Part-Time Programmer Analysts

Penn State University Parkmid

Software EngineerSoftware Engineering

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“The Biomedical Data Translator.” https://ncats.nih.

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Software EngineerSoftware Engineering

Requirements

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The Department of Computer Science and Engineering is seeking part-time Programmer Analysts to support an NIH National Center for Advancing Translational Science-funded project called: “The Biomedical Data Translator.” https://ncats.nih.gov/research/research-activities/translator

These programmers will develop the following components to be incorporated into the ARAX (https://github.com/RTXteam/RTX) system: Implement statistical and machine learning techniques to augment graph edge properties in ARAX; Create modular python wrappers to interface with NCATS (National Center for Advancing Translational Services) translator API (Application Programming Interface) endpoints (https://smart-api.info/registry) and UI (https://ui.transltr.io/) to allow ingestion of open access data into (and from) the ARAX system; Implement automated thresholding of ARAX filtering components; Create a modular, tunable weighting scheme for scoring and ranking of results to be returned by the ARAX system; Train a graph node embedding + random forest model on open access clinical and biomedical data to extend current capabilities for predicting the probability that a drug treats a disease; Maintain the ARAX code base to retain compliance with API and data standardization version updates as specified by the advisory, API, and data modeling committees; Address additional ARAX code-base issues as they are identified and assigned by faculty member.

Requirements include:

Excellent interpersonal and communication skills
Strong attention to detail
Master’s degree plus two years of related experience, or an equivalent combination of education and experience
Specific skills required are experience with the Neo4j graph database, interacting with REST APIs, more than three years’ experience with Python, and associated machine learning packages (such as Scikit learn)
More than three years’ experience with Git and GitHub
Ability to effectively work remotely with a large team of programmers and scientists
Two years’ or more experience working with biomedical ontologies/data sets and publicly available databases

Pay and hours per week negotiable within funder restrictions. Please include a cover letter and resume.

Employment with the University will require successful completion of background check(s) in accordance with University policies.

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