Additional NCBI BLAST databases
Users may want to install additional BLAST databases from the NCBI using the
update_blastdb.pl program. First, log in to your running
instance via ssh and run the
commands below :
cd /blast/blastdb_custom
update_blastdb.pl --decompress --passive <dbname>
The table below shows some of the available BLAST databases via this method (subject to change without notice). To see all available BLAST databases, please run the command update_blastdb.pl --showall --passive.
| Name | Title | Type |
|---|---|---|
| 16SMicrobial | 16S ribosomal RNA sequences from bacteria and archaea (RefSeq) | DNA |
| landmark | The landmark database includes proteomes from 27 genomes spanning a wide taxonomic range | Protein |
| human_genomic | Assembled human chromosomes from Reference and Genbank for various individuals, along with their scaffold components. | DNA |
| refseqgene | Genomic sequences for selected genes records from NCBI RefSeq project (NG accessioned), containing additional up- and downstream sequences beyond the transcribed region. | DNA |
| vector | A database contains common vector sequences found in the GenBank/EMBL/DDBJ. | DNA |
| pataa | Protein sequences from patents as supplied by USPTO. Its entries are EXCLUDED from the nr database. | Protein |
| patnt | The patent nucleotide sequence database contains entries from USPTO through GenBank or from EU/Japan Patent Agencies through EMBL/DDBJ. Entries are EXCLUDED from the nt database. | DNA |
| tsa_nr | Protein sequences from annotated on the transcriptome shotgun assembly. Its entries are EXCLUDED from the nr database. | Protein |
| tsa_nt | A database with earlier non-project based Transcriptome Sequence Assembly entries. Entries are EXCLUDED from the nt database. | DNA |
| env_nr | Protein sequences from large environmental sequencing projects, e.g., Sargasso Sea, Acid Mine Drainage. Its entries are EXCLUDED from the nr database. | Protein |
| env_nt | Nucleotide sequences from large environmental sequence projects, such as Sargasso Sea and Acid Mine Drainage. Its entries are EXCLUDED from the nt database. | DNA |