The Wu Lab

Build Connected Knowledge Base for Biomedical Discovery

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Three key areas we are focusing on:

Data Infrastructure

Build high-performance scalable biological data access APIs

Semantic Web

Connect distributed knowledge via Linked Data technology

Biomedical Discovery

Apply integrated Knowledge Base for biomedical discovery

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)

What's new

Just in time for the holidays--a brand new BioThings python client

The BioThings python client is an easy-to-use Python wrapper to access any of the Biothings.api...

Happy Halloween

In case you missed the paper on how JSON-LD can be used to link MyGene.info and other BioThings...

Trick or Treat!

Don't let the use of outdated variant annotations come back and bite you in the face!

Boo!

Fragmented data in different formats can be quite a nightmare--fortunately there are BioThings APIs

Upcoming Cancer Variant Interpretation Hackathon and Curation Jamboree

The CIViC (Clinical Interpretations of Variants in Cancer) Project is one of the many data...

MyVariant gets bigger with the June 2018 release

The late June data release almost doubles the number of variants available through...

View more news

Our Team

Chunlei Wu
@chunleiwu

Cyrus Afrasiabi

Research Programmer

Sebastien Lelong

Research Programmer

Jiwen (Kevin) Xin *

Ph.D. Candidate

Ginger Tsueng *
@GTsueng

Staff Scientist

Greg Taylor

Contracting Developer

Visiting Scientist

Research Programmer

Research Programmer

Graduate Student

* Joint with The Su Lab

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.

Data Infrastructure

Semantic Web

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

Just in time for the holidays--a brand new BioThings python client

Happy Halloween

Trick or Treat!

Boo!

Upcoming Cancer Variant Interpretation Hackathon and Curation Jamboree

MyVariant gets bigger with the June 2018 release