Toolbox

This map highlights the wealth of expertise in each of the 3 Enabling Technology Areas across Europe. Click on the pins to view centres of expertise, facilities and capabilities and how to access them.

This will be regularly updated over the lifetime of CarboMet and it is anticipated that this will be a collective resource for all to reference and contribute to.

Is something missing? Click here and fill in the form with the details so that it can be added to our map.

Online Tools and Databases

CASPER – a tool for calculating NMR chemical shifts of oligo- and polysaccharides

CAZY – Carbohydrate Active Enzymes – describes the families of structurally-related catalytic and carbohydrate binding modules (or functional domains) of enzymes that degrade, modify or create glycosidic bonds

CCRC spectral database – for Partially Methylated Alditol Acetates (PMAAs)

CFG-Glycan database – primary data sets from gene microarray screening, glycan array screening, glycan profiling and mouse phenotyping experiments

CSDB Carbohydrate Structure DataBase contains manually curated natural carbohydrate structures, taxonomy, bibliography, NMR data etc

DAGR – Database of Anti-Glycan Reagents – use to search and identify antibodies and reagent lectins to various carbohydrates

EPS database – provides access to detailed structural, taxonomic and bibliographic information on bacterial exopolysaccharide structures and properties

ExPASy – a bioinformatics resource portal with a glycomics category of databases

GLYCAN – for glycan modelling and simulation

Glycan Library – a list of approximately 830 lipid-linked sequence-defined glycan probes derived from diverse natural sources or chemically synthesised

GLYCAM Molecular Modelling Library (GMML) – assists in a variety of molecular modelling tasks, with a focus on the needs of carbohydrates

GlycoBase 3.2 – a database of over 650 N- and O- linked glycan structures HPLC, UPLC, exoglycosidase sequencing and mass spectrometry (MALDI-MS, ESI-MS, ESI-MS/MS, LC-MS, LC-ESI-MS/MS) data

Glyco3D – portal of 3D structures of mono, di, oligo and polysaccharides and carbohydrate recognizing proteins (lectin, monoclonal antibodies, glycosyltransferases and glycosaminoglycan binding proteins

Glycan Builder – a software library and set of tools to allow for the rapid drawing of glycan structures with support for all of the most common symbolic notation formats

GlycoDomainViewer – online resource to study site glycosylation with respect to protein context and conservation

GlycoEpitope – database with information on carbohydrate antigens, i.e. glyco-epitopes, and antibodies

GlycoGene DataBase includes genes associated with glycan synthesis such as glycosyltransferase, sugar nucleotide synthases, sugar-nucleotide transporters, sulfotransferases, etc.

GlycoMod – an online tool to predict oligosaccharide structures on proteins from experimentally determined masses

GlycoMiner/GlycoPattern – software tools designed to detect, characterize and perform relative quantitation of N-glycopeptides based on LC-MS runs

GlycoProtDB – database of glycoproteins mapped with actual glycosylation sites identified by mass spectrometry

Glycosciences.de – a collection of databases and bioinformatics tools for glycobiology and glycomics

GlycoStore – a curated chromatographic, electrophoretic and mass-spectrometry composition database of N-, O-, glycosphingolipid (GSL) glycans and free oligosaccharides associated with a range of glycoproteins, glycolipids and biotherapeutics

GlycoWork Bench a software tool developed to assist the interpretation of MS data of glycans

GlyMAP – an online resource mapping out the variational landscape of glyco-active enzymes

GlyTouCan – international glycan structure repository

KEGG GLYCAN Database – Glycome informatics resource integrating genomics and chemistry

MestreJ – software for NMR prediction and interpretation

MonosaccharideDB – a comprehensive reference source for monosaccharide notation

NetOGlyc – next generation prediction of O-glycosylation sites on proteins

Stenutz – suite of resources for chemistry, mainly carbohydrate chemistry, conformational analyses and NMR spectroscopy

SugarBind – a database of known carbohydrate sequences to which pathogenic organisms (bacteria, toxins and viruses) specifically adhere

SweetUnityMol – software to display 3-D structures of carbohydrates, polysaccharides and glycoconjugates

UniCarbKB – online information storage and search platform for glycomics and glycobiology research

UniProtKB – the universal protein sequence database with information on glycosylated proteins

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European Union flag This project has received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 737395.