The Wu Lab

Build Open & Connected Knowledge Base for Biomedical Discovery

Learn More

Three key areas we are focusing on:

FAIR Data Infrastructure

Build high-performance scalable biological data access APIs

Integrated KnowledgeGraph

Connect distributed knowledge via Linked Data technology

Biomedical Discovery

Apply integrated Knowledge Base for biomedical discovery

Scroll down for selected projects

BioThings APIs

We build a collection of high-performance biological APIs

MyGene.info

Gene Annotation Query as a Service
- High-performance
  
  Fast API access to update-to-date Gene annotations.
- Up-to-date
  
  Weekly updated gene annotations from over 30 sources.
Visit MyGene.info
- Pre-integrated
  
  Gene annotations for >20M genes (>17K species) are pre-integrated.
- Simple to use
  
  Just two end-points to retrieve annotations via Gene IDs or any query term.
MyVariant.info

Variant Annotation as a Service
- High-performance
  
  Fast API access to update-to-date human variant annotations..
- Up-to-date
  
  Monthly updated variant annotations from 18 sources.
Visit MyVariant.info
- Pre-integrated
  
  Variant annotations for >400M human variants are pre-integrated.
- Simple to use
  
  Just two end-points to retrieve annotations via HGVS IDs or any query term.
MyChem.info

The same high-performance BioThings API for chemicals and drugs
- High-performance
  
  Fast API access to update-to-date chemical/drug annotations..
- Up-to-date
  
  Monthly updated chemical/drug annotations over 10 sources.
Visit MyChem.info
- Pre-integrated
  
  Annotations for >90M chemicals/drugs are pre-integrated.
- Simple to use
  
  Just two end-points to retrieve annotations via InChIKey or any query term.
MyDisease.info

The same high-performance BioThings API for diseases
- High-performance
  
  Fast API access to update-to-date disease annotations..
- Up-to-date
  
  Monthly updated disease annotations over 5 sources.
Visit MyDisease.info
- Pre-integrated
  
  Annotations for >10M diseases are pre-integrated.
- Simple to use
  
  Just two end-points to retrieve annotations by disease ID or any query term.
MyTaxon.info

The same high-performance BioThings API for taxons
- High-performance
  
  Fast API access to update-to-date taxon annotations..
- Up-to-date
  
  Monthly updated taxon annotations over 3 sources.
Visit MyTaxon.info
- Pre-integrated
  
  Annotations for >27K taxons are pre-integrated.
- Simple to use
  
  Just two end-points to retrieve annotations by taxon ID or any query term.

A Software Developement Kit to turn a data file into an API

Learn More

See the tutorial and the docs

Build interoperability across APIs

Learn More

Enhance Data Discovery with Customized Metadata Schemas

NIAID Data Ecosystem

Accelerate your research. Find datasets on Infectious and Immune-mediated Diseases (IID) across many repositories.

What's new

Response to GISAID on termination of SARS-CoV-2 data feed

We launched outbreak.info in late 2020 to monitor COVID-19 cases and deaths, and expanded it in...

How Two Epidemiologists are Using Outbreak.info to Track Variants in Sonoma County

Julia Rubin and Stephen Johnston, epidemiologists at the County of Sonoma Department of Health,...

Outbreak.info Adds R package for Accessing SARS-CoV-2 Genomic Data in Collaboration with GISAID

The emergence of COVID-19 was met with an unprecedented level of worldwide scientific...

MyVariant Data Updates

We're excited to announce the latest MyVariant.info updates! The number of our hg19 variant...

Dataset Topic Category Contributors

In order to improve the aggregation, search, and filtering capabilities for outbreak.info...

Jumpstarting Community Conversations with Outbreak.info

How Scientists are Using Data to Increase COVID-19 Testing, Vaccinations, and Health Literacy in...

View more news

Our Team

Chunlei Wu
@chunleiwu

Marco Cano

Research Programmer III

Emily Haag

Community Engagement Specialist

Nichollette Acosta

Research Programmer III

Jason Lin

Research Programmer III

Everaldo Rodrigo Rodolpho

Research Programmer III

Dylan Welzel

Research Programmer III

Frontend Developer

Frontend Developer

Graduate Student

Research Programmer II

Su Lab

Our lab has a close collaborative relationship with Professor Andrew Su’s group at Scripps Research. We work together on a range of projects, and members of both labs often contribute across shared research teams. To learn more about the Su Lab, visit SuLab.org.

Andrew Su

Alan Huebschen

Software Engineer

Carolina G.

Staff Scientist

Chrissy Aceves

PhD Student

Colleen Xu

Research Programmer III

Ginger Tsueng
@GTsueng

Senior Staff Scientist

Ian Newman

PhD Student

Janet Joy

PhD Student

Mohammad Alanjary

Staff Scientist

Willow Callaghan

Research Programmer III

Pamela Graham

Administrative Assistant

Alumni

Click here to view our alumni

Join us

If you are passionate about Bioinformatics, Data Science, Semantic Web, Machine-learning and Genomics, you are welcome to contact us (cwu -at- scripps -dot- edu) and we will find a suitable position (Scientist, Developer, PostDoc or Graduate Research Assistant) in our team.

FAIR Data Infrastructure

Integrated KnowledgeGraph

Biomedical Discovery

MyGene.info

Gene Annotation Query as a Service

High-performance

Up-to-date

Pre-integrated

Simple to use

MyVariant.info

Variant Annotation as a Service

High-performance

Up-to-date

Pre-integrated

Simple to use

MyChem.info

The same high-performance BioThings API for chemicals and drugs

High-performance

Up-to-date

Pre-integrated

Simple to use

MyDisease.info

The same high-performance BioThings API for diseases

High-performance

Up-to-date

Pre-integrated

Simple to use

MyTaxon.info

The same high-performance BioThings API for taxons

High-performance

Up-to-date

Pre-integrated

Simple to use

Response to GISAID on termination of SARS-CoV-2 data feed

How Two Epidemiologists are Using Outbreak.info to Track Variants in Sonoma County

Outbreak.info Adds R package for Accessing SARS-CoV-2 Genomic Data in Collaboration with GISAID

MyVariant Data Updates

Dataset Topic Category Contributors

Jumpstarting Community Conversations with Outbreak.info

Click here to view our alumni