The Wu Lab

Build Open & Connected Knowledge Base for Biomedical Discovery

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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.

BioThings SDK

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

See the tutorial and the docs (in-progres)

SmartAPI

Build interoperability across APIs

What's new

MyVariant Data Updates

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

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Dataset Topic Category Contributors

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

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Jumpstarting Community Conversations with Outbreak.info

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

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Confronting COVID-19 through the News: A Journalist’s Experience with Data During the Pandemic

A young writer in Japan who has been tackling the pandemic from viewpoint of the news shares...

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Wastewater Treatment Plant Scientists Track Variants with the Help of Outbreak.info

When someone washes their hands, flushes a toilet, or showers, the wastewater is discharged to...

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Aspiring Virologist Uses Outbreak.info to Understand COVID-19

At a pivotal point in their nascent research careers, students need resources that are...

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Our Team

Chunlei Wu
@chunleiwu

PI

Ginger Tsueng
@GTsueng

Staff Scientist

Marco Alvarado

Research Programmer III

Jerry Zhou

Xinghua (Jerry) Zhou

Research Programmer III

Julia Mullen

Research Programmer

Zhongchao Qian

Research Programmer

Ricardo Avila

Research Programmer

Eric Hu

Post-doctoral Research Associate

Collene Xu

Research Programmer

Yao Yao

Staff Scientist

Sander Su

Administrative Collaborator

Emily Haag

Community Engagement Specialist

Jackson Callaghan

Jackson Callaghan

Research Programmer

Nichollette Acosta

Nichollette Acosta

Research Programmer

Eric Zhou

Intern

Kaleigh Jaeger

Intern

Rachel Sattler

Graduate Student

See lab alumni here

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.