Anonymous FTP

Following software developed in Human Genome Center are available. HGC
ftp server provides mirrors of some databases.

Original Contents

Databases

JSNP
Japanese SNPs DB by IMS and JST (Prof. Nakamura's group)

>JSNP

DBTSS
Database of human transcriptional start sites and full-length cDNAs (Profs Sugano and Nakai)

>DBTSS

Mirrored Contents

Databases

1000 Genomes
1000 Genomes database (JPT only) by 1000 Genomes Project.

>1000 Genomes

NCBI
Resources provided at NCBI (National Center for Biotechnology Information) including Genomes, SNP, Taxonomy, GEO etc. in addition to the GenBank, RefSeq, and UniGene databases.

>NCBI

EMBL
Nucleotide sequence database by EMBL/EBI.

>EMBL

UniProt
Integrated peptide sequence database by SIB/EBI.

>UniProt

PDB
3D structure database by wwPDB (RCSB, EBI, PDBj).

>PDB

Ensembl
Eukaryotic genome database by Sanger/EBI.

>Ensembl

Golden Path
Human genome database by UCSC.

>Golden Path

Pfam, Rfam
Pfam: Protein family database by Washington University. Rfam: RNA family database by Washington University.

>Pfam, Rfam

InterPro
Integrated protein family database by EBI.

>InterPro

PROSITE
Protein motif and profile database by SIB.

>PROSITE

EPD
Eukaryotic promoter database by SIB.

>EPD

Software

NCBI
Similarity search program package BLAST and its compiled databases.

>NCBI

FASTA
Similarity search program package FASTA, also including SSEARCH.

>FASTA

ClustalW, ClustalX
ClustalW: Multiple sequence alignment program. ClustalX: Graphical user interface for the ClustalW.

>ClustalW, ClustalX

PHYLIP
Phylogenetic analysis program package.

>PHYLIP

HMMER, INFERNAL
HMMER: Protein family search program by profile hidden Markov models. INFERNAL: RNA family search program by covariance models.

>HMMER, INFERNAL

EMBOSS
Integrated program package for sequence analysis.

>EMBOSS

InterProScan
Protein family search program for the InterPro database.

>InterProScan

exonerate, Wise2
exonerate: Generic sequence comparison program including protein to genomic DNA mapping. Wise2: Program for comparing a protein sequence to a genomic DNA.

>exonerate, Wise2

MEME
Program for discovering motifs within the sequences.

>MEME

Top of Page Top of Page

The University of Tokyo The Institute of Medical Science

Copyright©2005-2017 Human Genome Center