GlycomeDB – integration of open-access carbohydrate structure databases

BMC Bioinformatics

Table 2 Taxonomic annotations obtained from source databases

Database	Taxonomy data format	Structures with taxonomic annotation	Unique species names or IDs	Unique NCBI taxonomy IDs
BCSDB	NCBI ID	6747	451	451
CarbBank	free text	13521	2471	1594
CFG	free text	2966	273	240
GlycoBase (Lille)	free text	178	13	13
GLYCOSCIENCES.de	NCBI ID	5384	312	312

Five source databases provided taxonomic annotations in the format listed. For each database the numbers listed are: total structures with taxonomic annotations (column 3), unique species names or IDs found (column 4), and unique NCBI taxonomy IDs remaining after data integration and standardization in GlycomeDB (column 5). The large difference between the number of free-text names and assigned NCBI IDs is a result of the usage of different names for the same species and names which could not be translated to NCBI taxonomy IDs.

ISSN: 1471-2105