Mock sample for your project: U.S. EPA Enforcement and Compliance History Online (ECHO) - Resource Conservation and Recovery Act API
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U.S. EPA Enforcement and Compliance History Online (ECHO) - Resource Conservation and Recovery Act
Version: 2019.10.15
Start working with "U.S. EPA Enforcement and Compliance History Online (ECHO) - Resource Conservation and Recovery Act API" right away by using this ready-to-use mock sample. API mocking can greatly speed up your application development by removing all the tedious tasks or issues: API key provisioning, account creation, unplanned downtime, etc.
It also helps reduce your dependency on third-party APIs and improves your integration tests' quality and reliability by accounting for random failures, slow response time, etc.
Description
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
RCRA Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on hazardous waste handlers/facilities regulated under the Resource Conservation and Recovery Act (RCRA). The returned results reflect data drawn from EPA's RCRAInfo database.
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The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
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The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
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1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
Other APIs by epa.gov
U.S. EPA Enforcement and Compliance History Online (ECHO) - Enforcement Case Search
epa.gov
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
CASE Rest Services provide multiple service endpoints, each with specific capabilities, to search and retrieve data on civil cases entered into the
Integrated Compliance Information System (ICIS) and criminal cases entered into the Summary of Criminal Prosecutions database.
See Enforcement Case Search Help (https://echo.epa.gov/help/enforcement-case-search-help) for additional information on searching civil and criminal cases.
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The getcases, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getcaseinfo end point is self contained..
The recommended use scenario for getcases, getqid, getmap, and getdownoad is:
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1) Use getcases to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of case results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates, related to the returned cases, that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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In addition to the service endpoints listed above there are two detailed case report services, one for civil cases (getcasereport) and one for criminal cases (getcrcasereport).
See the Civil Enforcement Case Report Help (https://echo.epa.gov/help/reports/enforcement-case-report-help) and the Criminal Case Report Help (https://echo.epa.gov/help/reports/criminal-case-report-help) for additional information
on then data returned from these two services.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
CASE Rest Services provide multiple service endpoints, each with specific capabilities, to search and retrieve data on civil cases entered into the
Integrated Compliance Information System (ICIS) and criminal cases entered into the Summary of Criminal Prosecutions database.
See Enforcement Case Search Help (https://echo.epa.gov/help/enforcement-case-search-help) for additional information on searching civil and criminal cases.
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The getcases, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getcaseinfo end point is self contained..
The recommended use scenario for getcases, getqid, getmap, and getdownoad is:
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1) Use getcases to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of case results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates, related to the returned cases, that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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In addition to the service endpoints listed above there are two detailed case report services, one for civil cases (getcasereport) and one for criminal cases (getcrcasereport).
See the Civil Enforcement Case Report Help (https://echo.epa.gov/help/reports/enforcement-case-report-help) and the Criminal Case Report Help (https://echo.epa.gov/help/reports/criminal-case-report-help) for additional information
on then data returned from these two services.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - Clean Air Act
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
Air Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated under the Clean Air Act (CAA). The returned results reflect data drawn from EPA's ICIS-Air database.
The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
Air Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated under the Clean Air Act (CAA). The returned results reflect data drawn from EPA's ICIS-Air database.
The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - Effluent Charting and Reporting
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use.
ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
EFF Rest Services provides the data for ECHO's Effluent Charts, a set of dynamic charts and tables of permitted effluent limits, releases, and violations over time for Clean Water Act (CWA) wastewater discharge permits issued under the National Pollutant Discharge Elimination System (NPDES).
See Effluent Charts Help (https://echo.epa.gov/help/reports/effluent-charts-help) for additional information.
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The are 3 service end points for Effluent Charts: getsummarychart, geteffluentchart, and downloadeffluentchart.
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1) Use getsummarychart to retrieve a summary matrix of effluent parameters by effluent outfall and an overall violation status for a provided NPDES Permit and date range.
2) Use geteffluentchart to retrieve detailed Discharge Limit, DMR and NPDES Violation information for a provided NPDES Permit, date range, effluent parameter, or outfall.
3) Use downloadeffluentchart to generate a Comma Separated Value (CSV) file of the detailed data provided with get_effluent chart, for a provided NPDES Permit, date range, effluent parameter, or outfall.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
EFF Rest Services provides the data for ECHO's Effluent Charts, a set of dynamic charts and tables of permitted effluent limits, releases, and violations over time for Clean Water Act (CWA) wastewater discharge permits issued under the National Pollutant Discharge Elimination System (NPDES).
See Effluent Charts Help (https://echo.epa.gov/help/reports/effluent-charts-help) for additional information.
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The are 3 service end points for Effluent Charts: getsummarychart, geteffluentchart, and downloadeffluentchart.
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1) Use getsummarychart to retrieve a summary matrix of effluent parameters by effluent outfall and an overall violation status for a provided NPDES Permit and date range.
2) Use geteffluentchart to retrieve detailed Discharge Limit, DMR and NPDES Violation information for a provided NPDES Permit, date range, effluent parameter, or outfall.
3) Use downloadeffluentchart to generate a Comma Separated Value (CSV) file of the detailed data provided with get_effluent chart, for a provided NPDES Permit, date range, effluent parameter, or outfall.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - Detailed Facility Report (DFR)
epa.gov
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
DFR Rest Services provide multiple service endpoints, to retrieve detailed facility location, enforcement, compliance monitoring, and pollutant information for any single facility. See the Detailed Facility Report (DFR) Help Page (https://echo.epa.gov/help/reports/detailed-facility-report-help) for additional information on the DFR. Additionally, a Data Dictionary (https://echo.epa.gov/help/reports/dfr-data-dictionary) is also available.
There is one primary service end point, get_dfr, that provides all available DFR data. All other service end points that are exposed, will return data on a single section of the DFR.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
DFR Rest Services provide multiple service endpoints, to retrieve detailed facility location, enforcement, compliance monitoring, and pollutant information for any single facility. See the Detailed Facility Report (DFR) Help Page (https://echo.epa.gov/help/reports/detailed-facility-report-help) for additional information on the DFR. Additionally, a Data Dictionary (https://echo.epa.gov/help/reports/dfr-data-dictionary) is also available.
There is one primary service end point, get_dfr, that provides all available DFR data. All other service end points that are exposed, will return data on a single section of the DFR.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - Safe Drinking Water Act
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
SDW Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on public water systems regulated under the Safe Drinking Water Act (SDWA). The returned results reflect data drawn from EPA's Federal Safe Drinking Water Information System (SDWIS) database.
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The getsystems, getqid, and get_download end points are meant to be used together.
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The recommended use scenario for getsystems, getqid, and get_downoad is:
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1) Use getsystems to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of water system results.
3) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of water system information that meets the QID query criteria.
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Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
SDW Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on public water systems regulated under the Safe Drinking Water Act (SDWA). The returned results reflect data drawn from EPA's Federal Safe Drinking Water Information System (SDWIS) database.
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The getsystems, getqid, and get_download end points are meant to be used together.
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The recommended use scenario for getsystems, getqid, and get_downoad is:
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1) Use getsystems to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of water system results.
3) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of water system information that meets the QID query criteria.
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Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - Clean Water Act (CWA) Rest Services
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
CWA Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated under the Clean Water Act (CWA) and managed under the National Pollutant Discharge Elimination System (NPDES) program. The returned results reflect data drawn from EPA's ICIS-NPDES database.
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The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
\
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
\
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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\
Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
CWA Rest Services provides multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated under the Clean Water Act (CWA) and managed under the National Pollutant Discharge Elimination System (NPDES) program. The returned results reflect data drawn from EPA's ICIS-NPDES database.
\
The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
\
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
\
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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\
Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
U.S. EPA Enforcement and Compliance History Online (ECHO) - All Data
Enforcement and Compliance History Online (ECHO) is a tool developed and maintained by EPA's Office of Enforcement and Compliance Assurance for public use. ECHO provides integrated compliance and enforcement information for over 1 million regulated facilities nationwide.
ECHO Rest Services provide multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated as Clean Air Act (CAA) stationary sources, Clean Water Act (CWA) dischargers, Resource Conservation and Recovery Act (RCRA) hazardous waste generators/handlers, and Safe Drinking Water Act (SDWA) public water systems. Data of interest from other EPA sources, such as the Toxics Release Inventory, is also supplied for context.
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The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
\
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
\
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
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Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
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Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
ECHO Rest Services provide multiple service endpoints, each with specific capabilities, to search and retrieve data on facilities regulated as Clean Air Act (CAA) stationary sources, Clean Water Act (CWA) dischargers, Resource Conservation and Recovery Act (RCRA) hazardous waste generators/handlers, and Safe Drinking Water Act (SDWA) public water systems. Data of interest from other EPA sources, such as the Toxics Release Inventory, is also supplied for context.
\
The getfacilities, getmap, getqid, and getdownload end points are meant to be used together, while the enhanced getfacilityinfo end point is self contained.
The getfacilityinfo end point returns either an array of state, county or zip clusters with summary statistics per cluster or an array of facilities.
\
The recommended use scenario for getfacilities, getqid, getmap, and getdownoad is:
\
1) Use getfacilities to validate passed query parameters, obtain summary statistics and to obtain a queryid (QID). QIDs are time sensitive and will be valid for approximately 30 minutes.
2) Use get_qid, with the returned QID, to paginate through arrays of facility results.
3) Use get_map, with the returned QID, to zoom in/out and pan on the clustered and individual facility coordinates that meet the QID query criteria.
4) Use get_download, with the returned QID, to generate a Comma Separated Value (CSV) file of facility information that meets the QID query criteria.
\
\
Use the qcolumns parameter to customize your search results. Use the Metadata service endpoint for a list of available output objects, their Column Ids, and their definitions to help you build your customized output.
\
Additional ECHO Resources: Web Services, About ECHO's Data, Data Downloads
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CROssBAR Data API
ebi.ac.uk
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.
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.