📁
Information Technology Services
📅
89517 Requisition #

The Stanford Center for Genomics and Personalized Medicine (SCGPM) has an exciting opportunity available for a motivated Software Developer to help us create data infrastructure that will automate the process of turning big genomic data into biomedical insights. The ideal person for this position is a keen listener who can interpret biological questions, assess the value and relevance of different technologies and methods, and quickly prototype and deliver actionable technical solutions.
 

Position: 
The Department of Veterans Affairs has commissioned the sequencing of 150,000+ whole genomes from participants in the Million Veteran Program [see: https://www.mvp.va.gov/]. This data is currently being delivered to Stanford’s cloud computing environment and constitutes one of the largest repositories of whole-genome sequencing data in the world. The scale and richness of this data make it an incredible resource for biomedical research. Our goal is to turn this data lake into a data commons; a dynamic computing environment where researchers bring questions and get answers, all without having to go through the ordeal of manually collecting, cleaning, massaging, waxing, scrubbing, sorting, transforming, and filtering data.
 

Duties include:

  • Develop GraphQL APIs that allow researchers to effectively query meta/data in a controlled and secure fashion
  • Develop a web portal that makes it easy for researchers to visualize the resources and analyses available in our data commons and provides API functionality while abstracting away the need to write API queries
  • Integrating GraphQL APIs to Graph (Neo4j) and SQL (BigQuery, PostgreSQL, etc.) databases
  • Using the GRANDstack for application development
  • Using the Cypher and SQL query languages to query Neo4j and SQL databases and update the data models
  • Following serverless and microservice architecture design principles
  • Writing easy-to-understand documentation and tutorials (with examples) explaining how to use the web portal and APIs
  • Writing unit and integration tests for each service
  • Using configuration-as-code tools (Terraform) to manage application deployments
  • Transforming genomic data from custom file formats into database-native  formats


Desired qualifications:

  • Four-year degree or equivalent experience
  • Experience with frontend (Javascript, HTML, CSS, React) and backend (APIs & databases) development
  • Comfort programming in Python
  • Ability to independently graphs the objects of research projects and assemble solutions from a range of technologies, standards, and approaches
  • A desire to learn new methods and technologies and adapt to demands of fast-paced research
  • Excellent verbal and written communication skills
  • Experience with cloud computing is a plus
  • Experience with databases (SQL, Neo4j) or big data technologies (BigQuery, Spark) is a plus
  • Familiarity with FAIR principles of data management

 

Team: 
Our SCGPM core bioinformatics team is a multi-disciplinary group composed of about a dozen scientists, engineers, and software developers with complementary backgrounds, each contributing their own expertise in managing and analyzing complex biomedical data [see http://med.stanford.edu/gbsc/scgpm-team.html].  Projects supported by this team include the Stanford Genome Sequencing Center, the Stanford Center for Excellence in Stem Cell Genomics (funded by CIRM), the VA’s Million Veteran Project, and the ENCODE Functional Genomics Project. This position will support on-site office accommodations at our Palo Alto office or fully remote work.

 

DESIRED QUALIFICATIONS:

  • Four-year degree or equivalent experience
  • Experience with frontend (Javascript, HTML, CSS, React) and backend (APIs & databases) development
  • Comfort programming in Python
  • Ability to independently graphs the objects of research projects and assemble solutions from a range of technologies, standards, and approaches
  • A desire to learn new methods and technologies and adapt to demands of fast-paced research
  • Excellent verbal and written communication skills
  • Experience with cloud computing is a plus
  • Experience with databases (SQL, Neo4j) or big data technologies (BigQuery, Spark) is a plus
  • Familiarity with FAIR principles of data management

 

EDUCATION & EXPERIENCE (REQUIRED):

Bachelor's degree and three years of relevant experience or a combination of education and relevant experience.

 

KNOWLEDGE, SKILLS AND ABILITIES (REQUIRED):

  • Current knowledge of latest software and design standards. 
  • Ability to define and solve logical problems for technical applications.
  • Knowledge of and ability to select, adapt, and effectively use a variety of programming methods.
  • Ability to recognize and recommend needed changes in user and/or operations procedures.
  • Basic knowledge of software engineering principles.
  • Strong knowledge of at least one programming language.

 

CERTIFICATIONS & LICENSES:

None.


PHYSICAL REQUIREMENTS*:

  • Constantly perform desk-based computer tasks. 
  • Frequently sit, grasp lightly/fine manipulation.
  • Occasionally stand/walk, writing by hand. 
  • Rarely use a telephone, lift/carry/push/pull objects that weigh up to 10 pounds

* - Consistent with its obligations under the law, the University will provide reasonable accommodation to any employee with a disability who requires accommodation to perform the essential functions of his or her job.

WORKING CONDITIONS:

May work extended hours, evening and weekends.

 

WORK STANDARDS (from JDL):

  • Interpersonal Skills: Demonstrates the ability to work well with Stanford colleagues and clients and with external organizations.
  • Promote Culture of Safety: Demonstrates commitment to personal responsibility and value for safety; communicates safety concerns; uses and promotes safe behaviors based on training and lessons learned.
  • Subject to and expected to comply with all applicable University policies and procedures, including but not limited to the personnel policies and other policies found in the University's Administrative Guide, http://adminguide.stanford.edu.

My Submissions

Track your opportunities.

My Submissions

Similar Listings

School of Medicine, Stanford, California, United States

📁 Information Technology Services

School of Medicine, Stanford, California, United States

📁 Information Technology Services

School of Medicine, Stanford, California, United States

📁 Information Technology Services

Global Impact
We believe in having a global impact

Climate and Sustainability

Stanford's deep commitment to sustainability practices has earned us a Platinum rating and inspired a new school aimed at tackling climate change.

Medical Innovations

Stanford's Innovative Medicines Accelerator is currently focused entirely on helping faculty generate and test new medicines that can slow the spread of COVID-19.

Technology

From Google and PayPal to Netflix and Snapchat, Stanford has housed some of the most celebrated innovations in Silicon Valley.

Advancing Education

Through rigorous research, model training programs and partnerships with educators worldwide, Stanford is pursuing equitable, accessible and effective learning for all.

Working Here
We believe you matter as much as the work

Group Dance Class In A Gym
Nora Cata Portrait

I love that Stanford is supportive of learning, and as an education institution, that pursuit of knowledge extends to staff members through professional development, wellness, financial planning and staff affinity groups.

Nora Cata

School of Engineering

Students Working With A Robot Arm
Philip Cheng Portrait

I get to apply my real-world experiences in a setting that welcomes diversity in thinking and offers support in applying new methods. In my short time at Stanford, I've been able to streamline processes that provide better and faster information to our students.

Philip Cheng

School of Medicine

Students Working With A Robot Arm
Denisha Clark Portrait

Besides its contributions to science, health, and medicine, Stanford is also the home of pioneers across disciplines. Joining Stanford has been a great way to contribute to our society by supporting emerging leaders.

Denisha Clark

School of Medicine

Students Working With A Robot Arm
Laura Lind Portrait

I like working in a place where ideas matter. Working at Stanford means being part of a vibrant, international culture in addition to getting to do meaningful work.

Laura Lind

Office of the President and Provost

Getting Started
We believe that you can love your job

Join Stanford in shaping a better tomorrow for your community, humanity and the planet we call home.

  • 4.4 Review Ratings
  • 89% Recommend to a Friend
  • 90% Approve of President

View All Jobs