GET cafe/genetree/member/id/:id

Retrieves the cafe tree of the gene tree that contains the gene / transcript / translation stable identifier

Parameters

Required

NameTypeDescriptionDefaultExample Values
id String An Ensembl stable ID - ENSG00000167664

Optional

NameTypeDescriptionDefaultExample 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
compara String Name of the compara database to use. Multiple comparas can exist on a server if you are accessing Ensembl Genomes data multi (if using Ensembl) multi
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
nh_format The format of a NH (New Hampshire) request. Available only with the default setting to allow us to return the cafe tree with Taxa names appended with number of members and the p_value. example : homo_sapiens_3_0.123 where 3 is the number of members and 0.123 is the p value Preset with default cafe parameters -
object_type String Filter by feature type - gene
transcript
species String Species name/alias - homo_sapiens
human

Example Requests

/cafe/genetree/member/id/ENSG00000157764?content-type=application/json


use strict;
use warnings;

use HTTP::Tiny;

my $http = HTTP::Tiny->new();

my $server = 'http://grch37.rest.ensembl.org';
my $ext = '/cafe/genetree/member/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 = "/cafe/genetree/member/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 = "/cafe/genetree/member/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 = '/cafe/genetree/member/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 = "/cafe/genetree/member/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);
  }
}


curl 'http://grch37.rest.ensembl.org/cafe/genetree/member/id/ENSG00000157764?' -H 'Content-type:application/json'

wget -q --header='Content-type:application/json' 'http://grch37.rest.ensembl.org/cafe/genetree/member/id/ENSG00000157764?'  -O -

/cafe/genetree/member/id/ENSG00000157764?content-type=text/x-nh;nh_format=simple


use strict;
use warnings;

use HTTP::Tiny;

my $http = HTTP::Tiny->new();

my $server = 'http://grch37.rest.ensembl.org';
my $ext = '/cafe/genetree/member/id/ENSG00000157764?nh_format=simple';
my $response = $http->get($server.$ext, {
  headers => { 'Content-type' => 'text/x-nh' }
});

die "Failed!\n" unless $response->{success};


print "$response->{status} $response->{reason}\n";

import requests, sys

server = "http://grch37.rest.ensembl.org"
ext = "/cafe/genetree/member/id/ENSG00000157764?nh_format=simple"

r = requests.get(server+ext, headers={ "Content-Type" : "text/x-nh"})

if not r.ok:
  r.raise_for_status()
  sys.exit()


print r.text

import requests, sys

server = "http://grch37.rest.ensembl.org"
ext = "/cafe/genetree/member/id/ENSG00000157764?nh_format=simple"

r = requests.get(server+ext, headers={ "Content-Type" : "text/x-nh"})

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 = '/cafe/genetree/member/id/ENSG00000157764?nh_format=simple'

url = URI.parse(server)
http = Net::HTTP.new(url.host, url.port)

request = Net::HTTP::Get.new(path, {'Content-Type' => 'text/x-nh'})

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 = "/cafe/genetree/member/id/ENSG00000157764?nh_format=simple";
    URL url = new URL(server + ext);

    URLConnection connection = url.openConnection();
    HttpURLConnection httpConnection = (HttpURLConnection)connection;
    
    httpConnection.setRequestProperty("Content-Type", "text/x-nh");
    

    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);
  }
}


curl 'http://grch37.rest.ensembl.org/cafe/genetree/member/id/ENSG00000157764?nh_format=simple' -H 'Content-type:text/x-nh'

wget -q --header='Content-type:text/x-nh' 'http://grch37.rest.ensembl.org/cafe/genetree/member/id/ENSG00000157764?nh_format=simple'  -O -

Resource Information

MethodsGET
Response formatsnh
json
jsonp