Blog
MyVariant.info R client in new Bioconductor release
It’s official! We now have an R client for querying MyVariant.info annotation services. The package, myvariant, can be installed from Bioconductor (>v3.2) by running the following commands from your R console:
source("http://bioconductor.org/biocLite.R")
biocLite("myvariant")
Bioconductor provides several packages for seamless interaction with Next
Poof it works – using wikidata to build Wikipedia articles about genes
The Gene Wiki team has been hard at work filling wikidata with useful content about genes, diseases, and drugs using the new and improved ProteinBoxBot. Now, we are starting to see the fruits of this labor in the context of Wikipedia.
New Mark2Cure features in development
Over the last week, we’ve been user-testing some features which we hope to introduce in the future. Some of these features are still in very early stages of development, so it may be awhile before our Mark2Curators start to see them. Since some of our Mark2Curators...
How helping find clues for NGLY1-deficiency can help other rare disease communities
When we first started moving Mark2Cure from Amazon Mechanical Turk to the internet at large, we decided early on that we would let the contributors take the steering wheel on the project. During beta testing, advocates from various rare disease communities (like...
Making a Mark– Mighty enthusiasm for what Mark2Curators have done
As promised in last week’s blog post, we’d like to share some of the feedback we received from our update meeting with Dr. Hudson Freeze, the Mights, and Karen Ho (NGLY1.org’s Chief Scientific Officer.) The Mark2cure development team started the meeting with a...
Over 300,000 annotations have been submitted so far, but we’re not done! Your help is still needed on our open doc sets
On Wednesday, the Mark2Cure development team met with Dr. Hudson Freeze (NGLY1 and CDG expert), Dr. Karen Ho (NGLY1.org's scientific advisor), and the mighty Mights: Cristina and Matt Might to discuss the progress in Mark2Cure and to get feedback on how to proceed....
New doc set! It’s a small one, but we can’t finish it without you!
Our new doc set is focused on misfolded proteins and the mitochondria. Mitochondria are the power plants of the cell and can be affected by the ER stress response. As mentioned in our Oxidative Stress doc set, ER stress can be triggered by protein misfolding and the...
A simple way to write Wikidata bots
Introduction: Sulab has proven it's love for Wikipedia by creating the GeneWiki[1]. Wikipedia is primarily a collection of free-text pages which also can contain some structured data in the form of infoboxes. In order to increase the abilities of handling and...
OST doc set at 41% complete, how your contributions count
Our Oxidative Stress Doc set is ~41% complete, while our O-linked Glycosylation Disorders Doc set is ~80% complete! Please continue to contribute to the completion of these doc sets, and invite your friends to join us so we can finish this faster! Thanks to our...
BioGPS Spotlight on COMPARTMENTS
Last month, we couldn't resist highlighting the plugin for an awesome resource which provided an excellent visualization of gene expression/distribution based on multiple data sources. As it turns out, TISSUES is just one of many inspired tools coming out of the...