Find the species and database for a single identifier e.g. gene, transcript, protein
Name | Type | Description | Default | Example Values |
---|---|---|---|---|
id | String | An Ensembl stable ID | - |
ENSG00000157764 |
Name | Type | Description | Default | Example Values |
---|---|---|---|---|
callback | String | Name of the callback subroutine to be returned by the requested JSONP response. Required ONLY when using JSONP as the serialisation method. Please see the user guide. | - |
randomlygeneratedname |
db_type | String | Restrict the search to a database other than the default. Useful if you need to use a DB other than core | - |
core otherfeatures |
expand | Boolean(0,1) | Expands the search to include any connected features. e.g. If the object is a gene, its transcripts, translations and exons will be returned as well. | 0 | - |
format | Enum(full,condensed) | Specify the formats to emit from this endpoint | full | - |
mane | Boolean(0,1) | Include MANE features. Only available if the expand option is used. | 0 | - |
phenotypes | Boolean(0,1) | Include phenotypes. Only available for gene objects. | 0 | - |
species | String | Species name/alias | - |
homo_sapiens human |
utr | Boolean(0,1) | Include 5' and 3' UTR features. Only available if the expand option is used. | 0 | - |
use strict; use warnings; use HTTP::Tiny; my $http = HTTP::Tiny->new(); my $server = 'http://grch37.rest.ensembl.org'; my $ext = '/lookup/id/ENSG00000157764?expand=1'; my $response = $http->get($server.$ext, { headers => { 'Content-type' => 'application/json' } }); die "Failed!\n" unless $response->{success}; use JSON; use Data::Dumper; if(length $response->{content}) { my $hash = decode_json($response->{content}); local $Data::Dumper::Terse = 1; local $Data::Dumper::Indent = 1; print Dumper $hash; print "\n"; }
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?expand=1" r = requests.get(server+ext, headers={ "Content-Type" : "application/json"}) if not r.ok: r.raise_for_status() sys.exit() decoded = r.json() print repr(decoded)
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?expand=1" r = requests.get(server+ext, headers={ "Content-Type" : "application/json"}) if not r.ok: r.raise_for_status() sys.exit() decoded = r.json() print(repr(decoded))
require 'net/http' require 'uri' server='http://grch37.rest.ensembl.org' path = '/lookup/id/ENSG00000157764?expand=1' url = URI.parse(server) http = Net::HTTP.new(url.host, url.port) request = Net::HTTP::Get.new(path, {'Content-Type' => 'application/json'}) response = http.request(request) if response.code != "200" puts "Invalid response: #{response.code}" puts response.body exit end require 'rubygems' require 'json' require 'yaml' result = JSON.parse(response.body) puts YAML::dump(result)
import java.net.URL; import java.net.URLConnection; import java.net.HttpURLConnection; import java.io.BufferedReader; import java.io.InputStream; import java.io.InputStreamReader; import java.io.IOException; import java.io.Reader; public class EnsemblRest { public static void main(String[] args) throws Exception { String server = "http://grch37.rest.ensembl.org"; String ext = "/lookup/id/ENSG00000157764?expand=1"; URL url = new URL(server + ext); URLConnection connection = url.openConnection(); HttpURLConnection httpConnection = (HttpURLConnection)connection; httpConnection.setRequestProperty("Content-Type", "application/json"); InputStream response = connection.getInputStream(); int responseCode = httpConnection.getResponseCode(); if(responseCode != 200) { throw new RuntimeException("Response code was not 200. Detected response was "+responseCode); } String output; Reader reader = null; try { reader = new BufferedReader(new InputStreamReader(response, "UTF-8")); StringBuilder builder = new StringBuilder(); char[] buffer = new char[8192]; int read; while ((read = reader.read(buffer, 0, buffer.length)) > 0) { builder.append(buffer, 0, read); } output = builder.toString(); } finally { if (reader != null) try { reader.close(); } catch (IOException logOrIgnore) { logOrIgnore.printStackTrace(); } } System.out.println(output); } }
library(httr) library(jsonlite) library(xml2) server <- "http://grch37.rest.ensembl.org" ext <- "/lookup/id/ENSG00000157764?expand=1" r <- GET(paste(server, ext, sep = ""), content_type("application/json")) stop_for_status(r) # use this if you get a simple nested list back, otherwise inspect its structure # head(data.frame(t(sapply(content(r),c)))) head(fromJSON(toJSON(content(r))))
curl 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?expand=1' -H 'Content-type:application/json'
wget -q --header='Content-type:application/json' 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?expand=1' -O -
use strict; use warnings; use HTTP::Tiny; my $http = HTTP::Tiny->new(); my $server = 'http://grch37.rest.ensembl.org'; my $ext = '/lookup/id/ENSG00000157764?'; my $response = $http->get($server.$ext, { headers => { 'Content-type' => 'application/json' } }); die "Failed!\n" unless $response->{success}; use JSON; use Data::Dumper; if(length $response->{content}) { my $hash = decode_json($response->{content}); local $Data::Dumper::Terse = 1; local $Data::Dumper::Indent = 1; print Dumper $hash; print "\n"; }
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?" r = requests.get(server+ext, headers={ "Content-Type" : "application/json"}) if not r.ok: r.raise_for_status() sys.exit() decoded = r.json() print repr(decoded)
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?" r = requests.get(server+ext, headers={ "Content-Type" : "application/json"}) if not r.ok: r.raise_for_status() sys.exit() decoded = r.json() print(repr(decoded))
require 'net/http' require 'uri' server='http://grch37.rest.ensembl.org' path = '/lookup/id/ENSG00000157764?' url = URI.parse(server) http = Net::HTTP.new(url.host, url.port) request = Net::HTTP::Get.new(path, {'Content-Type' => 'application/json'}) response = http.request(request) if response.code != "200" puts "Invalid response: #{response.code}" puts response.body exit end require 'rubygems' require 'json' require 'yaml' result = JSON.parse(response.body) puts YAML::dump(result)
import java.net.URL; import java.net.URLConnection; import java.net.HttpURLConnection; import java.io.BufferedReader; import java.io.InputStream; import java.io.InputStreamReader; import java.io.IOException; import java.io.Reader; public class EnsemblRest { public static void main(String[] args) throws Exception { String server = "http://grch37.rest.ensembl.org"; String ext = "/lookup/id/ENSG00000157764?"; URL url = new URL(server + ext); URLConnection connection = url.openConnection(); HttpURLConnection httpConnection = (HttpURLConnection)connection; httpConnection.setRequestProperty("Content-Type", "application/json"); InputStream response = connection.getInputStream(); int responseCode = httpConnection.getResponseCode(); if(responseCode != 200) { throw new RuntimeException("Response code was not 200. Detected response was "+responseCode); } String output; Reader reader = null; try { reader = new BufferedReader(new InputStreamReader(response, "UTF-8")); StringBuilder builder = new StringBuilder(); char[] buffer = new char[8192]; int read; while ((read = reader.read(buffer, 0, buffer.length)) > 0) { builder.append(buffer, 0, read); } output = builder.toString(); } finally { if (reader != null) try { reader.close(); } catch (IOException logOrIgnore) { logOrIgnore.printStackTrace(); } } System.out.println(output); } }
library(httr) library(jsonlite) library(xml2) server <- "http://grch37.rest.ensembl.org" ext <- "/lookup/id/ENSG00000157764?" r <- GET(paste(server, ext, sep = ""), content_type("application/json")) stop_for_status(r) # use this if you get a simple nested list back, otherwise inspect its structure # head(data.frame(t(sapply(content(r),c)))) head(fromJSON(toJSON(content(r))))
curl 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?' -H 'Content-type:application/json'
wget -q --header='Content-type:application/json' 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?' -O -
use strict; use warnings; use HTTP::Tiny; my $http = HTTP::Tiny->new(); my $server = 'http://grch37.rest.ensembl.org'; my $ext = '/lookup/id/ENSG00000157764?format=condensed;db_type=core'; my $response = $http->get($server.$ext, { headers => { 'Content-type' => 'text/xml' } }); die "Failed!\n" unless $response->{success}; print "$response->{content}\n";
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?format=condensed;db_type=core" r = requests.get(server+ext, headers={ "Content-Type" : "text/xml"}) if not r.ok: r.raise_for_status() sys.exit() print r.text
import requests, sys server = "http://grch37.rest.ensembl.org" ext = "/lookup/id/ENSG00000157764?format=condensed;db_type=core" r = requests.get(server+ext, headers={ "Content-Type" : "text/xml"}) if not r.ok: r.raise_for_status() sys.exit() print(r.text)
require 'net/http' require 'uri' server='http://grch37.rest.ensembl.org' path = '/lookup/id/ENSG00000157764?format=condensed;db_type=core' url = URI.parse(server) http = Net::HTTP.new(url.host, url.port) request = Net::HTTP::Get.new(path, {'Content-Type' => 'text/xml'}) response = http.request(request) if response.code != "200" puts "Invalid response: #{response.code}" puts response.body exit end puts response.body
import java.net.URL; import java.net.URLConnection; import java.net.HttpURLConnection; import java.io.BufferedReader; import java.io.InputStream; import java.io.InputStreamReader; import java.io.IOException; import java.io.Reader; public class EnsemblRest { public static void main(String[] args) throws Exception { String server = "http://grch37.rest.ensembl.org"; String ext = "/lookup/id/ENSG00000157764?format=condensed;db_type=core"; URL url = new URL(server + ext); URLConnection connection = url.openConnection(); HttpURLConnection httpConnection = (HttpURLConnection)connection; httpConnection.setRequestProperty("Content-Type", "text/xml"); InputStream response = connection.getInputStream(); int responseCode = httpConnection.getResponseCode(); if(responseCode != 200) { throw new RuntimeException("Response code was not 200. Detected response was "+responseCode); } String output; Reader reader = null; try { reader = new BufferedReader(new InputStreamReader(response, "UTF-8")); StringBuilder builder = new StringBuilder(); char[] buffer = new char[8192]; int read; while ((read = reader.read(buffer, 0, buffer.length)) > 0) { builder.append(buffer, 0, read); } output = builder.toString(); } finally { if (reader != null) try { reader.close(); } catch (IOException logOrIgnore) { logOrIgnore.printStackTrace(); } } System.out.println(output); } }
library(httr) library(jsonlite) library(xml2) server <- "http://grch37.rest.ensembl.org" ext <- "/lookup/id/ENSG00000157764?format=condensed;db_type=core" r <- GET(paste(server, ext, sep = ""), content_type("text/xml")) stop_for_status(r) print(content(r))
curl 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?format=condensed;db_type=core' -H 'Content-type:text/xml'
wget -q --header='Content-type:text/xml' 'http://grch37.rest.ensembl.org/lookup/id/ENSG00000157764?format=condensed;db_type=core' -O -
Methods | GET |
Response formats | json xml jsonp |