Mock sample for your project: CROssBAR Data API
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CROssBAR Data API
ebi.ac.uk
Version: 1.0
Integrate third-party APIs faster by using "CROssBAR Data API" ready-to-use mock sample. Mocking this API will allow you to start working in no time. No more accounts to create, API keys to provision, accesses to configure, unplanned downtime, just work.
Improve your integration tests by mocking third-party APIs and cover more edge cases: slow response time, random failures, etc.
Description
About CROssBAR & data
CROssBAR: Comprehensive Resource of Biomedical Relations with Deep Learning Applications and Knowledge Graph Representations
CROssBAR is a comprehensive system that integrates large-scale biomedical data from various resources e.g UniProt, ChEMBL, Drugbank, EFO, HPO, InterPro & PubChem and stores them in a new NoSQL database, enrich these data with deep learning based prediction of relations between numerous biomedical entities, rigorously analyse the enriched data to obtain biologically meaningful modules and display them to the user via easy to interpret, interactive and heterogeneous knowledge graphs.
CROssBAR platform exposes a set of 12 endpoints to query data stored in the CROssBAR database. These endpoints help the user to find data of interest using different parameters provided by the API endpoint.
For example,
https://www.ebi.ac.uk/tools/crossbar/proteins?accession=A0A023GRW5 -> will provide protein information about accession 'A0A023GRW5' including its interactions, functions, cross-references, variations and more.
https://www.ebi.ac.uk/tools/crossbar/activities?moleculeChemblId=CHEMBL465983 -> will provide ChEMBL bio-interactions related information including targets and bio-activity measurements associated with molecule chembl id 'CHEMBL465983'
Knowledge graphs
Another use case of CROssBAR's API endpoints is in building knowledge graphs. These endpoints can be weaved together (output from one API endpoint fed as input to another API endpoint) programmatically to link nodes like protein, disease, drugs etc. as nodes of the graph. The endpoints are designed to be independent from each other which allows users the flexibility to drive biological networks from any facet e.g drug-centric, disease-centric, gene-centric etc. Our service for knowledge graph construction is available at https://crossbar.kansil.org.
An example for the part of the background queries on the CROssBAR API during the construction of a knowledge graph,
(with the aim of keeping the example simple, we have only included the processes related to pathways, genes/proteins and drugs/compounds)
In this example, we would like to find bio-active compounds (with a pChEMBL value threshold of at least 6.0) & drugs targeting all proteins belonging to "WNT ligand biogenesis and trafficking" pathway (based on Reactome pathway annotations).
This can be achieved by using endpoints listed on this swagger documentation as illustrated in following steps-
Find bio-active compounds (with a pChEMBL value threshold of at least 6.0) & drugs targeting all proteins belonging to "WNT ligand biogenesis and trafficking" pathway (based on Reactome annotations)
This can be achieved by using endpoints listed on this swagger documentation as illustrated in following steps-
Get all proteins from â/proteinsâ API endpoint which have a reactome pathway name equal to "WNT ligand biogenesis and trafficking".
From the collection of uniprot protein accessions collected from step 1 above, we query â/targetsâ API endpoint to obtain the âtargetchemblidâs of these proteins.
From the collection of targetchemblids collected from step 2 above, we query â/activitiesâ API endpoint with pChEMBL value >=6, to obtain the âmoleculechemblidâs of the molecules that we need.
From the collection of uniprot protein accessions collected from step 1 above, we find out Drug names and ids from the â/drugsâ API endpoint that targets our proteins.
From the collection of âmoleculechemblidâs obtained in step3, we query â/moleculesâ endpoint to get the compounds that are interacting with the genes/proteins belonging to the âWNT ligand biogenesis and traffickingâ pathway.
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Veteran Confirmation
The API will only return âConfirmedâ or âNot Confirmedâ.
Quickstart Guide
1. Get Access Credentials
Get started by filling out the form on the Apply for VA Lighthouse Developer Access page.
After submitting a request, you will receive your credentials for using the API in the Development environment, which allows you to try it out with mock data before moving to the Production environment.
2. Test the API
In the endpoint documentation below, we've provided a curl command builder for trying out the API before implementation with your app.
Use Test User attributes to populate the request body.
3. Build your app
The base URI for the Veteran Confirmation API in the Sandbox environment is:
https://sandbox-api.va.gov/services/veteran_confirmation/v0
In this environment, use attributes from the list of Test Users. Only Test Users can return a "confirmed" response.
Check out some of our sample apps. Please visit our VA Lighthouse Support portal should you need further assistance.
4. Show us a demo and get access to the Production environment
After building your app, we ask that you give us a demo before we set you up with production credentials. Please see the Path to Production page for more details.
Authorization
This API requires an API key in combination with identifiable information for the person being confirmed listed below. API requests are authorized through a symmetric API token provided in an HTTP header with name apikey. Including more information has a better chance of making a match and returning a Confirmed status.
Required information:
First Name
Last Name
Date of Birth
Social Security Number
Optional information:
Middle Name
Gender
Reference
Sandbox vs. Production Data
APIs accessed via the Sandbox environment are using the same underlying logic as VAâs production APIs; only the underlying data store is different.
Master Veteran Index (MVI)
The Master Veteran Index confirms a user's identity. In Production, several factors are considered to confirm identity. These include: a userâs first name, last name, date of birth and Social Security number. The MVI is mocked in the Sandbox environment. In this environment, the only factor used to confirm identity is the Social Security number.
Rate Limiting
We implemented basic rate limiting of 60 requests per minute. If you exceed this quota, your request will return a 429 status code. You may petition for increased rate limits by emailing and requests will be decided on a case by case basis.
Raw Open API Spec
https://api.va.gov/services/veteran_confirmation/docs/v0/api