIFICATIONS • Proficiency in python, UNIX, and git version control systems. • Knowledge relating to the design development, modification and implementation of software including object-oriented programming concepts. • Understanding of major biological data types (genomic SNPs, RNA-seq expression, protein-protein interaction networks.). SPECIAL CONDITIONS • Employment is subject to a criminal background check. Apply Now Job offer is contingent on successful engagement in the UC COVID-19 Vaccination program (fully vaccinated with documented proof or approved exception/deferral). If applicable, life-support certifications (BLS, NRP, ACLS, etc.) must include hands-on practice and in-person skills assessment; online-only certification is not acceptable. UC San Diego Health Sciences is comprised of our School of Medicine, Skaggs School of Pharmacy and Pharmaceutical Sciences, The Herbert Wertheim School of Public Health and Human Longevity Science, and our Student Health and Well-Being Department. We have long been at the forefront of translational - or "bench-to-bedside" - research, transforming patient care through discovery and innovation leading to new drugs and technologies. Translational research is carried out every day in the hundreds of clinical trials of promising new therapies offered through UC San Diego Health, and in the drive of our researchers and clinician-scientists who are committed to having a significant impact on patient care. We invite you to join our team! Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached. To foster the best possible working and learning environment, UC San Diego strives to cultivate a rich and diverse environment, inclusive and supportive of all students, faculty, staff and visitors. For more information, please visit UC San Diego Principles of Community. UC San Diego Health is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, age, protected veteran status, gender identity or sexual orientation. For the complete University of California nondiscrimination and affirmative action policy see: http://www-hr.ucsd.edu/saa/nondiscr.html UC San Diego is a smoke and tobacco free environment. Please visit smokefree.ucsd.edu for more information

At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our 35,000 employees around the world work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and... volunteerism. We give our best effort to our work, and we put people first. We’re looking for people who are determined to make life better for people around the world. The scientific data and informatics group in Lilly Genetic Medicines is looking for a create and energetic computational scientist to participate in wide range of activities. The scientist will collaborate with a growing team comprised of chemists, biologist, bioinformaticians, geneticists and data scientists aimed at developing and enhancing in-silico capabilities for new modalities. This position presents an opportunity to support various stages of drug development from target identification to clinical candidate selection. Responsibilities: • Develop new computational/data science methodologies to improve the preparation, retrieval, analysis, and summarization of scientific data • Partner with business/research teams to identify/scope and execute data analytics efforts to answer scientific questions. • Maintain a strong communication and be fully engaged with scientists to ensure scientific delivery. • Support ongoing drug discovery projects through data analysis, tool and model development • Support the development & evaluation of new modalities from a target evaluation perspective. Minimal Qualifications: • Minimum PhD. in bioinformatics, chemoinformatics, computer sciences, or related field with minor in a biology/medical field. Additional skills: • Proficient in one or more scripting languages: Python, C++, PHP • Hands on experience in large scale data analysis in cheminformatics, biophysics, proteomics, genomics • Basic knowledge in genomes and transcriptomes. • A solid understanding of data science methodologies and application of these in solving drug discovery problems • A proven track record of development and independent implementation of widely used scientific applications/scripts/data sources • Global understanding of the drug discovery process and the different data resources available • Knowledge in web development is a plus • Excellent oral and written communication skills and the ability to effectively communicate across different cultures in the global scientific community • Ability to prioritize multiple activities and manage ambiguity. Eli Lilly and Company, Lilly USA, LLC and our wholly owned subsidiaries (collectively “Lilly”) are committed to help individuals with disabilities to participate in the workforce and ensure equal opportunity to compete for jobs. If you require an accommodation to submit a resume for positions at Lilly, please email Lilly Human Resources ( Lilly_Recruiting_Compliance@lists.lilly.com ) for further assistance. Please note This email address is intended for use only to request an accommodation as part of the application process. Any other correspondence will not receive a response. Lilly is an EEO/Affirmative Action Employer and does not discriminate on the basis of age, race, color, religion, gender, sexual orientation, gender identity, gender expression, national origin, protected veteran status, disability or any other legally protected status. Our employee resource groups (ERGs) offer strong support networks for their members and help our company develop talented individuals for future leadership roles. Our current groups include: Africa, Middle East, Central Asia Network, African American Network, Chinese Culture Network, Early Career Professionals, Japanese International Leadership Network (JILN), Lilly India Network, Organization of Latinos at Lilly, PRIDE (LGBTQ + Allies), Veterans Leadership Network, Women’s Network, Working and Living with Disabilities. Learn more about all of our groups. As a condition of employment with Eli Lilly and Company and its subsidiaries in the United States and Puerto Rico, you must be fully COVID-19 vaccinated and provide proof of vaccination satisfactory to the company (subject to applicable law). #WeAreLilly

Summary The lab of Dr. Anthony Mustoe (Dept. of Biochemistry and Molecular Biology and Therapeutic Innovation Center) is seeking a Bioinformatics Programmer I to perform computational analyses to define RNA structure and its relation to function in healthy and diseased cells. This Bioinformatics Programmer I will be responsible for using in-house-developed and open-source software to process and... analyze high-throughput RNA chemical probing datasets measured via next-generation sequencing. They will further be responsible for implementing novel analysis and data visualization strategies to interpret new types of probing data. The Bioinformatics Programmer I will additionally assist in designing and, as appropriate, performing, follow-up wet lab probing experiments. The candidate will also assist the Principal Investigator in maintaining lab operations, including ordering supplies and maintaining instrumentation. Job Duties • Uses open-source and custom software to process and analyze high-throughput RNA chemical probing datasets measured via next-generation sequencing. • Implements novel analysis and data visualization strategies to interpret new types of probing data. • Assists in designing and, as appropriate performs, follow-ups wet lab probing experiments. • Processes, analyzes, and interprets RNA chemical probing data. • Collaborates with other team members to design and codes custom analysis scripts. • Tracks project data and reports analysis results. • Assists PI in managing lab operations. Minimum Qualifications • Bachelor's degree in Computer Science, Biological Science, or a related field. • No experience required. Preferred Qualifications • Bachelor's degree in a Computer Science, Biological Science, or a related field. • Master's degree in related field. • Experience in computational iInfrastructure including Linux Operating System and SLURM cluster-based computing. • Experience working on novel technologies • Experience in Python and shell scripting programming languages.. • Strong critical thinking, data modeling, and troubleshooting skills. • Demonstrates ability to work with open-source bioinformatics software. • Experience in analyzing RNA chemical probing data. • Ability to multitask, work and learn independently, and be self-motivated. Baylor College of Medicine requires employees to be fully vaccinated -subject to approved exemptions-against vaccine-preventable diseases including, but not limited to, COVID-19 and influenza. Baylor College of Medicine is an Equal Opportunity/Affirmative Action/Equal Access Employer. 14270 CA; SN

The University of Miami is among the top research universities and academic medical centers in the nation, and one of the largest private employers in South Florida. With more than 16,000 faculty and staff, the University strives for excellence, and is driven by a powerful mission to transform and impact the lives of its students, patients, members of the community, and people across the... globe. The University is committed to fostering a culture of belonging, where everyone feels valued and has the opportunity to add value. Through values of Diversity, Integrity, Responsibility, Excellence, Compassion, Creativity, and Teamwork (DIRECCT) the U community works together to create an environment driven by purpose, excellence, community, and service. The Department of Hussman Institute has an exciting opportunity for a Full Time Bioinformatics Analyst. The Bioinformatics Analyst works with research staff to extend capabilities in bioinformatics and improve understanding of genetic variation in human health and disease. The Bioinformatics Analyst maintains and performs analysis with existing pipelines while assisting and benchmarking the development of novel methods. JOB FUNCTIONS Running and maintaining massively parallel sequencing data workflows primarily related to Alzheimer disease whole genome sequencing including raw sequencing data QC, alignment, variant calling, filtering, and annotation. Working with external collaborators including sequencing centers, analysis groups, and long-term data repositories to organize data storage, transfer, and processing. Coordinate bioinformatics procedures and storage requirements of internal high throughput genomics data. Work within the bioinformatics group to provide support for various Alzheimer disease research projects by interfacing with the sequencing cores and project analysts. Follow existing standard operating procedures and create carefully documented scripts to generate analysis reports as necessary. Generally applying existing pipelines to solve bioinformatics challenges, which includes troubleshooting, problem-solving, gathering requirements, analysis of the problem, and designing and implementing solutions to resolve issues. Exploring alternative pipelines and implementation including cloud computing solutions for whole genome sequencing analysis. Assisting with IT and Bioinformatics needs for data storage management including file management and data archiving. Participating in weekly Alzheimer and bioinformatics team and individual meetings to update progress Run and maintain existing next generation data analysis pipelines. Assist senior bioinformatics analysts in pipeline and algorithm development and validation. Extract features of interest from data relating to specific biological questions. Contribute to the maintenance of genomic and clinical databases. Performs statistical and integrative data analysis on genomics and clinical data. Work along-side other team members and data analysts. Follows standard operating procedures, documentation, and scripts to generate reports. Adheres to University and unit-level policies and procedures and safeguards University assets. This list of duties and responsibilities is not intended to be all-inclusive and may be expanded to include other duties or responsibilities as necessary. QUALIFICATIONS Education: Bachelor’s Degree in relevant field required Experience: Minimum 1 year of relevant experience Knowledge, Skills and Attitudes: Skill in collecting, organizing, and analyzing data. Ability to recognize, analyze, and solve a variety of problems. Ability to exercise sound judgment in making critical decisions. #LN-AL1 The University of Miami offers competitive salaries and a comprehensive benefits package including medical, dental, tuition remission and more. UHealth-University of Miami Health System, South Florida’s only university-based health system, provides leading-edge patient care powered by the ground breaking research and medical education at the Miller School of Medicine. As an academic medical center, we are proud to serve South Florida, Latin America and the Caribbean. Our physicians represent more than 100 specialties and sub-specialties, and have more than one million patient encounters each year. Our tradition of excellence has earned worldwide recognition for outstanding teaching, research and patient care. We’re the challenge you’ve been looking for. Patient safety is a top priority. As a result, during the Influenza (“the flu”) season (September through April), the University Of Miami Miller School Of Medicine requires all employees who provide ongoing services to patients, work in a location (all Hospitals and clinics) where patient care is provided, or work in patient care or clinical care areas, to have an annual influenza vaccination. Failure to meet this requirement will result in rescinding or termination of employment. The University of Miami is an Equal Opportunity Employer – Females/Minorities/Protected Veterans/Individuals with Disabilities are encouraged to apply. Applicants and employees are protected from discrimination based on certain categories protected by Federal law. Click here for additional information. Job Status: Full time Employee Type: Staff Pay Grade: r7

The primary purpose of the Research Bioinformatician position is to carry out data preparation responsibilities related to cancer clinical trials, develop skilled statistical programs, perform statistical analysis associated with clinical data and prepare written reports to investigators. In addition, this position prepares statistical considerations for basic trial designs or grants and performs... biostatistical reviews of protocols. KEY FUNCTION: • Statistical Consulting and Collaboration: • Compiles, analyzes and reports statistical data for various projects including, but not limited to manual and computer-aided data abstraction and evaluation, clinical trials, computerized imaging and bioinformatics. • Prepares statistical considerations for basic trial designs and carries out uncomplicated statistical analyses independently, but completes statistical responsibilities for more complex projects with supervision. • Assists faculty in the development of new statistical methodology for measurement and analysis of data. • Applies advanced statistical methods, simulation models, and skilled statistical programming as needed. • Assesses relevant literature as well as existing data, evaluates the quality of data used in reports and assists with preparation and distribution of data for committee and scientific meetings. • Attends project meetings with collaborators with or without supervisor as directed by supervisor. • May present findings at relevant meetings both inside and outside of the institution as requested. • Protocol Review: • Participates in the protocol review process jointly with supervisor. • Statistical Reporting: • Prepares written reports to investigators jointly with supervisor. • May present findings at relevant meetings both inside and outside of the institution as requested. • Other duties as assigned. EDUCATION: Required: Master's degree in Biostatistics, Statistics, Bioinformatics, Mathematics or related field. Preferred: PhD in Biostatistics, Statistics, Bioinformatics, Mathematics or related field. EXPERIENCE: Required: Two years experience with mainframe and/or PC databases, document processing and statistical software such as SAS and S-Plus. With preferred degree, no required experience. It is the policy of The University of Texas MD Anderson Cancer Center to provide equal employment opportunity without regard to race, color, religion, age, national origin, sex, gender, sexual orientation, gender identity/expression, disability, protected veteran status, genetic information, or any other basis protected by institutional policy or by federal, state or local laws unless such distinction is required by law. http://www.mdanderson.org/about-us/legal-and-policy/legal-statements/eeo-affirmative-action.html Additional Information • Requisition ID: 147658 • Employment Status: Full-Time • Employee Status: Regular • Work Week: Days • Minimum Salary: US Dollar (USD) 81,000 • Midpoint Salary: US Dollar (USD) 101,500 • Maximum Salary : US Dollar (USD) 122,000 • FLSA: exempt and not eligible for overtime pay • Fund Type: Soft • Work Location: Remote (within Texas only) • Pivotal Position: Yes • Science Jobs: Yes

A Research Associate position is available in the lab of Dr. Serghei Mangul in the Titus Department of Clinical Pharmacy, School of Pharmacy at the University of Southern California. The Mangul lab aims to improve the techniques of bioinformatics in order to better understand the mechanisms of disease. This includes designing, developing, and applying novel and robust data-driven, computational... approaches that will accelerate the diffusion of genomics and biomedical data into translational research and education. The University of Southern California (USC), founded in 1880, is located in the heart of downtown L.A. and is the largest private employer in the City of Los Angeles. As an employee of USC, you will be a part of a world-class research university and a member of the "Trojan Family," which is comprised of the faculty, students and staff that make the university what it is. The Titus Department of Clinical Pharmacy unites patient-centered care with health system insight and analysis. The department’s faculty represents a wide range of clinical and research specialties, from community pharmacy and geriatrics to oncology and psychiatry. The Titus Department of Clinical Pharmacy is one of the nation’s leading research programs devoted to pursuing new knowledge and advances in pharmacotherapy, translational research, regulatory science and related areas. The successful candidate will perform research and develop novel bioinformatics algorithms and conducting large-scale integrative analyses of biological and genomic datasets. The anticipated area of research is immunogenomics. The successful candidate will work on methods to characterize the individual immune response from high throughput sequencing data. In particular, on methods that utilize the gene counts to perform computational deconvolution, an efficient method to identify cell type composition of the sample directly from the bulk gene expression data. The developed computational method will be applied across 70,000 RNA-Seq samples. Inferred immune cell types will be used to characterize the immune response and be used as biomarkers across various infectious diseases. Additional information about our lab and research can be found at: http://www.sergeimangul.com. The position is available for 1 year and renewable contingent on successful progress and available funding. Salary will be competitive. The University of Southern California offers a competitive benefits package including medical, dental, vision, life insurance, accidental death and dismemberment insurance, and short and long term disability insurance. Candidates should have a Ph.D. in bioinformatics, computational biology, computer science, or a related field. Proficiency in Python, C++, and Unix Bash Shell is essential. Competitive applicants will also have extensive experience in working with high performance clusters and conducting bioinformatics research, and will have the desire to apply for external fellowship funding. Preference will be given to candidates with a compelling publication record, evidence of substantial research productivity, and ability to successfully communicate scientific information. Review of applications will begin immediately and will continue until the position is filled. The position is expected to start in Fall 2019, though specific dates are negotiable. Interested candidates should submit a CV, short (1-2 pages) cover letter describing your research interests and fit within the lab, and contact information for 2-3 references. Minimum Education: Ph.D. or equivalent doctorate Minimum Experience: 1 year Minimum Field of Expertise: Directly related education and experience in research specialization with advanced knowledge of equipment, procedures and analysis methods

​Location: LOC_HOME-Home/Remote Office Location Req ID: 204171... Shift: Days Employment Status: Regular - Full Time ​About Us We’re seeking breakthrough makers! Children’s Hospital of Philadelphia was built on the belief that we can change lives. Today, in every role throughout our hospital, research institute and care network, the 22,000 members of our workforce are finding new ways – big and small – to make a difference for the patients and families we serve. If you are ready to challenge yourself, be inspired and grow – no matter what your role – you just may be the kind of breakthrough maker who will thrive at CHOP. ​CHOP is proud to share that we are ranked No. 1 on Forbes' 2022 list of America's Best Large Employers! Job Summary The Raymond G. Perelman Center for Cellular and Molecular Therapeutics (CCMT) is dedicated to the understanding, development, and application of gene and related cell and nucleic acid therapies and the promotion of professional and public education in the field. The CCMT fosters a multidisciplinary approach among researchers and scientists working to discover new gene and cell therapies in search of cures for debilitating and life-threatening disorders. The Davidson Laboratory, an integral part of the CCMT, studies neurodegenerative disorders with the goal of finding long term therapies. We are looking for a computer scientist or computational biologist to work alongside researchers providing computational support on projects requiring analysis of high throughput sequencing data. The ideal candidate will have a degree in a relevant field (bioinformatics, computer science, computational biology) or will have experience working with high throughput sequencing data, and a high comfort level using existing bioinformatic tools and pipelines to process these datasets. Proficiency in either Python or R programming languages is strongly encouraged and an ideal candidate will be comfortable developing custom scripts and bioinformatic pipelines to analyze datasets. While working in an inter-disciplinary lab environment applicants will have the opportunity to gain experience with a wide variety of molecular biology techniques including, basic laboratory techniques such as PCR, gel electrophoresis, and DNA/RNA isolation desired, next generation sequencing library preparation, tissue culture work, molecular cloning, and proteomics such as western blotting. Prior experience in any of these specialties is a plus. Job Responsibilities • Pre-Analysis (20%): Contribute to the development of application portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provide efficient data management support. • Use standard pipelines for data processing and manipulation in advance of performing analysis in a manner that best enables the analysis plan. • Contribute to the development of additional pipeline functionality and changes by providing knowledge of both collaboration-specific requirements and bioinformatics discipline advances. • Advocate for specific collaboration requirements for continual advancement of shared pipeline and code resources. • Provide collaboration-specific transparency for data processing and pre-analysis, including sample- and cohort-level status. • Coding (20%): Code and generally support code and applications on behalf of collaborative project and/or team. • Within the context of the collaboration or project, develop and apply best practices to code development. • Establish requirements with the project team. • Review existing applications and code sources (both commercial and open source) and selection of best strategy for development or adoption. • Advocate for chosen strategy to project team by showing value of approach • Develop best practices for project-based code development, QC, and execution consist with the expectations of specific collaborations. Job Responsibilities (Continued) • Regularly seek peer-to-peer code reviews by participating in informal and formal critical code reviews. • Data Analysis (20%): Analyze data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data primarily under the direction of the collaborative project team. • Develop robust analysis plans independently with regular peer-to-peer review in both informal and formal settings. • Incorporate more advanced applications and methods into analysis. • Develop at least one specialty analytical or biomedical area that serves the collaborative team. • Collaboration (20%): Establish role within collaborative project team as primary bioinformatics resource. • Contribute to and influence project-level management by serving as bioinformatics point. • Define and promote boundaries of support by assessing all stakeholders, including bioinformatics management, collaborator expectations, and funding levels and mechanisms. • Regularly discuss satisfaction and expectations with collaborators; continually advocate for clear understanding of role. • Develop new collaborations with high degree of supervision. • Academic Output (20%): Develop presentations, grant sections, and manuscript sections with subsequent review by peers and mentors. • Regularly contribute to bioinformatics-focused manuscripts and publications. • Regularly contribute to podium presentations and posters. • Contribute to bioinformatics sections of grant and award proposals. Required Education and Experience Required Education: Bachelor’s Degree Required Experience: • At least three (3) years of experience in applied bioinformatics, genomics, and computational work. • Experience with management and analysis of complex data types. Preferred Education, Experience & Cert/Lic Preferred Education: Master’s Degree in biological or computational discipline Preferred Experience: • Four (4) or more years of experience in applied bioinformatics, genomics, and computational work. • Experience with Python, Perl, or other languages. • Experience with pipeline or workflow development frameworks. • Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture. Additional Technical Requirements • Strong UNIX/LINUX expertise required. • Proficiency in R or similar commonly used bioinformatics language required. • Proficiency in various open source and commercial bioinformatics resources and software 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 preferred. • 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 preferred. • Ability to interact with biologists and clinicians during a scientific discussion 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 moderate complexity required. • Ability to provide objective validation of results required. • Ability to work in a team environment. To carry out its mission, it is of critical importance for the Children’s Hospital of Philadelphia (CHOP) to keep our patients, families and workforce safe and healthy and to support the health of our global community. In keeping with this, CHOP has mandated all workforce members on site at any CHOP location for any portion of their time be vaccinated for COVID-19 as a condition of employment. This mandate also applies to workforce members performing work for CHOP at non-CHOP locations. Additionally, all workforce members based in or regularly scheduled to work at any New Jersey location are mandated to be both vaccinated and boosted for COVID-19, with booster timing consistent with applicable guidelines. The CHOP COVID-19 vaccine mandate is in alignment with applicable local, state and federal mandates. CHOP also requires all workforce members who work in patient care buildings or who provide patient care to receive an annual influenza vaccine. Employees may request exemption consideration for CHOP vaccine requirements for valid religious and medical reasons. Please note start dates may be delayed until candidates are fully immunized or valid exemption requests are reviewed. In addition, candidates other than those in positions with regularly scheduled hours in New Jersey, must attest to not using tobacco products. EEO / VEVRAA Federal Contractor

The University of Miami is among the top research universities and academic medical centers in the nation, and one of the largest private employers in South Florida. With more than 16,000 faculty and staff, the University strives for excellence, and is driven by a powerful mission to transform and impact the lives of its students, patients, members of the community, and people across the... globe. The University is committed to fostering a culture of belonging, where everyone feels valued and has the opportunity to add value. Through values of Diversity, Integrity, Responsibility, Excellence, Compassion, Creativity, and Teamwork (DIRECCT) the U community works together to create an environment driven by purpose, excellence, community, and service. The Department of Hussman Institute has an exciting opportunity for a Full Time Bioinformatics Analyst. The Bioinformatics Analyst works with research staff to extend capabilities in bioinformatics and improve understanding of genetic variation in human health and disease. The Bioinformatics Analyst maintains and performs analysis with existing pipelines while assisting and benchmarking the development of novel methods. JOB FUNCTIONS Running and maintaining massively parallel sequencing data workflows primarily related to Alzheimer disease whole genome sequencing including raw sequencing data QC, alignment, variant calling, filtering, and annotation. Working with external collaborators including sequencing centers, analysis groups, and long-term data repositories to organize data storage, transfer, and processing. Coordinate bioinformatics procedures and storage requirements of internal high throughput genomics data. Work within the bioinformatics group to provide support for various Alzheimer disease research projects by interfacing with the sequencing cores and project analysts. Follow existing standard operating procedures and create carefully documented scripts to generate analysis reports as necessary. Generally applying existing pipelines to solve bioinformatics challenges, which includes troubleshooting, problem-solving, gathering requirements, analysis of the problem, and designing and implementing solutions to resolve issues. Exploring alternative pipelines and implementation including cloud computing solutions for whole genome sequencing analysis. Assisting with IT and Bioinformatics needs for data storage management including file management and data archiving. Participating in weekly Alzheimer and bioinformatics team and individual meetings to update progress Run and maintain existing next generation data analysis pipelines. Assist senior bioinformatics analysts in pipeline and algorithm development and validation. Extract features of interest from data relating to specific biological questions. Contribute to the maintenance of genomic and clinical databases. Performs statistical and integrative data analysis on genomics and clinical data. Work along-side other team members and data analysts. Follows standard operating procedures, documentation, and scripts to generate reports. Adheres to University and unit-level policies and procedures and safeguards University assets. This list of duties and responsibilities is not intended to be all-inclusive and may be expanded to include other duties or responsibilities as necessary. QUALIFICATIONS Education: Bachelor’s Degree in relevant field required Experience: Minimum 1 year of relevant experience Knowledge, Skills and Attitudes: Skill in collecting, organizing, and analyzing data. Ability to recognize, analyze, and solve a variety of problems. Ability to exercise sound judgment in making critical decisions. #LN-AL1 The University of Miami offers competitive salaries and a comprehensive benefits package including medical, dental, tuition remission and more. UHealth-University of Miami Health System, South Florida’s only university-based health system, provides leading-edge patient care powered by the ground breaking research and medical education at the Miller School of Medicine. As an academic medical center, we are proud to serve South Florida, Latin America and the Caribbean. Our physicians represent more than 100 specialties and sub-specialties, and have more than one million patient encounters each year. Our tradition of excellence has earned worldwide recognition for outstanding teaching, research and patient care. We’re the challenge you’ve been looking for. Patient safety is a top priority. As a result, during the Influenza (“the flu”) season (September through April), the University Of Miami Miller School Of Medicine requires all employees who provide ongoing services to patients, work in a location (all Hospitals and clinics) where patient care is provided, or work in patient care or clinical care areas, to have an annual influenza vaccination. Failure to meet this requirement will result in rescinding or termination of employment. The University of Miami is an Equal Opportunity Employer – Females/Minorities/Protected Veterans/Individuals with Disabilities are encouraged to apply. Applicants and employees are protected from discrimination based on certain categories protected by Federal law. Click here for additional information. Job Status: Full time Employee Type: Staff Pay Grade: r7

Invitae is a biotechnology company focused on providing tools and services for clinical research applications of genomics. Our mission is to unlock the power of precision medicine in improving patient care by providing a technology platform to advance genomics and facilitate collaborative research. Invitae is seeking Bioinformaticians to join our team. This role will be centered around creating... tools and algorithms to complement assay/product development. The ideal candidate should be able to perceive a problem clearly and dissect it into components which can be resolved programmatically. Having a comprehensive grasp of genomics and next generation sequencing will be key to succeeding in this role. The candidate should be independent, well organized and collaborative with clear communication skills. In addition, the ability to frequently switch between tasks will be helpful. As necessary, but not as a primary role, the candidate will assist the Clinical team in ad-hoc analysis and research required to meet regulatory requirements. You will be responsible for scaling our pipelines as we work toward our goal of providing low-cost genetic answers to billions of people. Responsibilities • Build and evaluate algorithms and statistical models to improve existing genetics applications within and beyond NGS technologies and create novel ones • Develop high-performance bioinformatics workflows that can accurately and reliably analyze large volumes of NGS data using Nextflow in a system agnostic manner • Develop best practices for analysis of NGS data including optimization of parameters, resource utilization, and consensus approaches across various NGS applications • Drive genetics technology development in a cross-disciplinary setting by critically analyzing and deriving insights from experimental data (including NGS, arrays, and novel technologies) using open source NGS tools and building custom tools when needed • Working with wet lab scientists to independently design experiments and communicate conclusions for internal review • Develop reproducible analysis for research and development purposes • Help draft and execute the data analysis aspects for clinical software/assay validations • Optionally maintain a visible profile in the Bioinformatics community through publications, conference presentations, and collaborations • Review, understand, and stay in compliance with Invitae HIPAA Security policies and procedures Qualifications • MS with 8+ years experience or PhD with 5+ years experience in Bioinformatics or Computational Biology • Fluent in R/Python, *nix, and SQL like DB technology for data analysis • Working knowledge of standard bioinformatic tools used in NGS pipelines • Working knowledge of pipeline workflow engines: Nextflow, Snakemake • Strong knowledge of Genomics and Molecular Biology • Solid understanding of Illumina sequencing technologies and metrics • Formal statistics background is a plus • Formal software development experience (preferred) • Understanding of Cloud Computing (preferred) At Invitae, you’ll work alongside some of the world’s experts in genetics and healthcare at the forefront of genetic medicine. Our teams thrive in our dynamic organization, which has been designed to empower them to make the biggest impact they can for our patients. We give our employees the ability to explore interests and capabilities broadly within the organization. We prize freedom with accountability and offer significant flexibility. We also provide excellent benefits and competitive pay in a fast-growing organization. At Invitae, we’re changing healthcare to change lives. Join us. At Invitae, we value diversity and provide equal employment opportunities (EEO) to all employees and applicants without regard to race, color, religion, national origin, gender, sexual orientation, age, marital status, veteran status, or disability status. We will consider for employment qualified applicants with criminal histories in a manner consistent with the requirements of the San Francisco Fair Chance Ordinance. The actual salary for this role will be based on several variables, including geographic location, work experience, education, and skills and achievements, and will be mutually agreed upon. USA National Pay Range $141,998—$165,000 USD You can find a detailed explanation of our privacy practices here

About GREGoR Stanford Site : GREGoR Stanford Site (GSS), is one of 6 sites in the National Institutes of Health (NIH)’s Genomics Research to Elucidate the Genetics of Rare disease (GREGoR) Consortium. The GSS (https://gregor.stanford.edu/) mission is to provide a platform for functional genomics research and validation to improve diagnosis in Mendelian disease through integrated analysis of... multi-omics data. GSS is led by co-PIs Dr. Stephen Montgomery (Department of Pathology), Dr. Matthew Wheeler (Division of Cardiovascular Medicine) and Dr. Jon Bernstein (Division of Medical Genetics). At GSS, research participants who remain undiagnosed after exome sequencing will undergo short read and long read genome sequencing, transcriptome sequencing, methylation assays, metabolomics and/or lipidomics assays. State-of-the art computational algorithms and new methods will be applied and developed to prioritize the variants and genes. The data will be analyzed in a secure and scalable manner using a HIPAA compliant cloud platform like AnVIL and Google Cloud Platform (GCP). Novel causal variants and genes will be validated through state-of-the-art targeted approaches including massively parallel reporter assays, induced-pluripotent stem cell assays and CRISPR engineered cellular and mouse models. About the Position: We are seeking a highly talented and motivated Bioinformatics Engineer to support our GSS pipeline and data analysis team. Your role will focus on the development of pipelines and tools for comprehensive analysis of large amounts of molecular data generated by the GSS, with special emphasis on genomics, transcriptomics, and metabolomics datasets. You will also establish and support cloud infrastructure for storage and computation of the multi-omics data. Your ability to understand biological experiments, strong experience in the analysis of large-scale biological datasets, proficiency with programming languages and experience in high-performance computing environments or cloud will be a key resource in enabling high-quality data to flow through our systems to enable diagnosis and discovery of new disease-gene associations. A complete application will include CV and cover letter. Duties include: • Development of pipelines and tools for the comprehensive analysis of large amounts of multi-omics data being generated by the GSS. • Establish and maintain the cloud infrastructure for GSS on AnVIL and GCP. • Interact with GREGoR team members as well as external tool developers to implement new tools, algorithms, and updates. • Develop intuitive reports for molecular pipelines for tracking progress and quality metrics. • Track reports for problems with pipeline analysis and underlying data. • Extract relevant data from a variety of sources, including RESTful API services, databases and medical records. • Serve as a resource for bioinformatics inquiries from the clinical team members to access data or results from local cluster/cloud/external provider. • Work with stakeholders across the consortium to best understand data structures to model metadata schemas. • Mentorship to Junior Analysts with regards to primary analysis • Document and report as needed to fulfill grant and regulatory obligations. • – Other duties may also be assigned Due to the nature of the work, this position will be fully onsite. Desired Qualifications: • Graduate degree (Ph.D or M.S) that emphasizes bio/medical informatics, engineering, computer science and statistics are preferred. • Relevant work experience preferred, two or more years. • Domain expertise in analysis and running pipelines and bioinformatic tools for at least one of the following ‘omes: genomics, transcriptomics, metabolomics, atac-seq, proteomics. • Proficiency in Python and/or R and Linux bash scripting. • Experience with pipeline languages like WDL or snakemake or nextflow. • Proven track record of data and infrastructure management in a HPC (High Performance Computing) cluster or cloud computing like Google Cloud Platform or AWS. • Experience with container systems such as setting up virtual machines and docker instances. • Experience and knowledge of code management such as github. • Experience in systems biology approaches for data integration is a plus • Experience in developing tools and statistical methods for large-scale data analysis is a plus. • Biological domain knowledge (rare disease) is a plus. • Experience on bioinformatics and/or software development team-based projects. • Willingness to work in a highly collaborative environment. Experience as part of large NIH consortiums is a plus. • Ability to quickly adapt and learn the latest tools and skills. • Strong communication skills (e.g., put together reports and presentations). • Ability to work independently (e.g., find papers relevant to the subject, assess methods, implement methods, and apply them to datasets to reproduce results). Education & Experience (Required): Bachelor’s degree and three years of relevant experience or combination of education and relevant experience. Experience in a quantitative discipline such as economics, finance, statistics or engineering. Knowledge, Skills and Abilities (Required): • Substantial experience with MS Office and analytical programs. • Excellent writing and analytical skills. • Ability to prioritize workload. Tagged as: Data Science