Peptides, antibodies, epitopes

 

  • SPRINT - Sequence-based prediction of protein-peptide binding sites using support vector machine - online
  • pepATTRACT - Peptide-protein docking - online
  • CPPred-RF - Predictor cell-penetrating peptides - online
  • PIGSPro - Prediction of Ab structures - online
  • SATPdb - A database of structurally annotated therapeutic peptides - online
  • PeptiDock - ClusPro PeptiDock (Efficient global docking of peptide recognition motifs using FFT) - online
  • ACCLUSTER - Peptide Binding Site Prediction - online
  • Smiles2Monomers - Smiles2Monomers is a server to infer monomeric structure of polymers from their atomic structure - online
  • PEPstrMOD - Predicts the tertiary structure of small peptides with sequence length varying between 7 to 25 residues - online
  • APD3 - The antimicrobial peptide database as a tool for research and education - online
  • TepiTool - A Pipeline for Computational Prediction of T Cell Epitope Candidates - online
  • Peptiderive - Derive peptide inhibitors from protein–protein interactions - online
  • C2Pred - Prediction of cell penetrating peptides with feature selection techniques - online
  • Antibody - The Antibody Registry was created to give researchers a way to universally identify antibodies used in in the course of their research - online
  • AbMiner - AbMiner is a tool that allows users to search for appropriate, commercially available antibodies for research purposes - online
  • Antibodypedia - An open-access database of publicly available antibodies against human protein targets - online
  • Monoclonal - Monoclonal antibody index - online
  • mCSM-AB - A server for predicting antibody–antigen affinity changes upon mutation with graph-based signatures - online
  • MoRFchibi - Tools for the identification of MoRFs (short segments within longer disordered protein regions that bind to globular protein domains in a process known as disorder-to-order transition) in protein sequences (2016) - online
  • PEP-FOLD3 - Faster de novo structure prediction for linear peptides in solution and in complex - online
  • SAbPred - A structure-based antibody prediction server - online
  • PinaColada - Design of protein-protein interaction (PPI) inhibitors is a major challenge in Structural Bioinformatics. Peptides are natural candidates for inhibition of protein-protein complexes. PinaColada, a novel computational method for the design of peptide inhibitors for protein-protein interactions (2016) - online
  • PepComposer - Computational design of peptides binding to a given protein surface - online
  • CoinFold - Protein contact prediction and contact-assisted protein folding (input sequence) - online
  • PhyreStorm - A Web Server for Fast Structural Searches Against the PDB (can help for peptides) - online
  • dPABBs - A Novel in silico Approach for Predicting and Designing Anti-biofilm Peptides - online
  • THPdb - A database of FDA approved therapeutic peptides and proteins - online
  • LEADS-PEP - 53 protein-peptide complexes with peptide lengths ranging from 3 to 12 residues. A Benchmark Data Set for Assessment of Peptide Docking Performance - database
  • TAGSFREE - Design split-and-mix peptide libraries - standalone
  • EPI-peptide - EPI-peptide designer: a tool for designing peptide ligand libraries based on epitope–paratope interactions - standalone
  • Helixem - A place to design stapled peptides (vitro) - online
  • iACP - A sequence-based tool for identifying anticancer peptides (2016) - online
  • Fit3D - A bioinformatics web service to search for spatial residue patterns in proteins, so-called structural motifs - online
  • AntiAngioPred - A Server for Prediction of Anti-Angiogenic Peptides - online
  • CleavPredict - A platform for reasoning about proteolytic events - online
  • AHTPDB - A comprehensive platform for analysis and presentation of antihypertensive peptides (manually curated database) - database
  • CAMPR3 - A database on sequences, structures and signatures of antimicrobial peptides - database
  • NNvPDB - Neural Network based Protein Secondary Structure Prediction with PDB Validation (2015) - online
  • CONFOLD - Residue-residue contact-guided ab initio protein folding - online
  • JPred4 - A protein secondary structure prediction server (2015). Well known others with high accuracy are PSIPRED and PredictProtein - online
  • PredictProtein - An open resource for online prediction of protein structural and functional features (ppopen) - online
  • QSPs - Quorum sensing peptides (QSPs) are the signaling molecules used by the Gram-positive bacteria in orchestrating cell-to-cell communication - online
  • PyIgClassify - A database of antibody CDR structural classifications - online
  • Peptidecutter - PeptideCutter predicts potential cleavage sites cleaved by proteases or chemicals in a given protein sequence - online
  • PROSPER - PROSPER is an integrated feature-based webserver for in silico prediction of protease substrates and their cleavage sites for twenty-four different protease types, covering four major protease families- Aspartic (A), Cysteine (C), Metallo (M) and Serine (S) - online
  • CutDB - The CutDB focuses on the annotation of individual proteolytic events, both actual and predicted - online
  • PMAP - Databases for analyzing proteolytic events and pathways - online
  • Appnn - Prediction of Peptide and Protein Propensity for Amyloid Formation (Appnn: Amyloid Propensity Prediction Neural Network) (2015) - online and standalone
  • pepATTRACT - Peptide-Protein Docking with pepATTRACT (2015) - online and standalone
  • Bio-AIMS - Bio-AIMS Collection of Chemoinformatics Web Tools based on Molecular Graph Information and Artificial Intelligence Models. Six tools predict protein activity, two models evaluate drug - protein target interactions and the other three calculate protein - protein interactions. The molecular graph descriptor-based Machine Learning models could be useful tools for in silico screening of new peptides/proteins (2015) - online
  • Epitome - A database of all known antigenic residues and the antibodies that interact with them - database
  • Epitopemap - A web application for integrated whole proteome epitope prediction (2015) - online and standalone
  • proABC - A predictor of Antibody-Antigen interactions based on the Random Forest Algorithm - online
  • EpiPred - Improving B-cell epitope prediction and its application to global antibody-antigen docking - presently standalone
  • EPMeta - EPMeta: A Meta Server for Prediction of Antigenic Epitopes - presently standalone
  • OptMAVEn - A New Framework for the de novo Design of Antibody Variable Region Models Targeting Specific Antigen Epitopes - standalone
  • antibody - Antibody Structure Summary Page - online
  • ABodyBuilder - Antibody modeling - online
  • SAbPred - Antibody modelling tools and prediction software from the Oxford Protein Informatics Group (OPIG) - online
  • antibody - Immunological Databases and Tools - online
  • iedb - Epitope Prediction and Analysis Tools (with for instance Bepipred, Parker hydrophilicity, beta-turn prediction... Surface accessibility..) - online
  • EpIC - A rational pipeline for epitope immunogenicity characterization - online
  • EPMLR - Sequence-based linear B-cell epitope prediction method using multiple linear regression (protein sequence) - online
  • APCpred - Predicting linear B-cell epitopes using amino acid anchoring pair composition (protein sequence) - online
  • BEpro - Discontinuous B-cell epitope prediction (formerly PEPITO) - online
  • PCSS - Peptide Classification using Sequence and Structure - online
  • DiscoTope - Predicts discontinuous B cell epitopes from protein three dimensional structures. The method utilizes calculation of surface accessibility (estimated in terms of contact numbers) and a novel epitope propensity amino acid score - online
  • Epitopia - Server for detection of immunogenic regions in protein structures (need sequence info in the PDB file) or sequences - online
  • PEASE - Predicting Epitopes using Antibody Sequence - online
  • EPSVR - Antigenic Epitopes Prediction with Support Vector Regression - online
  • EpiToolKit - A Web-based Workbench for Vaccine Design - datasets
  • IEDB - Immune Epitope Database - database
  • DIGIT - A database of immunoglobulins with integrated tools - database
  • Peptaibiotics - The peptaibiotics database - database
  • GalaxyPepDock - A protein–peptide docking tool based on interaction similarity and energy optimization (2015) - online
  • CATNAP - CATNAP (Compile, Analyze and Tally NAb Panels) is a new web server at Los Alamos HIV Database, created to respond to the newest advances in HIV neutralizing antibody research - online
  • CABS-dock - CABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site - online
  • BCSearch - Fast structural fragment mining over large collections of protein structures - online
  • SynLinker - A tool for designing Linkers and synthetic fusion proteins - online
  • LinkerDB - An analysis of protein domain Linkers: their classification and role in protein folding - online
  • WALTZ-DB - A benchmark database of amyloidogenic hexapeptides - database
  • Expitope - A Web server for epitope expression. The tool enable the users to find all known proteins containing their peptide of interest. With this framework we hope to provide a helpful tool to exclude potential cross-reactivity in the early stage of TCR selection for use in design of adoptive T cell immunotherapy (2015) - online
  • peptiDB - The Structural Basis of Peptide-Protein Binding Strategies. About 100 complexes indicated in the Supplement table - datasets - list of PDB files
  • Proteax - The Proteax module of iScienceSearch provides an easy way to perform substructure and structure similarity searches in major Internet databases containing peptides, such as PubChem, CheBI and ChemSpider starting from plain 3-letter-code peptide sequences - commercial
  • DSDBASE - A database on disulphide bonds in proteins that provides information on native disulphides and those which are stereochemically possible between pairs of residues in a protein - database
  • protr/ProtrWeb - R package and web server for generating various numerical representation schemes of protein sequences ProtrWeb, a user-friendly web server for calculating descriptors presented in the protr package (2015) - online
  • PiPreD - Knowledge-based modeling of peptides at protein interfaces (2014) - online
  • FRAGRUS - Knowledge-based sampling of protein backbone conformations for de novo structure-based protein design (2014) - online
  • CancerPPD - A database of anticancer peptides and proteins - database
  • SwePep - Sweden Peptide database - database
  • TumorHoPe - A Database of Tumor Homing Peptides (over 800 peptides in 2012) - database
  • Peptides - Peptides (anti cancer peptides, antibacterial peptides... from Raghava's group) - database
  • Peptides - Vaccine design in silico databases (from Raghava's group) - database
  • AllerTOP - A server for in silico prediction of allergens - online
  • Tabhu - Antibody humanization (Tabhu) a web server for antibody humanization - online
  • Dynameomics - Dynameomics Fragment Library: Fragment libraries were created to identify, rank and retrieve protein structure fragments from both the Dynameomics data warehouse and Protein Data Bank (PDB) for protein loop structure prediction - online
  • FuzzyApp - Fuzzy logic for personalized healthcare and diagnostics: a fuzzy logic based allergen-protein predictor - online
  • AgAbDb - Antigen-Antibody Interaction Database: a compendium of antigen-antibody interactions - database
  • ADP - The Antimicrobial Peptide Database (APD or APD2) contains 2429 antimicrobial peptides - database
  • ParaPep - A web resource for experimentally validated antiparasitic peptide sequences and their structures - database
  • dbaasp - Database of antimicrobial activity and structure of peptides - database
  • HPVdb - A data mining system for knowledge discovery in human papillomavirus with applications in T cell immunology and vaccinology - online
  • PFMFind - A system for discovery of peptide homology and function - standalone
  • Antibody i-Patch - CDR contact prediction method. Antibody i-Patch works well with only the homology model of the antibody supplied as input - standalone
  • Solubis - Optimize your protein. Solubis plugin for YASARA - standalone
  • BCL2DB - Database of BCL-2 family members and BH3-only proteins - database
  • HLP - The web server HLP has been developed for assisting the scientific community for predicting intestinal half-life of peptides and to design mutant peptides with better half-life and physicochemical properties. HLP models were trained using a dataset of peptides whose half-lives have been determined experimentally in crude intestinal proteases preparation. Thus, HLP server will help in designing peptides possessing the potential to be administered via oral route - online
  • Protein WISDOM - The framework is divided into two stages: a sequence selection stage and a validation stage. The sequence selection stage designs novel protein and peptide sequences based upon a rigid or flexible design template uploaded by the user. Once sequence are generated, they can be validated by either fold specificity or approximate binding affinity. Fold specificity is a measure of how well the designed sequence adopts the template fold while approximate binding affinity is a measure of how well the designed sequence binds to a given protein target - online
  • CPPsite - CPPsite is a database of experimentally validated Cell Penetrating Peptides (10-30 amino acids) - database
  • DoReMi - Context-based prioritization of linear motif matches - online
  • SEPPA 2.0 - Server to predict spatial epitope considering species of immune host and subcellular localization of protein antigen - online
  • MoDPepInt - An interactive webserver for prediction of modular domain-peptide interactions - online
  • PASTA 2.0 - An improved server for protein aggregation prediction - online
  • Rosetta - Rosettacommons, protocols to design oxopiperazine helix mimetics and other peptides for PPI - online
  • PEP-SiteFinder - A tool for the blind identification of peptide binding sites on protein surfaces - online
  • NeuroPID - NeuroPID: a classifier of neuropeptide precursors. Neuropeptides (NPs) are short secreted peptides produced in neurons - online
  • AMPA - An automated web server for prediction of protein antimicrobial regions (can be used to develop new peptide-based drugs against pathogens) - online
  • Curie university of Texas - EpiSearch: Automated Detection of Conformational Epitopes using Phage Display Peptide Sequences; BCEP: B-Cell Epitope Prediction Server; CrossReact: Web server to Predict Allergenic Protein Cross-reactivity - online
  • ELM - The eukaryotic linear motif resource is a hub for collecting, classifying and curating information about short linear motifs (SLiMs) - .
  • MimoDB - The MimoDB database can be used as a virtual control for phage display or any other surface display experiments. The peptide search tool is designed for this purpose to find out exact sequence matches. Experimental scientists can search their peptides against all peptides in the MimoDB database in batches to verify if each peptide has been reported by other groups with different targets. If so, that peptide may be a target-unrelated peptide rather than a true target binder - database
  • DAMPD - Dragon Antimicrobial Peptide Database - database
  • American Peptide Company - Peptides - Commercial
  • Mimotopes - Peptide company - Commercial
  • Bachem - Peptide company - Commercial
  • Hemolytik - Manually curated database of experimentally determined hemolytic and non-hemolytic peptides - database
  • CAMP - Collection of sequences and structures of antimicrobial peptides - database
  • bNAbs - The discovery of broadly neutralizing antibodies has provided an enormous impetus to the HIV vaccine research and to entire immunology. The bNAber database provides open, user-friendly access to detailed data on the rapidly growing list of HIV bNAbs, including neutralization profiles, sequences and three-dimensional structures (when available) - database
  • SAbDab - The structural antibody database - database
  • AVPdb - A database of experimentally validated antiviral peptides targeting medically important viruses - database
  • PeptiSite - A structural database of peptide binding sites in 4D - database
  • CPPpred - CPPpred: prediction of cell penetrating peptides - online
  • AllergenFP - Allergenicity Prediction by Descriptor Fingerprints - online
  • MetAmyl - A METa-Predictor for AMYLoid Proteins - online
  • AMYPdb - The amyloid protein database - database and online tool
  • Fragger - Protein fragment picker allowing to create and query protein fragment databases - standalone
  • ToxinPred - Helpful in predicting (i) toxicity or non-toxicity of peptides, (ii) minimum mutations in peptides for increasing or decreasing their toxicity, and (iii) toxic regions in proteins - online
  • PepBind - A Comprehensive Database and Computational Tool for Analysis of Protein-peptide Interactions - database
  • Peptide Match - The service is designed to quickly retrieve all occurrences of a given query peptide from UniProt Knowledgebase (UniProtKB) with isoforms - online
  • IgBLAST - An immunoglobulin variable domain sequence analysis tool - online
  • BiDaS - A web-based Monte Carlo BioData Simulator based on sequence/feature characteristics - online
  • iELM - Identification of short linear motif-mediated interfaces within the human interactome - standalone
  • BlockLogo - Visualization of peptide and sequence motif conservation - online
  • Peptaibol - Database of antimicrobial peptides - database - peptide
  • Link Defensins Knowledgebase - It is a manually curated database and information source devoted to the defensin family of antimicrobial peptides - database - peptide
  • PiHelper - An open source framework for drug-target and antibody-target data - standalone
  • Link - A graph kernel approach for alignment-free domain-peptide interaction prediction with an application to human SH3 domains - online
  • VIOLIN - The Vaccine Investigation and Online Information Network is a comprehensive vaccine database and analysis system. The VIOLIN database includes various types of vaccines and vaccine components. VIOLIN also includes Vaxign, a Web-based in silico vaccine design program based on the reverse vaccinology strategy - online
  • SEPPA -  Spatial Epitope Prediction of Protein Antigens server is a tool for conformational B-cell epitope prediction. With 3D protein structure as input, each residue in the query protein will be given a score according to its neighborhood residues' information. Higher score corresponds to higher probability the residue to be involved in an epitope. - online
  • FOBIA - FOlding By hIerarchical Assembly       - online
  • IgBLAST - An immunoglobulin variable domain sequence analysis tool - online
  • Link - Some presumably non allergenic protein dataset can be obtained from Furmonaviciene and colleagues - dataset
  • Aeroallergen - Over 60 aeroallergen proteins can be found at the International union of immunological societies - dataset
  • Link - 20 proteins aeroallergen proteins can be found at the SWISS-PROT Allergen Index - dataset
  • ProtParam - ExPASy Proteomics server-computational analysis of various physical and chemical parameters of proteins from its sequence - dataset
  • AlgPred - Prediction of Allergenic protein and mapping of IgE Epitopes - dataset
  • Superficial -  Approach to design peptide librairies that mimic the surface of a protein       - online
  • VaccImm -  Server that allows users to simulate peptide vaccination in cancer therapy. It uses an agent-based model that simulates peptide vaccination by explicitly modelling the involved cells (immune system and cancer) as well as molecules (antibodies, antigens and semiochemicals)       - online
  • MSPeptider - A web tool to predict the cross-section area of peptides from its primary sequence of amino acids       - online
  • Quorumpeps -  Database: chemical space, microbial origin and functionality of quorum sensing peptides       - online
  • CrossTope - A repository of 3D structures of immunogenic peptide: MHC complexes       - online
  • CBS - CBS Prediction Servers: numerous tools to analyze protein sequences, Post-translational modifications of proteins, Protein function and structure: BepiPred DiscoTope HLArestrictor NetChop NetCTL NetCTLpan NetMHC NetMHCcons NetMHCII NetMHCIIpan NetMHCpan NNAlign (Identifying sequence motifs in quantitative peptide data) VDJsolver - Immunological features and many other tools online
  • SolyPep - Random peptide library generation, accounting or not for solubility, and preparing for docking       - online
  • PepMapper - A collaborative web tool for mapping epitopes from affinity-selected peptides       - online
  • CSA - Comprehensive comparison of pairwise protein structure alignments       - online
  • Super - A web server to rapidly screen superposable oligopeptide fragments from the protein data bank       - online
  • MCPep - Monte Carlo simulations of peptide-membrane interactions with the MCPep web server       - online
  • Paratome - An online tool for systematic identification of antigen-binding regions in antibodies based on sequence or structure       - online
  • iAMP-2L - A two-level multi-label classifier for identifying antimicrobial peptides and their functional types       - online
  • MESSA - MEta-Server for protein Sequence Analysis       - online
  • Scaffold - A structural bioinformatics approach for identifying proteins predisposed to bind linear epitopes on pre-selected target proteins       - online
  • Mutator - Improving the selectivity of antimicrobial peptides from anuran skin       - online
  • GibbsCluster -  Simultaneous alignment & clustering of peptide data using a Gibbs sampling approach       - online
  • SVMTriP -  Predict antigenic epitopes (Realistic prediction of protein surface regions that are preferentially recognized by antibodies (antigenic epitopes) can help the design of vaccine components and immuno-diagnostic reagents)       - online
  • PepSite -  Prediction of peptide-binding sites        - online docking
  • PeptiMap - Detection of peptide-binding sites on protein surfaces        - standalone from the authors, server on the way
  • CellPPD - Designing of Cell Penetrating Peptides        - online
  • ElliPro - Antibody Epitope Prediction        - online
  • BCPREDS - B-cell epitope prediction server - online
  • Pepitope -  Epitope mapping using affinity-selected peptides        - online
  • Link - PepMapper seems to outperform MimoPro or Pep-3D-Search. PepMapper is another multipurpose mapping tool for epitope prediction from affinity-selected peptides        - online
  • BriX - Database of protein fragments. Loop BriX contains loop fragments from 14.525 proteins.         - database
  • RosettaAntibody - Antibody variable region homology modeling server        - online
  • Abysis - The antibody database integrates sequence data from Kabat, IMGT and the PDB with structural data from the PDB        - Antibody database
  • DOMINO -  An open-access database comprising more than 3900 annotated experiments describing interactions mediated by protein-interaction domains -  database
  • pepMMsMIMIC - pepMMsMIMIC: using as input the 3D structure of a peptide bound to a protein, pepMMsMIMIC suggests which chemical structures are able to mimic the protein-peptide recognition of this natural peptide using both pharmacophore and shape similarity techniques (Swimming into peptidomimetic chemical, NAR 2011) - peptides to chemical via screening online
  • POW - Structure-based predictor of PDZ domain-peptide interactions - online
  • Link - BHAGEERATH-H: A Homology ab-intio Hybrid Web server for Protein Tertiary Structure Prediction         - online
  • Link - BHAGEERATH : An Energy Based Protein Structure Prediction Server         - online
  • Link - Standardizing and simplifying analysis of Peptide library data - standalone
  • Link - Standardizing and simplifying analysis of Peptide library data - online
  • Innovagen - Innovagen's peptide calculator makes calculations and estimations on some physiochemical properties - online peptide physchem
  • PEP-FOLD - Prediction of the 3D structure of peptides, linear and cyclic         - online
  • PeptideLocator - PeptideLocator: prediction of bioactive peptides in protein sequences - online, need at present a UniProt IDs as input for the computation
  • EpiDOCK - EpiDOCK: a molecular docking-based tool for MHC class II binding prediction - online
  • Haddock - Haddock to predict peptide-protein interaction (peptides recognize hot spot (see Stein and Aloy, PLoS One 3: e2524, 2008). Peptide binding sites can be predicted by tools such as PepSite (see also Ben-Shimon, Eisenstein,  2010, J Mol Biol 402). Haddock is compared to DynaDock and the FlexPepDock webserver (see Trellet et al., PLoS One. 2013;8(3):e58769) - standalone and online
  • PepBank -  A database of peptides based on sequence text mining and public peptide data sources. Only peptides that are 20 amino acids or shorter are stored        - database
  • PEPsolubility - Predict peptide solubility        - online
  • Link - OPM database and PPM web server: resources for positioning of proteins in membranes        - online, can also be interesting to design peptides
  • Link FlexPepDock - Rosetta FlexPepDock: The input for this server is a PDB file of a complex between a protein receptor (first chain) and an estimated conformation for a peptide (second chain). FlexPepDock was shown to be able to accurately refine the peptide structure starting from up to 5.5A RMSD of the native conformation, allowing full flexibility to the peptide and side-chain flexibility to the receptor. See also FlexPepDock ab initio        - online
  • Link - PEPstr : predict the tertiary structure of small peptides        - online
  • Link - ProBuilder, build a sequence in 3D        - online
  • Link - AVPpred antiviral peptides, also allow to get several properties of a sequence, polar, possible 3D structure, physchem etc        - online
  • Link - Super: screen superposable oligopeptide fragments from the protein data bank        - online
  • Link - PepMake generates a PDB coordinate file for polypeptide backbones using only the sequence and backbone dihedral angles as input        - online
  • Link - MODPROPEP: knowledge-based modeling of protein-peptide complexes - standalone
  • Link - SLiMDisc (Short Linear Motif Discovery): find shared motifs in proteins with a common attribute such as sub-cellular location or a common interaction partner - online
  • Link - the Bioware webserver contains several tools for short linear motif discovery and peptide characterisation. CycloPsWeb with logP, etc, PeptideRanker, PeptideLocator - online
  • Link - PepX contains many unique protein-peptide interface from the PDB. February 2013, it contains 505 unique protein-peptide interface clusters from 1431 PDBs - database
  • PepCrawler - PepCrawler high-resolution refinement and binding affinity estimation of peptide inhibitors - online
  • PepServe - A web server for peptide analysis, clustering and visualization - online
  • PeptideMine -  A webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes - online, PPI
  • IBIS -  Inferred Biomolecular Interaction Server reports, predicts and integrates multiple types of conserved interactions for proteins. IBIS provided annotations for 5 different types of binding partners: proteins, PPI, small molecules, nucleic acids and peptides and ion - online, also binding site
  • ParDOCK - Protein-Ligand Complexes, might dock peptides (it is an all-atom energy based Monte Carlo,rigid protein ligand docking, implemented in a fully automated, parallel processing mode which predicts the binding mode of the ligand in receptor target site) - online
  • PROFEAT -  Protein Feature Server for computing physicochemical properties of proteins and peptides - online
  • NOXclass - Prediction of protein-protein interaction types (biological obligate, biological non-obligate and crystal packing) implemented using a support vector machine (SVM) algorithm - online
  • DILIMOT - A server for finding short (3-8 amino acids), over-represented peptide patterns, or Linear motifs, in a set of proteins - online
  • SLiMFinder - A web server to find novel, significantly over-represented, short protein motifs - online
  • ELM - A computational biology resource for investigating candidate functional sites in eukarytic proteins. Functional site prediction using as input aa sequence. Can be used to search PPI - online
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© Bruno Villoutreix. A first version of this Website was launched in 2006. Thank to Natacha Oliveira