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Showing 20 records out of 23 total
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Categories: proteomics, (protein sequences and identification) - Software type(s): website - database
The ABCD (AntiBodies Chemically Defined) database is a manually curated depository of sequenced antibodies, developed by the Geneva Antibody Facility at the University of Geneva.
Categories: population genetics - Software type(s): website - tool
Quantifying epidemiological dynamics in real time based on viral genomes and confirmed case data with EpiEstim
keywords: COVID-19
Categories: systems biology - Software type(s): website, databases files - database
The Cellosaurus is a knowledge resource on cell lines. It attempts to describe all cell lines used in biomedical research, including immortalized cell lines, naturally immortal cell lines (ie stem cell lines), finite life cell lines when those are distributed and widely used, vertebrate cell lines with an emphasis on human, mouse and rat cell lines, and invertebrate (insect and tick) cell lines.
Categories: genomics, (characterisation/annotation) - Software type(s): website - tool
Central hub in computational linguistics for COVID-19, including automated annotation of the scientific literature (LitCovid corpus), and social media mining. Additionally a web service is provided, in which a paper can be submitted and automatically annotated with domain entities from several reference databases.
Categories: genomics, evolutionary biology - Software type(s): website - database
This is a website with all the functionality of the OMA Browser, but for 119 Nidovirales species. This encompasses the human SARS viruses, but also other coronaviruses and other single-stranded RNA viruses. Some of these viruses affect humans, while others affect bats, mice, horses, pigs, turkeys, cats, ferrets, etc. This browser is intended to be a resource for researchers in the coronavirus community.
Categories: evolutionary biology, population genetics - Software type(s): website - tool
Public health planning tool for COVID-19 outbreaks in communities across the world.
keywords: COVID-19, Public health
Categories: genomics - Software type(s): website - tool
CovidTriage is a search engine developed as part of SIBiLS (Swiss Institute of Bioinformatics Literature Services). Its purpose is to rank the COVID-19 literature (Medline, PMC, Cord-19) according to the 9 axis of the COVoc ontology.
Categories: proteomics, glycomics - Software type(s): website - database/tool
GlyConnect is a platform integrating several sources of information to characterise the molecular actors of glycosylation, mainly glycoproteins and N- and O-linked glycans. The purpose of GlyConnect is to bring out in a single resource the relationships between glycans, the proteins that carries them, the enzymes that synthesise or degrade them and the proteins that bind them. GlyConnect also integrates tools otherwise accessible individually in the glycomics collection of ExPASy.
Categories: proteomics, (protein sequences and identification, function analysis, sequence sites, features and motifs) - Software type(s): website - database/tool
HAMAP is a system for the classification and annotation of protein sequences. It consists of a collection of manually curated family profiles for protein classification, and associated, manually created annotation rules that specify annotations that apply to family members. HAMAP is applied to bacterial, archaeal and eukaryotic proteins and used to annotate records in UniProtKB via UniProt's automatic annotation pipeline.
Categories: proteomics, (protein sequences and identification, function analysis) - Software type(s): website - database
neXtProt is an innovative knowledge platform dedicated to human proteins. This resource contains a wealth of high-quality data on all the human proteins that are produced by the 20'000 protein-coding genes found in the human genome. The content of neXtProt is continuously extended so as to provide many more carefully selected data sets and analysis tools.
Categories: evolutionary biology - Software type(s): website - tool
Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. We provide a continually-updated view of publicly available data alongside powerful analytic and visualization tools for use by the community. Our goal is to aid epidemiological understanding and improve outbreak response.
Categories: proteomics, (sequence sites, features and motifs) - Software type(s): website - database
PROSITE consists of documentation entries describing protein domains, families and functional sites as well as associated patterns and profiles to identify them.
Categories: IT infrastructure - Software type(s): website - tool
SPARQL endpoint providing access to integrated data from various sources (incl. SIB resources) relevant for research on SARS-CoV-2.
keywords: COVID-19
Categories: proteomics - Software type(s): website - database
New COVID-19 oriented version enabling users to explore the host-side of the disease, while keeping a focus on putative COVID-19-interacting human proteins.
keywords: COVID-19, network
Categories: proteomics, (protein structure), structure analysis, biophysics - Software type(s): website - tool
SWISS-MODEL is a fully automated web based protein structure homology-modeling expert system. The SWISS-MODEL Workspace is a web-based integrated service which assist and guides the user in building protein homology models at different levels of complexity. A personal working environment (workspace), where several modelling projects can be carried out in parallel, is provided for each user.
Categories: proteomics, medicinal chemistry - Software type(s): website - tool
SwissADME gives free access to a number of parameters and predictive models in order to compute the physicochemistry and estimate the pharmacokinetics, druglikeness and medicinal chemistry friendliness of one or several small molecules.
Categories: proteomics, structure analysis, medicinal chemistry - Software type(s): website - database
SwissBioisostere is a database containing information on millions of molecular replacements and their performance in biochemical assays. It is meant to provide researchers in drug discovery projects with ideas for bioisosteric modifications of their current lead molecule, and to give access to the details on particular molecular replacements.
Categories: proteomics, (protein structure), structure analysis, medicinal chemistry - Software type(s): website - tool
SwissDock is a protein ligand docking server, accessible via the ExPASy web server, and based on EADock DSS. The purpose of this server is to make protein-ligand docking accessible to a wide scientific community worldwide.
Categories: proteomics, medicinal chemistry - Software type(s): website - tool
SwissSimilarity allows the rapid screening of small to very large-scale libraries of drugs, bioactive small molecules, commercially available compounds, and an ultra-large library of virtual compounds readily synthesizable from commercially available reagents. The virtual screening can be performed using molecular fingerprints, as well as superpositional or fast non-superpositional 3D shape similarity approaches.
Categories: proteomics, structure analysis, medicinal chemistry - Software type(s): website - tool
SwissTargetPrediction is an online tool to predict the targets of bioactive small molecules in human and other vertebrates. This is useful to understand the molecular mechanisms underlying a given phenotype or bioactivity, to rationalize possible side-effects or to predict off-targets of known molecules.
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