NCBI Taxonomy

Submitted by mary_garcia on Fri, 2010-09-03 17:24

Contains the names and phylogenetic lineages of more than 160,000 organisms that have molecular data in the NCBI databases. New taxa are added to the Taxonomy database as data are deposited for them.

General information
Vocabulary type: 
Classification System
Author or Editor: 
NCBI, Nat'l Institutes of Health, US Government
Vocabulary URL: 

http://www.ncbi.nlm.nih.gov/guide/taxonomy/

Vocabulary Sample URL: 

http://www.ncbi.nlm.nih.gov/Taxonomy/CommonTree/wwwcmt.cgi

Was vocabulary created as a course project: 
No
Scope and Usage
Major subjects covered: 

living organisms

Purpose: 

The NCBI taxonomy database contains the names of all organisms that are represented in the genetic databases with at least one nucleotide or protein sequence. Click on the tree if you want to browse the taxonomic structure or retrieve sequence data for a particular group of organisms.

 

Vocabulary characteristics
Type of display : 
Full term records
Other
Description of overall structure: 

database

Type of terms: 

organism name

Relationship types: 
Hierarchical (Broader/narrower terms)
Number of terms: 
160,000
Number of preferred terms: 
160,000
Characteristics Comments: 

Classic taxonomy of living things; Displays the genetic codes for organisms in the Taxonomy database in tables and on a taxonomic tree.

Terms and Conditions
Availability: 
available online and for download
Comments, Availability: 

Taxonomy Browser supports searching the taxonomy tree using partial taxonomic names, common names, wild cards and phonetically similar names. For each taxonomic node, the tool provides links to all data in Entrez for that node, displays the lineage, and provides links to external sites related to the node.

Purchase/Subscription Price: 
no cost
Import/download instructions : 

This site contains the full taxonomy database along with files associating nucleotide and protein sequence records with their taxonomy IDs. See the taxdump_readme.txt and gi_taxid.readme files for more information.
ftp://ftp.ncbi.nih.gov/pub/taxonomy/ 

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