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Job Req ID:  62195

Sr. Programmer Analyst - ADVANCE

Whiting School of Engineering seeks a Senior Programmer Analyst  who will operate and improve software that supports our ongoing efforts to use precision medicine engineering approaches to optimize the treatment of heart dysfunction in a clinical setting. We are specifically seeking independent-minded individuals with strong programming skills who will take charge of both the operation and development of critical components in the simulation-driven pipeline for our FDA-approved clinical trial. This one-of-a-kind computational workflow predicts optimal arrhythmia treatment in cardiac disease based on patient-specific medical imaging data, construction of personalized models, and simulations which predict the underlying targets of ablative treatment. Candidates should be prepared to draw on a wide range of programming and technical skills to refine and improve our methods.


The candidate will be responsible for independently operating the computational pipeline from start to finish after training from other members of our team. The pipeline includes a complex sequence of image analysis, anatomical segmentation, quality control, model-building, simulation, and interpretation steps. Once the analyst demonstrates proficiency in operations (within approximately three months of starting), they will propose, develop, and implement improvements to the pipeline in order to meet several design goals for this pipeline, including:


  • Accuracy and precision in segmentation and associated quality control
  • Automation of data curation and cleaning across individual steps in the pipeline
  • Visualization of quality control steps at key junctures in the sequence
  • Improvements to data structures to facilitate validation and hypothesis testing
  • User-interface tools which make it easy for domain experts to review and annotate a diverse set of data, including processed medical images, three-dimensional models, and a rich set of resulting simulation readouts
  • Validation tests and continuous integration (CI) methods which ensure that our pipeline is reproducible and accurate under a variety of inputs
  • Algorithm development, including machine learning and artificial intelligence (ML/AI), designed to streamline and automate the interpretation of both images and modeling data


Successful candidates will build a wide range of computational clinical engineering experience by mastering and improving this pipeline. This role requires strong technical skills, attention to detail, and willingness to work with a diverse team of scientists and engineers. Our collective goal is to build robust, reproducible, and elegant software accessible to both clinicians and scientists who use our methods.


Specific Duties & Responsibilities:

The scope for this role includes two parts:

  • First, experts on our team will provide extensive training for each component of the clinical trial pipeline, after which time the candidate will serve as both a primary or alternate technician responsible for executing the pipeline on new patients.
  • Second, after demonstrating proficiency, the ideal candidate will propose and implement improvements summarized above.


Other Responsibilities:

  • Receive training on our end-to-end computational clinical trial pipeline and demonstrate proficiency in each step.
  • Coordinate with other members of the team to execute this pipeline on a continuous stream of new patients.
  • Propose and develop improvements and refinements to the user interface tools, data structures, visualization, and algorithms necessary to complete the pipeline accurately and reproducibly.
  • Train new members of the team and build and maintain readable, durable documentation.
  • Validate and test individual components of the pipeline to improve scientific reproducibility.
  • Work with faculty, staff, and students to advance the clinical utility of the approach.


Minimum Qualifications (Mandatory):

  • Bachelor’s degree required.
  • Three years of related work experience with computer systems and applications.
  • Additional experience may be substituted for education. Additional education may substitute for experience.


Preferred Qualifications:

  • Bachelor's degree in engineering, ideally computer science, electrical engineering, biomedical engineering, or related field.
  • Experience in computer vision, interpreting medical images, or performing anatomical segmentation.
  • MS/MSE degree in engineering or computer science.
  • Expert-level software engineering skills, data science methods, and experience with big data.
  • Algorithm development experience, especially in a medical imaging or three-dimensional modeling context.
  • Experience in machine learning, particularly neural networks, and deep learning for interpreting images.


Special Knowledge, Skills & Abilities:

  • Intermediate to advanced skills in programming, including familiarity with Linux, command-line tools, scripting, and data science programming languages (this must include Python, but experience in other languages is welcome).
  • Familiarity with image analysis methods and ideally computer vision algorithm design.
  • Ability to write reusable, modular, clear, well-documented code using version control while following software engineering best practices.
  • Experience streamlining, automating, and scripting academic research workflows that require big data.
  • Three-dimensional visualization skills, particularly in ParaView.
  • Ability to manage multiple projects at once and collaborate with domain experts to develop new features and analyses.
  • Strong communication skills and ability to write robust documentation and train new team members.


JHU Equivalency Formula:  30 undergraduate degree credits (semester hours) or 18 graduate degree credits may substitute for one year of experience.  Additional related experience may substitute for the required education on the same basis. For jobs where equivalency is permitted, up to two years of non-related college course work may be applied towards the total minimum education/experience required for the respective job. 


Classified Title: Sr. Programmer Analyst

Working Title: Sr. Programmer Analyst - ADVANCE 
Role/Level/Range: ATP/04/PD 
Starting Salary Range: $59,873 - $82,244 annually (commensurate with experience)
Employee group: Full Time 
Schedule: M-F, 8:30-5:00 pm 
Exempt Status: Exempt  
Location: Homewood Campus 
Department name: ​​​​​​​ADVANCE
Personnel area: Whiting School of Engineering


The successful candidate(s) for this position will be subject to a pre-employment background check.


If you are interested in applying for employment with The Johns Hopkins University and require special assistance or accommodation during any part of the pre-employment process, please contact the HR Business Services Office at jhurecruitment@jhu.edu. For TTY users, call via Maryland Relay or dial 711.


Johns Hopkins has mandated COVID-19 and influenza vaccines, as applicable. Exceptions to the COVID and flu vaccine requirements may be provided to individuals for religious beliefs or medical reasons or because the individual is pregnant or attempting to become pregnant. Requests for an exception must be submitted to the JHU vaccination registry. For additional information, please visit: https://covidinfo.jhu.edu/health-safety/covid-vaccination-information/


The following additional provisions may apply depending on which campus you will work.  Your recruiter will advise accordingly.


The pre-employment physical for positions in clinical areas, laboratories, working with research subjects, or involving community contact requires documentation of immune status against Rubella (German measles), Rubeola (Measles), Mumps, Varicella (chickenpox), Hepatitis B and documentation of having received the Tdap (Tetanus, diphtheria, pertussis) vaccination. This may include documentation of having two (2) MMR vaccines; two (2) Varicella vaccines; or antibody status to these diseases from laboratory testing. Blood tests for immunities to these diseases are ordinarily included in the pre-employment physical exam except for those employees who provide results of blood tests or immunization documentation from their own health care providers. Any vaccinations required for these diseases will be given at no cost in our Occupational Health office.


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