Job Summary: 

• Develop and maintain in-house production pipelines for analyzing high-throughput NGS data (bulk/single-cell RNA-seq, WGS/WES, ATAC-seq, etc.)
• Optimizing and engineering internal pipelines to be scalable, highly parameterizable, and production-ready by using workflow languages.
• Leveraging cloud computing platforms for data management and data transfer across multiple platforms.
• Designing interactive dashboards to summarize results from pipelines for end users.
• Collaborating with research scientists and data scientists to understand analytical and informatics needs.
• Presenting findings to a large cross-functional team and/or the outside stakeholders to drive business decisions.
• Being a key member of the data science team, building the infrastructure from the ground up.
• Support and enable transcriptomics experiments (RNA-seq, 10x scRNA-seq, full-length RNA sequencing) 
• Writing code that generates robust, interpretable, reproducible, and actionable results from NGS data
• Help design, analyze, and interpret epigenetics experiments (ChIP-Seq, ATAC-Seq, RNA-Seq, Hi-C/HI-CHIP/CaptureC, ChIA-PET)

Skills on Resume: 

• Pipeline Development (Hard Skills)
• Workflow Language (Hard Skills)
• Cloud Computing (Hard Skills)
• Dashboard Design (Hard Skills)
• Communication (Soft Skills)
• Infrastructure Building (Hard Skills)
• Transcriptomics Support (Hard Skills)
• Epigenetics Experimentation (Hard Skills)

Job Summary: 

• Process and analyze next-generation sequencing (NGS) data generated on Illumina and 10x platforms
• Develop database schemas and manage SQL database that stores the sequencing data and results
• Implement a LIMS system that will store sample and library metadata
• Perform custom sequence alignment, processing, QC, and visualization of novel RNA/DNA-sequencing assays
• Work with statistical data scientists and laboratory scientists on requirements for alignment, processing, analysis, and visualizations
• Generate the appropriate logs and reports of data
• Assist in managing a cloud-computing environment that runs NGS processing jobs at scale using AWS Batch
• Developing new solutions for bioinformatics operations.
• Support the design, development and implementation of data processing workflows for cancer genomic data and related metadata.
• Lead the benchmarking of analytical tools, designing, deploying and maintaining efficient software solutions to automate data analyses.

Skills on Resume: 

• NGS Data Analysis (Hard Skills)
• Database Management (Hard Skills)
• LIMS (Hard Skills)
• Bioinformatics Algorithm (Hard Skills)
• Collaboration (Soft Skills)
• Reporting (Hard Skills)
• AWS Batch (Hard Skills)
• Problem-Solving (Soft Skills)

Job Summary: 

• Supervise a team of other engineers, perform annual evaluations and support professional development.
• Perform balancing and prioritization of engineering project work to support GRC teams.
• Interface with Computational Biologists to optimize existing pipelines, workflows, and systems, engineer new pipelines, workflows, and systems
• Translate and implement algorithms and protocols for on-prem or cloud-based high-performance computing environments
• Support data generation core teams through process automation and data flow management
• Develop and maintain structured data repositories for computational reassessment and record keeping with accompanying API or web-based front-end access
• Provide sub-team personnel leadership through task and project prioritization and support
• Interface with research-serving IT teams to ensure sufficient HPC resource availability to Bioinformaticians
• Work closely with computational members in the group to support innovative research and develop prototype software solutions for research and clinical applications.

Skills on Resume: 

• Leadership (Soft Skills)
• Project Management (Hard Skills)
• Communication (Soft Skills)
• Algorithm Implementation (Hard Skills)
• Process Automation (Hard Skills)
• Data Management (Hard Skills)
• IT Collaboration (Soft Skills)
• Research Support (Hard Skills)

Job Summary: 

• Modernize and optimize applications used by the PPBC Biobank to better support its day-to-day operations
• Write clean, tested, and well-documented code
• Work closely with IT groups throughout MSK (clinical pathology IT, DigITs, CRIT)
• Design, implement, and deploy database systems, data pipelines, and data visualization dashboards for PPBC
• Act as a liaison and bridge communications between research/laboratory staff and engineering teams. 
• Contribute ideas for new features and identify areas for improvement in software tools
• Perform database integrity checks and prepare the PPBC informatics pipeline for clinical certification (CAP, CLIA)
• Query and integrate data from public genomics/omics resources to enable decision-making

Skills on Resume: 

• Application Optimization (Hard Skills)
• Coding Proficiency (Hard Skills)
• Collaboration (Soft Skills)
• Database Systems (Hard Skills)
• Communication (Soft Skills)
• Innovative Thinking (Soft Skills)
• Database Integrity (Hard Skills)
• Data Integration (Hard Skills)

Job Summary: 

• Work within a team of data curators, bioinformatics engineers, and research communication specialists
• Compile, distribute, and publicize highly-dimensional biomedical data sets.
• Develop and document metadata standards to share research data under the FAIR guiding principles.
• Maintain research collections for disease communities, such as the AD Knowledge Portal
• Streamline processes, implement new methods, and curate data using scripting and statistical programming.
• Manage access to sensitive datasets in collaboration with the Sage governance team.
• Develop complex yet robust and scalable bioinformatics solutions for new diagnostic products
• Implement essential aspects of large-scale NGS-based operation
• Reporting, quality control monitoring, data life cycle, project hardware and storage needs.
• Contribute to robust bioinformatics development processes (modular and maintainable coding, version control, and documentation)

Skills on Resume: 

• Data Curation Skills (Hard Skills)
• Metadata Standardization (Hard Skills)
• Communication (Soft Skills)
• Project Management (Soft Skills)
• Technical Proficiency (Hard Skills)
• Data Security (Hard Skills)
• Next-Generation Sequencing (Hard Skills)

Job Summary: 

• Triage production issues and program requests to appropriate teams for follow-up, assisting with resolution
• Implement pipeline code adjustments and feature requests
• Following good coding practices and internal development standards for testing and deployment
• Implement automated testing to ensure the integrity of pipelines and data analysis
• Perform data queries, summarization, and one-off analyses
• Develop and maintain documentation of pipelines and validation procedures
• Providing consultation for customers and third-party LIMS providers 
• Build robust API interfaces into the Qiagen Clinical Insight platform
• Work collaboratively across all QDI departments such as Scientific and Technical Customer Support, marketing, product management and R&D
• Facilitate the development of new solutions or improvements on existing solutions

Skills on Resume: 

• Technical Troubleshooting (Hard Skills)
• Software Development (Hard Skills)
• Automated Testing (Hard Skills)
• Data Analysis (Hard Skills)
• Documentation (Hard Skills)
• Consultation (Soft Skills)
• API Development (Hard Skills)
• Collaboration (Soft Skills)

Job Summary: 

• Become a technical lead and engineering expert on the platform for analyses (RNA sequencing, gene coexpression network discovery, identification of master regulator genes, and analysis of drug screening data)
• Improve the usability and rigor of the platform, by incorporating new methods, building automated testing suites, and developing performance benchmarks
• Collaborate with the team to engineer new analysis methods into the platform
• Improve the usability of the platform by engineering new features, such as server-side job queues and web portal-based GUIs
• Collaborate with the team to document methods for long-lasting value, including code "cookbooks" and web-based documentation of API
• Ensure the rigor of the software platform, including code reviews and management of GitHub repositories
• Coach and mentor team members with technical aspects of bioinformatics projects
• Architect additional ontologies into the PostgreSQL database to support new methods and data

Skills on Resume: 

• Bioinformatics Proficiency (Hard Skills)
• Software Engineering (Hard Skills)
• Platform Improvement (Hard Skills)
• Collaboration (Soft Skills)
• Documentation (Hard Skills)
• Quality Assurance (Hard Skills)
• Mentoring and Coaching (Soft Skills)
• Database Architecture (Hard Skills)

Job Summary: 

• Build and maintain Bioinformatics data processing environments
• Design, analyze, and troubleshoot Bioinformatics designs and software like blast services
• Work with enormous amounts of data - loading, migration, etc. and work on optimizing ETL and CRUD operations
• Build and maintain SQL scripts, PL/SQL procedures, Java-based web services
• Analyze and troubleshoot data and web service issues and implement smart improvements and solutions
• Consulting with researchers to recommend technology-based solutions
• Determining the computational strategies
• Collaborating with software developers in the development and modification of commercial bioinformatics software solutions
• Developing clinical report templates in Java/HTML to customize clinical test configurations

Skills on Resume: 

• Data Processing (Hard Skills)
• Bioinformatics Design (Hard Skills)
• Data Optimization (Hard Skills)
• SQL and PL/SQL (Hard Skills)
• Troubleshooting (Hard Skills)
• Communication (Soft Skills)
• Computational Strategies (Hard Skills)
• Software Development (Hard Skills)

Job Summary: 

• Work closely with scientists and other bioinformatics engineers to support research projects in cancer and healthcare.
• Assist with harmonizing, analyzing, and sharing biomedical data across various biomedical research institutions
• Helping scientists worldwide work together to accelerate discovery.
• Develop tools and applications to facilitate tracking, scalability, and reproducibility of data and computational analyses in large-scale scientific collaborations
• Assist with creating dashboards, visualizations, and other resources for experimental and clinical biologists to explore and leverage data and analysis results.
• Contribute to technical documentation and training materials to support users and other developers with diverse expertise.
• Work with Sage engineers to drive general improvements in data and analysis management platforms
• Transfer knowledge and code into production systems, or deploy standalone services and applications.
• Participate in and monitor the development of external groups and communities to stay informed on best practices and standards.

Skills on Resume: 

• Bioinformatics (Hard Skills)
• Data Harmonization (Hard Skills)
• Collaboration (Soft Skills)
• Software Development (Hard Skills)
• Data Visualization (Hard Skills)
• Training (Soft Skills)
• System Deployment (Hard Skills)
• Community Engagement (Soft Skills)

Job Summary: 

• Works under the direct supervision and direction and potentially other researchers within JCVI.
• Develops and maintains an understanding of bioinformatics tools, software, and IT technologies used by the team.
• Complies with all documented JCVI policies and procedures. 
• Works with manager and JCVI administrative functions to resolve issues as they arise.
• Execute complex tasks effectively with limited supervision
• Advance the level of software and bioinformatics technology used within the team
• Provide project leadership and mentoring beyond the scope of work, including leadership of small ad-hoc project teams
• Define and estimate the scope of tasks before implementation
• Execute projects within estimated time frames
• Responsible for the integration of environmental, health and safety protocols into work activities. 
• Report potential hazards and help to implement solutions to ensure safety and respect for the environment.
• Adheres to all documented JCVI policies and procedures including carrying out all functions required of Institute employees 

Skills on Resume: 

• Bioinformatics Proficiency (Hard Skills)
• Compliance Management (Hard Skills)
• Problem Resolution (Soft Skills)
• Task Execution (Hard Skills)
• Technological Advancement (Hard Skills)
• Project Leadership (Soft Skills)
• Scope Management (Soft Skills)
• Time Management (Soft Skills)