We provide a set of centrally-maintained scientific reference databases for Biowulf users. You can search through this data here. To request a new database or an update, please contact us at staff@hpc.nih.gov.
| Search by keyword | Searches through metadata using keywords |
| Search by filename | Searches through filenames where available |
| 2023-05-30 | taxonomy | The Taxonomy Database is a curated classification and nomenclature for all of the organisms in the public sequence databases. |
| 2023-05-28 | UCSC goldenPath | The UCSC Genomics Institute maintains a broad collection of vertebrate and model organism assemblies and annotations, along with a large suite of tools for viewing, analyzing and downloading data. |
| 2023-05-26 | I-TASSER ITLIB | I-TASSER Template Library for Protein Structure and Function Prediction |
| 2023-05-25 | UCSC gbdb | The UCSC Genomics Institute maintains a broad collection of vertebrate and model organism assemblies and annotations, along with a large suite of tools for viewing, analyzing and downloading data. |
| 2023-05-09 | Betacoronavirus | Blast database of Betacoronavirus nucleotide sequences. (Blast database full path and name - /fdb/blastdb/Betacoronavirus) |
| 2023-05-09 | colabfold sequence databases | Databases used by colabfold for MSA generation with mmseqs2. |
| 2023-05-09 | dbNSFP | dbNSFP is a database developed for functional prediction and annotation of all potential non-synonymous single-nucleotide variants (nsSNVs) in the human genome. |
| 2023-05-09 | NCBI nt Blast database | NCBI nonredundant comprehensive nucleotide database, compiled from Genbank, Refseq, TPA and PDB. (Blast database full path and name - /fdb/blastdb/nt ) |
| 2023-05-09 | Patent nucleotide sequences Blast db | Patent nucleotide sequences (Blast database full path and name - /fdb/blastdb/patnt ) |
| 2023-05-09 | PDB nucleotide sequences Blast db | Protein Data Bank nucleotide sequences. (Blast database full path and name - /fdb/blastdb/pdbnt ) |
| 2023-05-09 | PDB protein sequences Blast db | Protein Data Bank sequences. (Blast database full path and name - /fdb/blastdb/pdbaa ) |
| 2023-05-09 | Swissprot Blast database | Curated, highly-annotated protein sequence database (Blast database full path and name - /fdb/blastdb/swissprot ) |
| 2023-05-08 | NCBI nr Blast database | NCBI nonredundant comprehensive protein database, compiled from GenBank CDS translations, PDB, Swiss-Prot, PIR, and PRF (Blast database full path and name - /fdb/blastdb/nr ) |
| 2023-05-01 | diamond | Select reference databases for the diamond application |
| 2023-04-24 | annovar | ANNOVAR is an efficient software tool to utilize update-to-date information to functionally annotate genetic variants detected from diverse genomes. |
| 2023-04-20 | Standard databases for foldseek | foldseek provided databases for AlphafoldDB (Swiss-Prot, Proteome, and others) |
| 2023-04-17 | funseq2 | A flexible framework to prioritize regulatory mutations from cancer genome sequencing |
| 2023-04-08 | graphsite | [Not available] |
| 2023-02-22 | intogen | intogen is collecting data from TCGA, PCAWG, cBioPortal, Hartwig Medical Foundation, ICGC, St.Jude, PedcBioPortal, TARGET, Beat AML, and Literature. |
| 2023-02-22 | refdb | the data is collecting data from TCGA, PCAWG, cBioPortal, Hartwig Medical Foundation, ICGC, St.Jude, PedcBioPortal, TARGET, Beat AML, and Literature. |