Career Opportunities with the Center for Biomedical Informatics

12-27759 LEAD ANALYST/PROGRAMMER

We are seeking an experienced Lead software development professional to join our small, highly focused, entrepreneurial R&D application development group within the Center for Biomedical Informatics (CBMi). As a member of our team, your technical expertise can have an immediate impact on patient care through our mission to accelerate pediatric research with novel applications and data solutions. Furthermore, your work here has the potential to impact the future of healthcare through our research into software solutions supporting genome-enabled personalized medicine. Our research mission fosters an environment where creativity and exploration of new technologies are promoted and encouraged. This role will lead the independent development and implementation of highly creative and reliable tools in order to optimize informatics solutions in the research setting. This position demands an individual with superior technical programming skills in one or more computer languages who can quickly apply this knowledge to define a “best path” for a wide variety of projects. The Lead Analyst/Programmer will independently develop solutions for an academic research organization to yield deliverables such as analysis modules that utilize large and complex data types, data extraction/analysis modules that are dependent on complex underlying healthcare data systems, and integrated systems that promote translation between the biomedical research and clinical domains. The Lead Analyst/Programmer will lead in the acquisition of client requirements, design of solution sets, coding, testing and implementation for programming projects that affect the research community. The individual will be able to very quickly and independently translate requirements from disparate functions into deliverables that are immediately high in quality, extensible as defined by a long-term strategic plan, and intuitively accessed and utilized.

Requirements

  • 6+ years of programming experience with progressively more complex projects.
  • Mastery of one or more programming language highly desired with a demonstrated ability to learn new languages (Python, JavaScript, or Scala experience is highly desirable).
  • Mastery of unit and integration test design and programming frameworks such as PyUnit or JUnit highly desired.
  • Working knowledge of one or more bug tracking applications such as FogBugz or Trac highly desired.
  • Working knowledge of relational database application development highly desired, including stored procedures, SQL, data definition language, basic performance tuning and query optimization, and ETL techniques.
  • Working knowledge of Python, JavaScript and one or more of the following preferred: Java, PHP, C/C++. Working knowledge of one or more of the following web application framework/platforms preferred: Django, Ruby on Rails, JBoss, Apache Tomcat.
  • Previous experience in data modeling and applications of highly multidimensional data types such as that derived from clinical research, genomics, proteomics, or image analysis is preferred.
  • Experience in healthcare and/or biomedical data management issues is preferred.
  • Demonstrates expert knowledge of test-driven development, unit testing, and the importance and implementation of configuration management processes and technologies.
  • Exhibits excellent oral and written communication skills.
  • Demonstrates knowledge of system integration, configuration, and deployment.
  • Demonstrates ability to document code and systems.

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12-28170 SR ANALYST/PROGRAMMER

Since its inception in 2006, analysts and programmers at The Center for Biomedical Informatics (CBMi) at The Children’s Hospital of Philadelphia (CHOP) have promoted and enabled the innovative use of next generation sequencing to benefit the health of both our patients and the general pediatric population. To that end, CBMi is now looking for progressive and talented informatics professionals to develop an expanded next generation sequence-based clinical diagnostics framework in collaboration with CHOP’s Department of Pathology and Laboratory Medicine. The resulting system, which includes raw data processing, data management and archiving, summary data views, algorithm-based decision support, and other analytical modules, will be used to better diagnose and treat specific heritable disorders and pediatric cancers. We are seeking an experienced software development professional to join our small, highly focused, entrepreneurial R&D application development group within CBMi. As a member of our team, your technical expertise can have an immediate impact on patient care through our mission to accelerate pediatric research with novel applications and data solutions. Furthermore, your work here has the potential to impact the future of healthcare through our research into software solutions supporting genome-enabled personalized medicine. Our research mission fosters an environment where creativity and exploration of new technologies are promoted and encouraged. Likely candidates should have solid experience and working knowledge in three or more programming languages (Python, JavaScript, or Scala experience is highly desirable) and be comfortable with one or more relational database platforms. Our dynamic academic research environment demands an individual with exceptional written and oral communication skills who can rapidly translate requirements from a variety of disciplines into intuitive, high quality software solutions that support our strategic vision. Candidates with prior experience in the biomedical field, especially using highly complex genomic data and/or data from electronic health records are very desirable. Participation in one or more public open source projects is an added bonus.

Requirements

  • BS or MS degree in computer science, information science, or related field.
  • 4+ years of programming experience with progressively more complex projects.
  • Mastery of one or more programming language highly desired with a demonstrated ability to learn new languages (Python, JavaScript, or Scala experience is highly desirable).
  • Mastery of unit and integration test design and programming frameworks such as PyUnit or JUnit highly desired.
  • Working knowledge of one or more bug tracking applications such as FogBugz or Trac highly desired.
  • Working knowledge of relational database application development highly desired, including stored procedures, SQL, data definition language, basic performance tuning and query optimization, and ETL techniques.
  • Working knowledge of Python, JavaScript and one or more of the following preferred: Java, PHP, C/C++.
  • Working knowledge of one or more of the following web application framework/platforms preferred: Django, Ruby on Rails, JBoss, Apache Tomcat.
  • Previous experience in data modeling and applications of highly multidimensional data types such as that derived from clinical research, genomics, proteomics, or image analysis is preferred.
  • Experience in healthcare and/or biomedical data management issues is preferred.
  • Demonstrates expert knowledge of test-driven development, unit testing, and the importance and implementation of configuration management processes and technologies.
  • Exhibits excellent oral and written communication skills.
  • Demonstrates knowledge of system integration, configuration, and deployment.
  • Demonstrates ability to document code and systems.

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12-27909 SR ANALYST/PROGRAMMER

We are seeking an experienced software development professional to join our small, highly focused, entrepreneurial R&D application development group within the Center for Biomedical Informatics (CBMi). As a member of our team, your technical expertise can have an immediate impact on patient care through our mission to accelerate pediatric research with novel applications and data solutions. Furthermore, your work here has the potential to impact the future of healthcare through our research into software solutions supporting genome-enabled personalized medicine. Our research mission fosters an environment where creativity and exploration of new technologies are promoted and encouraged. Likely candidates should have solid experience and working knowledge in three or more programming languages (Python, JavaScript, or Scala experience is highly desirable) and be comfortable with one or more relational database platforms. Our dynamic academic research environment demands an individual with exceptional written and oral communication skills who can rapidly translate requirements from a variety of disciplines into intuitive, high quality software solutions that support our strategic vision. Candidates with prior experience in the biomedical field, especially using highly complex genomic data and/or data from electronic health records are very desirable. Participation in one or more public open source projects is an added bonus.

Requirements

  • BS or MS degree in computer science, information science, or related field.
  • 4+ years of programming experience with progressively more complex projects.
  • Mastery of one or more programming language highly desired with a demonstrated ability to learn new languages (Python, JavaScript, or Scala experience is highly desirable).
  • Mastery of unit and integration test design and programming frameworks such as PyUnit or JUnit highly desired.
  • Working knowledge of one or more bug tracking applications such as FogBugz or Trac highly desired.
  • Working knowledge of relational database application development highly desired, including stored procedures, SQL, data definition language, basic performance tuning and query optimization, and ETL techniques.
  • Working knowledge of Python, JavaScript and one or more of the following preferred: Java, PHP, C/C++.
  • Working knowledge of one or more of the following web application framework/platforms preferred: Django, Ruby on Rails, JBoss, Apache Tomcat.
  • Previous experience in data modeling and applications of highly multidimensional data types such as that derived from clinical research, genomics, proteomics, or image analysis is preferred.
  • Experience in healthcare and/or biomedical data management issues is preferred. Demonstrates expert knowledge of test-driven development, unit testing, and the importance and implementation of configuration management processes and technologies.
  • Exhibits excellent oral and written communication skills.
  • Demonstrates knowledge of system integration, configuration, and deployment.
  • Demonstrates ability to document code and systems.

Click here to apply for this position.

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12-28125 BIOINFORMATICS SCIENTIST

Since its inception in 2006, analysts and programmers at The Center for Biomedical Informatics (CBMi) at The Children’s Hospital of Philadelphia (CHOP) have promoted and enabled the innovative use of next generation sequencing to benefit the health of both our patients and the general pediatric population. To that end, CBMi is now looking for progressive and talented informatics professionals to develop an expanded next generation sequence-based clinical diagnostics framework in collaboration with CHOP’s Department of Pathology and Laboratory Medicine. The resulting system, which includes raw data processing, data management and archiving, summary data views, algorithm-based decision support, and other analytical modules, will be used to better diagnose and treat specific heritable disorders and pediatric cancers.

The Bioinformatics Scientist will apply his or her knowledge of bioinformatics algorithms and analysis platforms to consult on and lead computational biology projects in collaboration with CHOP investigators. This individual will work in a highly skilled, team-oriented environment applying knowledge of cellular, molecular, and computational biology to create novel methods and testable scientific hypotheses. Successful candidates will be knowledgeable of the major genomics platforms in a variety of areas, but with a distinct emphasis on whole genome sequencing and tools for the transfer, management, processing, analysis, and interpretation of this data. Candidates will also have an excellent understanding of the strengths and limitations of these platforms as they apply to experimental endpoints and will readily be able to set expectations and defend results through direct communication with principal investigators and their staff.

This position will be able to apply a broad range of statistical methodologies such as generalized linear models, multivariate methods, and some machine learning. An expert understanding of systems biology as represented by integrated pathway analysis is expected. This individual must be a functional coder in R, Perl, Python, Java, or other scripting/statistical languages.

Requirements

  • MS required/PhD strongly preferred in Informatics, Computational Biology, Genetics, or related discipline.
  • 5 or more years experience in data processing pipeline development and/or programming within a bioinformatics environment required.
  • Strong programming skills in at least one scripting language such as R, Perl, Python, or Ruby.
  • Proficiency in Java, C/C++, SQL, HTML.
  • Strong UNIX/LINUX expertise required.
  • High Performance Computing skills required.
  • Previous experience in data modeling and applications of next generation sequencing data is strongly preferred.
  • Familiarity with bioinformatics resources and software required.
  • Experience with statistics as it relates to highly multidimensional data is required.
  • Excellent oral and written communication skills are required.

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12-27913 INFORMATION ANALYST I

The Information Analyst I within the Children’s Hospital of Philadelphia Research Institute’s Center for Biomedical Informatics (CBMi) functions as a member of a multi-disciplinary clinical reporting team whose expertise spans the domains of clinical data systems and reporting, clinical practice, and research processes. The Information Analyst I will generally extract and transform data from a variety of clinical and supporting non-clinical data sources to enable research and quality improvement initiatives across a rapidly evolving academic research enterprise. This individual will create custom reports for researchers directly from the Hospital’s electronic health record and will develop, maintain, and optimize regular reports that are run at some frequency. The Analyst will also be involved with report formatting and identification of anomalies. The Analyst will have some background in general data management using common utilities such as SQL, relational database schemas of high complexity, data validation, loading, and data structures and should be able to efficiently manipulate data using at least one formatting and/or analysis language such as Perl, Python, Java, PL/SQL, etc. In some cases, the amount and complexity of the data will demand careful attention to details of the underlying data model and may result in large schema changes or mapping across data systems. The Analyst will also learn from other data analysts on the team in the areas of ETL and clinical data standards, and may be asked to support where needed in project management, data standards, data quality, and governance. Finally, effective written and oral communication and a proven customer focus are essential for this position.

Requirements

  • BA/BS in life sciences and who have pursued a career in informatics is preferred. BA/BS in computer science or other data management-related field is acceptable.
  • 1-3 years of Data Warehousing and ETL experience, preferably in a healthcare environment.
  • Working knowledge of SQL and one or more of the following: Perl, Python, Java.
  • Working knowledge of relational database application development is required, including stored procedures, SQL, data definition language, basic performance tuning and query optimization.
  • Experience with biomedical data management is preferred.
  • Experience in the development or implementation of structured operational processes, conformance with SLAs, and metrics based reporting.
  • Experience with process documentation, and communication tools including MS Word, Excel, Visio and PowerPoint.
  • Experience in building databases in REDCap is preferred, but not required.
  • Must be able to efficiently learn a complex clinical data model and apply methods to achieve interpretable information for biomedical research activities.
  • Situational awareness concerning data interpretation, quality, and integrity is essential.
  • Must exhibit good oral and written communication skills.
  • PL/SQL and Database Knowledge – Understanding SQL, Relational and Multidimensional Databases and Designs

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12-28326 DATABASE ARCHITECT

Since its inception in 2006, analysts and programmers at The Center for Biomedical Informatics (CBMi) at The Children’s Hospital of Philadelphia (CHOP) have promoted and enabled the innovative use of next generation sequencing to benefit the health of both our patients and the general pediatric population. To that end, CBMi is now looking for progressive and talented informatics professionals to develop an expanded next generation sequence-based clinical diagnostics framework in collaboration with CHOP’s Department of Pathology and Laboratory Medicine. The resulting system, which includes raw data processing, data management and archiving, summary data views, algorithm-based decision support, and other analytical modules, will be used to better diagnose and treat specific heritable disorders and pediatric cancers.

The Database Architect will create novel data storage and retrieval solutions that make it possible to perform whole genome diagnostics for pediatric patients. The successful candidate will design, implement, and administer petabyte-scale database systems that are intrinsic to bioinformatics analysis pipelines, annotation services, analytic applications, and clinical decision support tools. The Database Architect will define and execute a technical and implementation strategy as a key contributor to CHOP’s goal of providing cutting-edge genome-enabled care to our pediatric patients. Expert knowledge of multiple RDBMS, noSQL, and file-based database technologies is critical, as is the ability to combine multiple database technologies to achieve system design goals. Experience in both development and production environments is a must, along with a team- and results-oriented attitude.

Requirements

  • 5 to 10 years of experience using Postgres, Oracle, MySQL, MongoDB, CouchDB, or other alternative database technologies in a large-scale development and production environment.
  • Experience working on data warehousing projects, scientific or clinical preferred.
  • Experience modeling highly dimensional data types such as those derived from next generation sequencing, micro array, and genotyping assay data preferred.
  • Experience modeling multiple complex data types – e.g. transactional, non-transactional, factless.
  • Track record of success working with stakeholders, analysts, and software developers in multidisciplinary teams focused on multi-tier development and production systems.
  • Able to determine and communicate the value of various database technologies in the context of a complete solution.
  • Experience with critical evaluation and selection of the best of multiple alternative technologies for a given job.
  • Demonstrated track record of balancing high-availability and cost, given the nature of an application.
  • Expertise with performance evaluation, benchmarking and optimization.
  • Expertise with tuning performance of both read and write operations.

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NOTE: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.