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CBS Software Download

The prediction services listed below are available as stand-alone software packages to install and run at the user's site, with the same functionality as the on-line servers. Ready-to-ship packages exist for the most common UNIX platforms. In order to download software click on the appropriate link in the list below.

We only send software to people via this system. If your institution is not listed on our white list, you can ask someone in charge at your institution to request us to add it to the white list. If the email system at your institution does not accept zipped and/or big files, then we can not help you (contact the sys admin at your institution). We do not send software to private mail accounts.

Please note that the prediction services for which no software packages exist are not shown on this page. Activate the 'Services' tab above to view the complete list of services.

For some services, programmatic access is provided in the form of SOAP-based Web Services. Activate the 'SOAP WS' tab above for instructions on how to access the servers with SOAP.


NUCLEOTIDE SEQUENCES

Gene finding and splice sites

EasyGene
Genes in prokaryotes
HMMgene
Genes in eukaryotes
NetGene2
Intron splice sites in human, C. elegans and A. thaliana DNA
NetStart
Translation start in vertebrate and A. thaliana DNA
Promoter
Transcription start sites in vertebrate DNA
RNAmmer
Ribosomal RNA sub units

Analysis of DNA microarray data

OligoWiz
Design of oligonucleotides for DNA microarrays

 

AMINO ACID SEQUENCES

Protein sorting

ChloroP
Chloroplast transit peptides and their cleavage sites in plant proteins
LipoP
Signal peptidase I & II cleavage sites in gram- bacteria
SecretomeP
Non-classical and leaderless secretion of proteins
SignalP
Signal peptide and cleavage sites in gram+, gram- and eukaryotic amino acid sequences
TargetP
Subcellular location of proteins: mitochondrial, chloroplastic, secretory pathway, or other

Post-translational modifications of proteins

NetCGlyc
C-mannosylation sites in mammalian proteins
NetNGlyc
N-linked glycosylation sites in human proteins
NetOGlyc
O-GalNAc (mucin type) glycosylation sites in mammalian proteins
NetPhos
Generic phosphorylation sites in eukaryotic proteins
ProP
Arginine and lysine propeptide cleavage sites in eukaryotic protein sequences
YinOYang
O-(beta)-GlcNAc glycosylation and Yin-Yang sites (intracellular/nuclear proteins)

Immunological features

BepiPred
Linear B-cell epitopes
DiscoTope
Discontinuous B-cell epitopes
NetChop
Proteasomal cleavages (MHC ligands)
NetCTL
Integrated class I antigen presentation
NetCTLpan
Pan-specific integrated class I antigen presentation
NetMHC
Binding of peptides to MHC class I alleles
NetMHCII
Binding of peptides to MHC class II alleles
NetMHCIIpan
Pan-specific binding of peptides to MHC class II alleles of known sequence
NetMHCpan
Pan-specific binding of peptides to MHC class I alleles of known sequence
VDJsolver
Analysis of human immunoglobulin VDJ recombination

Protein function and structure

Cofactory
Identification of Rossmann folds and prediction of FAD, NAD and NADP specificity
NetSurfP
Protein secondary structure and relative solvent accessibility
TMHMM
Transmembrane helices in proteins