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Cancer Genomics Laboratory Information System (LIS) Developer

Organization
National Institutes of Health, NCI, CCR, LP
Job Location
10 Center Drive
Room 2S235
Bethesda, MD 20892-1500
United States
Job Description

Key roles/responsibilities:

The Laboratory of Pathology, National Cancer Institute, Bethesda, MD is seeking a software developer who will be responsible for developing, modifying and maintaining a laboratory information system in coordination with the scientific and technologist staff. As part of the NCI-COMPASS program the Laboratory of Pathology currently has various genomic assays and is in the process of developing an expansive multiomics program which includes clinical-grade whole genome sequencing, whole transcriptome sequencing, and other genomic characterization modalities. A centralized way of collecting, extracting, and presenting this very large volume of data is needed in order to maximize the efficiency of clinical and research work and to meet regulatory requirements. 

Specific duties will include:

Developing and presenting iterations of an information system based on cBioportal which will be used by molecular pathologists, technologists, and clinicians to:

-Store clinically relevant information (cancer type, metastatic site, etc)

-Link components to specific cases (eg previously resulted reports, scanned slide images, etc)

-Make clinical case components available for review during clinical conferences

-Extract information for analytical purposes including quality assessment metrics such as turnaround time, rates of specific mutations in a subset of specimens, etc

-Populate raw genomics data generated by the lab, ability to filter, query and linking with patient records.

-Serving as a member of a team of computer/bioinformatics scientist and engineers that design, develop and/or modify existing software to help solve scientific computing problems. 

-Close interaction with staff to identify and implement their information system needs.

-Assisting in improving specimen and signout workflow.

-Managing interfacing with laboratory instrumentation.

Requirements

To be considered for this position, you must minimally meet the knowledge, skills, and abilities listed below:

Possession of at least a Master’s degree in a related field (Computer Science/ Bioinformatics) from an accredited college or university according to the Council for Higher Education Accreditation (CHEA). Foreign degrees must be evaluated for U.S. equivalency.

Three (3) years of relevant experience.

CBioPortal or genome database skills preferred.

Experience or exposure with developing laboratory information systems.

Ability to communicate effectively with scientific personnel and administrative staff.

Ability to multitask, prioritize, and meet deadlines in multiple complex projects.

Ability to work independently and complete tasks with minimal supervision.

Ability to meet regulatory requirements.

Candidates with these desired skills will be given preferential consideration:

Extensive prior experience with laboratory information system development.

Knowledge of backend working of cBioPortal or other genome-related database is preferred.

Knowledge of laboratory information system College of American Pathologists requirements.

Experience with R, Python, JAVA, JavaScript, D3, REST API, HTML5, CSS, UI design, Bootstrap, latest web technologies, Docker/Singularity.

Experience with Database design and implementation e.g. MySQL

Experience with machine learning.

Basic working knowledge of Next Generation Sequencing data e.g. RNAseq, ExomeSeq, etc.

Key Words for Resume Search:

Laboratory information system, automation, cBioportal, data entry, data extraction, scientific projects, clinical assay, genomic assay, NGS, array, MySQL, Java, python, JavaScript.

How to Apply

Please submit curriculum vitae and statement of interest to Antonios Papanicolau-Sengos (Laboratory of Pathology, [email protected]) with a cc to Courtney Newberry ([email protected]) The position will remain open until filled.

The selected candidate will be employed by a third-party contractor.

About Our Organization

The NIH, one of the nation’s premier research hospitals, is located in Bethesda, recognized as a thriving suburban/urban center just outside of Washington DC. This position will be filled via a third-party contractor.