Japanese SNPs DB by IMS and JST (Prof. Nakamura's group)
Database of human transcriptional start sites and full-length cDNAs (Profs Sugano and Nakai)
- 1000 Genomes
1000 Genomes database (JPT only) by 1000 Genomes Project.
Resources provided at NCBI (National Center for Biotechnology Information) including Genomes, SNP, Taxonomy, GEO etc. in addition to the GenBank, RefSeq, and UniGene databases.
Nucleotide sequence database by EMBL/EBI.
Integrated peptide sequence database by SIB/EBI.
3D structure database by wwPDB (RCSB, EBI, PDBj).
Eukaryotic genome database by Sanger/EBI.
- Golden Path
Human genome database by UCSC.
- Pfam, Rfam
Pfam: Protein family database by Washington University.
Rfam: RNA family database by Washington University.
Integrated protein family database by EBI.
Protein motif and profile database by SIB.
Eukaryotic promoter database by SIB.
Similarity search program package BLAST and its compiled databases.
Similarity search program package FASTA, also including SSEARCH.
- ClustalW, ClustalX
ClustalW: Multiple sequence alignment program.
ClustalX: Graphical user interface for the ClustalW.
Phylogenetic analysis program package.
- HMMER, INFERNAL
HMMER: Protein family search program by profile hidden Markov models.
INFERNAL: RNA family search program by covariance models.
Integrated program package for sequence analysis.
Protein family search program for the InterPro database.
- exonerate, Wise2
exonerate: Generic sequence comparison program including protein to genomic DNA mapping.
Wise2: Program for comparing a protein sequence to a genomic DNA.
Program for discovering motifs within the sequences.
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