25254 DATA ENGINEER II

The Children’s Hospital of Philadelphia (CHOP) Research Institute is recruiting a new team to build a data and informatics program called “Arcus” that will link clinical and biological data and provide world-class computational tools to solve the most challenging problems in child health. Recognizing the central role of data to the future of pediatric research, CHOP leadership and the Board of Trustees committed to a funding plan, and Arcus was launched in July 2017. The Arcus team integrates with major scientific initiatives in the Research Institute Strategic Plan: Lifespan, Rare Diseases, Novel Devices and Therapeutics, and Precision Health. We seek mission-oriented professionals with interest and expertise in the areas of biomedical science, library science, data education, data science, cloud computing, data privacy, and security.

JOB RESPONSIBILITIES:
The Data Engineer II in the Department of Biomedical and Health Informatics (DBHi) develops and implements innovative software and applications that solve challenging problems in the collection, management, analysis and interpretation of biomedical, genomic and clinical data. This role will work on a small team focused on architecting and implementing a cloud-native “data platform” to support the goals of Arcus.

We are looking for highly creative people who share our mission to advance child health and who will thrive in a continuous learning environment, acquiring and applying both new technical skills and biomedical domain knowledge. Specifically, the Data Engineer II will:

  • Innovate solutions that have a high impact on data-intensive clinical and translational research.
  • Design, test, and maintain software implementing these innovative as part of the Arcus data platform.
  • Build and deploy applications via a continuous integration and delivery pipeline.
  • Manage and scale applications using container technology and cloud hosted managed services.
  • Disseminate novel software through academic and non-academic channels as open source.
  • Continuously learn about a wide variety of biomedical domains in order to translate domain requirements into high-impact technical solutions.
  • Communicate with clinical and biomedical researchers to discover use cases.
  • Mentor junior staff, student workers, co-ops, and research trainees (fellows, post-docs).

EDUCATION AND EXPERIENCE:
Required Eduction:Bachelor’s degree
Preferred Education: Master’s degree in computer science, biomedical engineering, information science, or related field

Required Experience:

  • At least three (3) years of programming experience with progressively more complex projects.
  • Previous experience with continuous learning and adoption of new languages and frameworks.
  • At least three (3) years of experience in quality assurance, continuous integration and deployment, configuration management, or other aspect of software and application validation.
  • Previous experience of staying current by evaluating and implementing the latest and greatest QA/CID tools and processes.
  • Preferred Education, Experience & Cert/Lic

Preferred Experience:
  • Four (4) or more years of programming experience with progressively more complex projects.
  • Three (3) or more years of experience developing, configuring, or customizing software in a clinical environment.

Preferred Licenses/certificates/registrations: Epic Certifications

ADDITIONAL TECHNICAL REQUIREMENTS

  • Experience using Go in production is strongly recommended.
  • Proficient in at least one additional language, such as Python, JavaScript, or any functional language.
  • Expert knowledge of one or more database technologies, relational and/or non-relational database.
  • Experience with using continuous integration and delivery.
  • Experience with working in cloud environments and container-based technologies.
  • Frontend design and/or user experience skills are a plus.
  • Experience with domain-driven design and related patterns is a plus.

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27062 SOFTWARE ENGINEER II

Description:

The Children’s Hospital of Philadelphia (CHOP) Research Institute and its Dept of Biomedical and Health Informatics (DBHi) are seeking a software engineer to help build an enterprise-level data and informatics platform called “Arcus”. The Arcus team integrates with major scientific initiatives in the Research Institute strategic plan, high-impact research areas such as lifespan, rare diseases, novel devices and therapeutics, and precision health.

This role will work on a small team focused on architecting and implementing a cloud-native platform that supports the goals of the Arcus program. We are looking for highly creative people who share our mission to advance child health and who will thrive in a continuous learning environment, acquiring and applying both new technical skills and biomedical domain knowledge.

JOB RESPONSIBILITIES

  • Communicate with stakeholders and team members during the development lifecycle.
  • Design and implement gRPC and/or HTTP services supporting one or more related capabilities.
  • Use of and integration with cloud services offered by Google Cloud Platform.
  • Documentation of design decisions over time.
  • Apply a “branch-based” git workflow, leveraging pull requests and code review feedback.
  • Contribute to issue conversations and code reviews.
  • Deploy and operate services in a Kubernetes environment.
  • Disseminate re-usable components as open source software when appropriate.

REQUIRED EDUCATION AND EXPERIENCE

  • BS/BA required, Masters preferred in computer science, biomedical engineering, information science, or related field.
  • At least three (3) years of programming experience with progressively more complex projects.
  • Previous experience with continuous learning and adoption of new languages and frameworks.
  • At least three (3) years of experience in quality assurance, continuous integration and deployment, configuration management, or other aspect of software and application validation.

    • Preferred Experience:
      • Four (4) or more years of programming experience with progressively more complex projects.
      • Three (3) or more years of experience developing, configuring, or customizing software in a clinical environment.

      ADDITIONAL TECHNICAL REQUIREMENTS

      • Demonstrated track record of continuous learning and adoption of new languages and frameworks.
      • Experience writing Go (the language) is strongly recommended.
      • Experience with interfacing with a variety of database systems is strongly recommended.
      • Experience applying domain-driven design is recommended.
      • Experience applying event sourcing is a recommended.

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      26449 BIOINFORMATICS SCIENTIST III

      Description:

      The bioinformatics group in the Department of Biomedical and Health Informatics (DBHI) at The Children’s Hospital of Philadelphia (CHOP) is seeking a bioinformatics scientist to lead analytical activities in proteomics and genomics of ongoing research in histone PTMs and cell surface proteins in pediatric hematologic malignancies. The candidate will be expected to work closely with groups in the bioinformatics group in DBHI, and primary Investigators at the Children’s Hospital of Philadelphia and the Proteomics Core Facility at the University of Pennsylvania.

      The candidate should possess in-depth experience in computational genomics and proteomics, particularly in the analysis of next generation sequencing. The successful candidate should be able to independently learn and apply established analytic algorithms/pipelines to genomics and proteomics data, be able to develop innovative algorithms for the analyses of these data, and provide data management for various types of omics data.

      In addition, the candidate should have a strong interest in integrating proteomic data with transcriptome and genomic/epigenomic data. While experience with WGS, WES, RNA-Seq and ChiP-Seq data analysis is not required, the candidate should have a demonstrated ability to learn the implementation of established WGS/WES, RNA-Seq, and ChiP-Seq pipelines and an ability to interpret data from these pipelines with training with bioinformatics collaborators in DBHI.

      JOB RESPONSIBILITIES

      Pre-Analysis (10%): Actively participate in the development of application portfolio by developing knowledge of internally developed systems, open-source programs, and commercial applications. Provide efficient data management support.

      • Lead development of additional pipeline functionality and changes by providing knowledge of both collaboration-specific requirements and bioinformatics discipline advances

      Coding (10%): Code and generally support code and applications on behalf of collaborative project and/or team.
      • Master best practices for project-based code development, QC, and execution consist with the expectations of specific collaborations
      • Lead peer-to-peer code reviews by participating in informal and formal critical code reviews

      Data Analysis (30%): 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
      • Lead regular peer-to-peer review of analysis plans in both informal and formal settings
      • Develop multiple “specialty” analytical areas that serve one or more collaborative teams
      • Lead adoption of best practices in specialty analytical or biomedical areas by the bioinformatics group and peers

      Collaboration (30%): Lead bioinformatics portion of scientific collaborations as the primary bioinformatics resource
      • As bioinformatics point, assume management role for projects of low-to-moderate complexity, including all aspects of timelines, risk identification and mitigation strategies, and communication mechanisms
      • Directly manage all elements of project satisfaction and performance relative to scientific project aims
      • Promote continual objective, “hard” discussions about overall health of project and relationship
      • Develop new collaborations with moderate degree of supervision

      Academic Output (20%): Lead project-based presentations, grant sections, and manuscript sections with subsequent review by peers and mentors
      • Regularly coordinate and write bioinformatics-focused manuscripts and publications
      • Regularly coordinate and lead podium presentations and posters
      • Proactively contribute to entire bioinformatics and other sections of grant and award proposals

      REQUIRED EDUCATION AND EXPERIENCE

      • Basic understanding of statistics
      • Working experience with next generation sequencing data
      • UNIX/LINUX and high performance computing experience
      • Proficiency with R as well as Python, Perl, or other scripting languages


      Required Education:Master’s Degree in biological or computational discipline.
      Preferred Education: PhD in biological or computational discipline

      Required Experience: At least five (5) years of experience in applied bioinformatics, genomics, and computational work. This experience can be inclusive of a relevant PhD dissertation.
    • Demonstrated track record of continuous learning and adoption of new languages and frameworks.
    • Very good communication skills with both management and team members.
    • Experience in healthcare and/or biomedical, genomic data management issues is preferred.
      • ADDITIONAL TECHNICAL REQUIREMENTS

        • Ability to, under supervision, conceive of, plan, implement, validate, and disseminate entire research projects is required.
        • Ability to assume principal investigator or similar role in academic research is preferred.
        • Strong UNIX/LINUX expertise required.
        • Proficiency in R or similar commonly used bioinformatics language required.
        • Experience with Python, Perl, or other languages required.
        • Experience with pipeline or workflow development frameworks preferred.
        • Experience with management and analysis of complex data types required.
        • Proficiency in various open source and commercial bioinformatics resources and software required.
        • Experience with genomic/proteomic data analysis methods required.
        • Experience or knowledge of technologies commonly used in biological labs, such as PCR, cloning, electrophoresis gels, and cell culture required.
        • Knowledge of the working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies and awareness of their strengths and weaknesses, as well as applicability to a specific biological problem is required.
        • Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases is required.
        • Ability to correctly select and perform statistical tests for most types of genomic data, and to properly interpret their results in the scenario of a specific study is required.
        • Ability to leverage unique knowledge of bioinformatics, applied biostatistics, molecular biology, and measurement platforms for effective scientific discussion with biologists and clinicians is required.
        • Ability to determine most favorable academic output as a primary research outcome is preferred.
        • Ability to objectively critique results and present as valid or questionable, taking into account all aspects of study design, technical issues, and limitations of workflows is required.
        • 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.

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        26068 DATA INSTRUCTIONAL SPECIALIST II

        Description:

        The Children’s Hospital of Philadelphia (CHOP) Research Institute is recruiting a data educator to work within a data and informatics program called Arcus that links clinical and biological data and provides world-class computational tools to solve the most challenging problems in child health. The Arcus team integrates with major scientific initiatives in the Research Institute Strategic Plan: Lifespan, Rare Diseases, Novel Devices and Therapeutics, and Precision Health. We seek mission-oriented professionals with interest and expertise in data science and education / knowledge transfer. The Data Instructional Specialist II position is a data education role for experienced data professionals who have a background in training others in data principles. The position will involve working with many stakeholders of different skill levels, scientific interests, and learning preferences. This role requires creativity, enthusiasm, and empathy, in addition to technical expertise.

        The Data Instructional Specialist II is responsible for independently carrying out data related educational tasks such as requirements elicitation, instructional format decisions, effective instructional design and development, and delivery of instruction.

        The tasks carried out by the Data Instructional Specialist II benefit internal customers (health care researchers) in a rapidly-changing, fast-paced health care research setting. This role requires the ability to learn and adapt quickly, collaborate with subject matter experts, work with a variety of stakeholders with different needs and requirements, and demonstrate understanding of a research strategy which is computational, reproducible, innovative, and data-rich.

        The successful Data Instructional Specialist II candidate will have a combination of expertise in a field related to computational data science (such as cloud computing, data analytics, statistical programming, machine learning, data integration, database administration, biostatistics, software development, etc.) and in an instructional area (such as training and supervision, instructional design, classroom instruction, technical writing, eLearning, curriculum development, etc.). Experience in basic, translational, or clinical research will be helpful.

      JOB RESPONSIBILITIES

      • Assists in the design and evaluation of educational plans and project management of a large-scale data training initiative for researchers.
      • Independently conducts requirements elicitation and develops educational objectives for specific topics such as data annotation, data privacy compliance, literate statistical programming, and the use of custom software; proposes new topics and educational methods.
      • Performs discovery and suitability assessment of existing educational resources, within and outside the enterprise, for specific assigned topics.
      • Demonstrates advanced subject matter expertise in multiple data related topics in order to effectively develop and conduct education.
      • Acts as a subject matter expert to obtain, revise and/or validate training content, in concert with other subject matter experts.
      • Creates standards for and plans pilot tests; oversees revision of instructional material based upon data from pilot tests and other formative evaluations.
      • Designs and develops assessment strategies and tools to evaluate learning results and measure business impact.
      • Keeps current in training methodologies and technology developments and work to incorporate best practices into department processes as appropriate.
      • Mentors more junior Data Instructional Specialists in tasks of intermediate complexity.
      • Independently project manages educational undertakings of intermediate to advanced complexity.
      • Performs related tasks as assigned.

      REQUIRED EDUCATION AND EXPERIENCE
      Required Education: Bachelor’s Degree. Required Experience:

      • At least three (3) years of experience in an educational setting such as training and supervision, instructional design, classroom instruction, technical writing, eLearning, curriculum development, etc . (may overlap with computational data science years of experience)
      • At least three (3) years of experience in a computational data science field such as cloud computing, data analytics, statistical programming, machine learning, data integration, database administration, biostatistics, software development, etc. (may overlap with educational years of experience

        • Preferred Experience:
          • Experience conducting or assisting in clinical, translational, or basic research (e.g., as research assistant/associate, study coordinator).
          • Experience in the implementation and evaluation of training programs (university, corporate, organization-wide programs/plans).
          • Expertise in visual and instructional design tools such as Adobe Creative Suite, Camtasia, Captivate, Articulate, Storyline, etc.
          • Web Development and User Experience (UX) expertise.

          ADDITIONAL TECHNICAL REQUIREMENTS

          • Demonstrated appreciation of diversity and affinity for interacting with people of varying backgrounds and perspectives.
          • Ability to plan, organize work and use time effectively and efficiently.
          • Excellent writing/speaking skills.
          • Instructional design methodologies, E-Learning Strategies, LMS management, computer-based training development skills preferred.
          • Project management expertise or certification.

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          24195 POST-DOCTORAL FELLOW, STATISTICAL GENETICS AND GENOMICS

          Description:

          A postdoctoral position in statistical genetics and genomics is available in the Department of Genetics at the University of Pennsylvania and the Department of Biomedical and Health Informatics at the Children’s Hospital of Philadelphia to work on development and application of methods for analysis of human GWAS, genome sequence, and transcriptomic data in the Almasy Lab. Applied projects in the lab focus primarily on psychiatric genetics, with studies of schizophrenia, autism, addiction, and normal variation in brain structure and function. We are seeking to understand variation in risk of common complex disorders and related quantitative risk factors by localizing, identifying and characterizing pertinent genes and genetic variants and understanding their interactions with each other and with the environment. We also develop statistical genetic tools, designing novel analytical approaches and testing them on real and simulated data sets to evaluate their performance and compare them to existing methods.

          Candidates should have strong quantitative and computational skills and a background in computational biology, genetics, biostatistics or a related field. The ideal candidate will have experience with hands-on data analysis for genetic studies and facility with R or other similar scripting environments. Excellent communication and writing skills are required.

          JOB RESPONSIBILITIES

          • Conduct independent scholarly research and develop new methods and protocols
          • Participate in project planning, recording and evaluation of data
          • Acquire technical, lab management and grant writing skills
          • Participate in seminars, lectures, poster sessions and presentation at national meetings
          • Supervise junior lab members
          • Assist with other research projects

          REQUIRED EDUCATION AND EXPERIENCE
          Required Education:

          • A terminal degree PhD, MD, DVM, etc.
          • According to the CMS (Centers for Medicaid and Medicare Services) a copy of diploma or transcript is required as proof of academic achievement for all non-laboratory personnel performing non-waived POC testing.
            • Click here to apply for this position.

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              25974 RESEARCH DATA SECURITY ENGINEER

              The Department of Biomedical and Health Informatics (DBHi) is seeking an experienced Research Data Security Engineer III who will be able to work closely with DevOps, Infrastructure, and Application Development teams to focus on security. An individual who has practical knowledge of hybrid cloud environments and their intricacies, as well as production deployment experience will be a welcome member of the Scientific Computing team.

              The Research Data Security Engineer III in the Department of Biomedical and Health Informatics develops and implements innovative security solutions to the challenging problems in the collection, management, analysis and interpretation of biomedical, genomic and clinical data. This role will work on a small team focused on security controls to support the goals of a curated enterprise research data sharing and storage program called Arcus. The role requires a high level of collaboration and teamwork.

              We are looking for highly creative people who share our mission to advance child health and who will thrive in a continuous learning environment, acquiring and applying both new technical skills and biomedical domain knowledge. Specifically, the Research Security Engineer III will:

              • Design and Implement Identity Access Management roles and policies.
              • Maintain an advanced understanding of networking and asset isolation.
              • Apply Data Loss Prevention techniques to sensitive datasets.
              • Use their experience in Asset/Threat/Vulnerability discovery, management, and remediation.
              • Bake security into all layers of the software development lifecycle.
              • Innovate solutions that have a high impact on data-intensive clinical and translational research.
              • Design, test, and maintain these solutions as part of the Arcus data platform.
              • Mentor staff and educate others in Security practices

              JOB RESPONSIBILITIES:
              A Research Data Security Engineer III is a senior contributor with similar responsibilities as the Research Data Security Engineer II, but with a great degree of complexity. A Research Data Security Engineer III may be involved in some leadership activities. A Research Data Security Engineer III also:

              • Defines and documents information security principles and processes to assist enterprise solution architects in security decisions for the enterprise, including access control, security information and event monitoring, and data loss prevention, perimeter (e.g., firewalls, IPS, web filtering) and network security (host-based firewalls, anti-virus, disk encryption).
              • Develops, builds, tests deployment strategies for information security solutions for application development as part of the organizations System Development Life Cycle (SDLC) methodologies.
              • Defines and documents system security and compliance requirements in support of approved PMO projects, existing operational activities, trace all system security and compliance requirements, validates that requirements are addressed, including validation of the final detailed security design specifications to support PMO life cycle activities.
              • Performs analysis and fulfills requests of eDiscovery & forensics investigations independently by collecting evidence and maintaining chain of custody of records.
              • Participates as a member of the Hospital CERT team and performs various security information and event management procedures to support security investigations.
              • Participates on related InfoSec standards for business continuity and change management activities (e.g., table tops and change review board) and educates IS Hospital management on security issues (e.g., PCI, Identity and Access Management (IAM), Role Based Access Control (RBAC) models.
              • Reviews periodic risk analysis and risk assessment activities in support of regulatory requirements (e.g., HIPAA Security & Privacy Rules, PCI DSS, and Joint Commission) utilizing established Governance Risk Compliance (GRC) technology or customized solutions.
              • Facilitates analysis of information security issues and recommends solutions for remediation.
              • Meets with clinical and business units to determine specific security requirements for application development & validate that requirements, documentation, design, and build are complete and accurate for application level development projects.
              • Supports CHOP IS capital budget planning process.
              • EDUCATION AND EXPERIENCE:
                Required Eduction:

                • Bachelor’s degree in Computer Science, Information Systems, or related field required.
                • 5 – 12 years related work experience; 4+ years of experience with information security, regulatory compliance and risk management concepts
                • 3 years of security architecture/engineering required
                • Comprehensive understanding of InfoSec risk management concepts, security engineering principles & practices, (e.g., COBIT or NIST).
                • Demonstrates a basic knowledge and understanding of Information security principles, System Development Life Cycle (SDLC), general and IT controls, security engineering principles, and related information security policies and procedures.
                • Exhibits knowledge of industry regulatory standards and accreditation requirements (HIPAA, PCI, and Joint Commission).

                Preferred Education, Experience & Cert/Lic
                Certified Internal Auditor (CIA), Certified Information Systems Security Professional (CISSP), Certified Information Systems Auditor (CISA), Certified Information Security Manager (CISM), Certified in the Governance of Enterprise IT (CGEIT), Certified in Risk and Information Systems Control (CRISC) or other industry related certification.

                • Kubernetes, AWS and/or GCP experience preferred
                • Working knowledge of HIPAA and the domain of Biomedical Research
                • ElasticSearch and Jenkins experience preferred
                • Experience with an IDM provider such as Auth0, Ping, or Okta
                • Experience with a Cloud Access Security Broker (CASB)

                ADDITIONAL TECHNICAL REQUIREMENTS

                • Comprehensive know of information security regulations, standards and leading practices, including understanding of EHR application access controls.
                • Good knowledge of basic database query techniques & data mining to analyze data (e.g., Excel, SQL, Quickbase, Business Objects) or other related database functionality.
                • Knowledge of MS Active Directory, UNIX, and Clinical Applications a plus.
                • Experience implementing application level security in clinical and financial systems (e.g., Epic, Lawson). ERP experience a plus (PeopleSoft, SAP).
                • Understands different firewall architectures (packet filter, application firewalls, application proxy, and VPN) and brands (Checkpoint, Cisco)
                • General understanding of networking and communication techniques including WANs, LANs, Internet, Intranet, protocols, such as TCP/IP and their impact on security.
                • Some knowledge of security applications such as intrusion detection systems and forensics packages (EnCASE), ArcSight, Foundstone
                • Understands differences in perimeter and DMZ architectures & experience with industry standards with system architectures including various UNIX and Microsoft Windows server and desktop platforms.
                • Has experience with application layer formats, usage and characteristics (HTTP, FTP, SSH, DNS, SMTP). Has knowledge of system architecture and design.
                • Microsoft, UNIX, Lawson, and Clinical Applications (e.g., Epic).
                • Experience with industry standard SDLC methodologies; hands-on experience in Project Server methodologies, PMO project management skills, including use of MS productivity tools (Access, Word, PowerPoint, Visio, Project).
                • Experience with risk management frameworks.

                Information Security Requirements 1. Understand and comply with all enterprise and IS departmental information security policies, procedures and standards. 2. Support the integration of information security in the development, design, and implementation of Hospital Technology Resources that process, transmit, or store CHOP information. 3. Support all compliance activities related to state, federal regulatory requirements, healthcare accreditation standards, and all other applicable regulations that govern the use and disclosure of patient, financial, or other confidential information.

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              ADDITIONAL INFORMATION

              All CHOP employees who work in a patient building or who provide patient care are required to receive an annual influenza vaccine unless they are granted a medical or religious exemption.

              Children's Hospital of Philadelphia is committed to providing a safe and healthy environment for its patients, family members, visitors and employees. In an effort to achieve this goal, employment at Children's Hospital of Philadelphia, other than for positions with regularly scheduled hours in New Jersey, is contingent upon an attestation that the job applicant does not use tobacco products or nicotine in any form and a negative nicotine screen (the latter occurs after a job offer).

              Children's Hospital of Philadelphia is an equal opportunity employer. We do not discriminate on the basis of race, color, gender, gender identity, sexual orientation, age, religion, national or ethnic origin, disability or protected veteran status.

              VEVRAA Federal Contractor/Seeking priority referrals for protected veterans. Please contact our hiring official with any referrals or questions.

              CHOP Careers Contact
              Talent Acquisition
              2716 South Street, 6th Floor
              Philadelphia, PA 19146
              Phone: 866-820-9288
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