Services
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Service Software Downloads
Gene finding and splice sites
- EasyGeneGene finding in prokaryotes
- HMMgenePrediction of vertebrate and C. elegans genes
- NetGene2Intron splice sites in human, C. elegans and A. thaliana DNA
- NetStartTranslation start in vertebrate and A. thaliana DNA
- PromoterTranscription start sites in vertebrate DNA
- RNAmmerPrediction of ribosomal RNA sub units
Immunological features
- LYRALymphocyte receptor automated modelling
- TCRpMHCmodelsStructural modeling tool of TCR-pMHC class I and class II complexes
- VDJSolverAnalysis of human immunoglobulin VDJ recombination
- BepiPredPrediction of potential B-cell epitopes from protein sequence
- DiscotopeImproved B-cell epitope prediction using AlphaFold2 modeling and inverse folding latent representations
- MAIT MatchCalculate similarity between CDR3 sequences and a reference database of MAIT sequences
- NetBoLApanPrediction of peptide interactions with bovine MHC class I (BoLA) molecules.
- NetCTLPredection of CTL epitopes in protein sequences
- NetCTLpanPan-specific integrated class I antigen presentation
- NetH2panPrediction of peptide interactions with murine MHC class I (H2) molecules.
- NetMHCNetMHC: Binding of peptides to MHC class I molecules
- NetMHCIIBinding of peptides to MHC class II molecules
- NetMHCIIpanPan-specific binding of peptides to HLA-DQ molecules of known sequence
- NetMHCconsBinding of peptides to any known MHC class I molecule
- NetMHCpanPan-specific binding of peptides to MHC class I alleles of known sequence
- NetMHCphosPanPan-specific binding of phosphorylated peptides to HLA class I molecules.
- NetMHCstabStability of peptide:MHC-I complexes
- NetMHCstabpanPan-specific stability of peptide:MHC-I complexes
- NetTepiT-cell epitopes restricted to prevalent HLA-A and HLA-B molecules
- NetChopProteasomal cleavages (MHC ligands)
- NNAlignDiscovering sequence motifs in biological sequences
- PickPocketBinding of peptides to any known MHC class I molecule using binding pocket matrix extrapolation
Post-translational modifications of proteins
- NetCGlycC-mannosylation sites in mammalian proteins
- NetNGlycN-linked glycosylation sites in human proteins
- NetOGlycO-GalNAc (mucin type) glycosylation sites in mammalian proteins
- NetPhosGeneric phosphorylation sites in eukaryotic proteins
- NetPhospanPrediction of phosphorylation using convolutional neural networks (CNNs).
- ProPArginine and lysine propeptide cleavage sites in eukaryotic protein sequences
- YinOYangO-(beta)-GlcNAc glycosylation and Yin-Yang sites (intracellular/nuclear proteins)
Protein function and structure
- CofactoryIdentification of Rossmann folds and prediction of FAD, NAD and NADP specificity
- NetSurfPProtein secondary structure and relative solvent accessibility
- NetTurnPAmino acid predection in β-turns and β-turn types in proteins
- TMHMMPrediction of transmembrane helices in proteins
Protein sorting
- ChloroPChloroplast transit peptides and their cleavage sites in plant proteins
- DeepLocPrediction of eukaryotic protein subcellular localization using deep learning
- LipoPSignal peptidase I & II cleavage sites in gram- bacteria
- MsrescueA Computational Pipeline to Increase the Quality and Yield of Immunopeptidomics Experiments
- NetNESLeucine-rich nuclear export signals (NES) in eukaryotic proteins
- SecretomePPrediction of non-classical protein secretion
- SignalPPrediction of Signal Peptides and their cleavage sites in all domains of life
- TargetPSubcellular location of proteins: mitochondrial, chloroplastic, secretory pathway, or other
- TatPPresence and location of Twin-arginine signal peptides
Miscellaneous
- OligoWizDesign of oligonucleotides for DNA microarrays
Bioinformatic Tool Software Downloads
- GibbsClusterSimultaneous alignment and clustering of peptide data
- Seq2LogoSequence logo generator
Dataset Downloads
- NetStartTranslation initiation site data sets