Blog
BioGPS Spotlight on the Sheep Gene Expression Atlas
In BioGPS, there are a number of Intermine-based model organism plugins (and to a lesser extent model organism data sets) which allow users to explore gene expression in organisms typically studied in biomedical research. Model organisms such as mice, rats, flies,...
Happy Birthday Wikidata!
On Wikidata’s fifth birthday, we (the Gene Wiki team) offer our hearty congratulations!! It is amazing what has been achieved in such a short timespan. Wikidata has basically given us - and the larger research community - the gift of not having to maintain a core...
New MyVariant.info data release log and new data updates
Don’t want to look through our blog posts to find previous information about data updates on MyVariant.info? Now you don’t have to! Metadata about our data updates is now being logged on in our docs at http://docs.myvariant.info/en/latest/doc/release_changes.html. Hence, from here
The Sammies award and why it matters to Mark2Cure
In case you haven’t heard, David Lipman and the GenBank team are in the running for the People’s Choice Award of the Samuel J. Heyman Service to America Medals (#Sammies2017). Although Lipman and the GenBank team weren’t featured in Medium.com or other news sources, they still made it to
UMLS identifiers now available
The Unified Medical Language System UMLS consolidates and standardizes health and biomedical vocabularies from several important resources to enable interoperability between computer systems. Now you can use MyGene.info service to obtain UMLS Concept Unique Identifiers (CUIs).
Here are a few quick examples:
Information extraction and the missing Mark2Cure module
In our previous post, we asked readers, ‘What is your preferred moniker?’. Here is the response:
Mark2Curator: 36%
Citizen Scientist: 36%
Contributor: 18%
“Anything BUT volunpeer”: 10%
Although it may seem a little strange that researchers have been struggling to find an answer to the “What’s in a name?
New Data Release for MyVariant.info 201708
Another fresh data release for MyVariant.info is out! In this data release, we have updated the data from ClinVar and UniProtKB to their latest versions, and also added variant annotation from CIViC and Cancer Genome Interpreter. Here are more details.
Data Sources Updated
ClinVar was updated to its latest
Join Mark2Cure and Dazzle4Rare
From August 13th to August 20th, Mark2Cure will be participating in the #Dazzle4Rare campaign to raise awareness for rare diseases. Did you know? About 10% of the population lives with a rare disease, and roughly 50% of rare diseases don’t have any sort of disease-specific foundation to support or
Upcoming #CitSciChat on Biomedical Citizen Science
Join Mark2Cure, Cochrane Crowd, EyesOnAlz, Foldit, and CitSciBio as we discuss the challenges of applying citizen science to biomedical research
Integrating Wikidata and other linked data sources – Federated SPARQL queries
This blog is about running federated SPARQL queries on Wikidata. A federated query is a special type of SPARQL query that runs on more then one SPARQL endpoint. It allows access to multiple linked data resources in a single query. Below is a template of a federated...