ExPASy is the SIB Bioinformatics Resource Portal which provides access to scientific databases and software tools (i.e., resources) in different areas of life sciences including proteomics, genomics, phylogeny, systems biology, population genetics, transcriptomics etc. (see Categories in the left menu). On this portal you find resources from many different SIB groups as well as external institutions.
Supporting COVID-19 / SARS-CoV-2 research
wikimedia.org
SIB experts and resources in the fight against COVID-19 (evolving list):
- UniProtKB/Swiss-Prot: Knowledge of SARS-CoV-2 protein sequences and how they function
- ViralZone: Biological insights, including a detailed comparison with the SARS virus’ genome as well as cross-links to complementary resources. View Webinar of 14 April 2020
- SIB COVID-19 Integrated Knowledgebase: SPARQL endpoint providing access to integrated data from various sources (incl. SIB resources) relevant for research on SARS-CoV-2
- STRING-covid: 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
- Corona OMA Browser: Website with all the functionality of the OMA Browser, but for 119 Nidovirales species, incl. the human SARS viruses, but also other coronaviruses and other single-stranded RNA viruses
- SWISS-MODEL: Three-dimensional homology models and links to experimental structures in PDB for SARS-CoV-2 proteins (updated weekly)
- SwissDrugDesign: A large collection of web-based tools covering all aspects of computer-aided drug design (CADD), allowing to design and model compounds tackling COVID-19
- V-pipe: Detection of within-host genetic variation of SARS-CoV-2 from viral NGS data
- PROSITE: Profiles and patterns for detection and annotation of SARS-CoV-2 proteins and homologs
- HAMAP: Family profiles and annotation rules for the detection and annotation of betacoronaviruses
- Cellosaurus: Frequently updated information page on the cell lines useful for the study of SARS-CoV-2
- neXtProt: Information and SPARQL queries about human proteins that bind SARS-CoV-2
- GlyConnect: Glycosylation information of COVID-19 spike protein produced from recombinant protein (HEK293 and BTI-Tn-5B1-4). View Webinar of 30 April 2020
- Nextstrain: Real-time tracking of the coronavirus genome evolution and regular reports
- COVID-19 Scenarios: Public health planning tool for COVID-19 outbreaks in communities across the world
- BEAST2 - COVID-19 Monitoring: Quantifying epidemiological dynamics in real time based on viral genomes and confirmed case data
- Computational Linguistics for COVID-19: Central hub in computational linguistics for COVID-19, including automated annotation of the scientific literature, and social media mining
- ABCD database: Sequences of antibodies binding to SARS-CoV-2 and host proteins, provided by: the Geneva Antibody Facility (UNIGE) with the support of the Swiss-Prot Group.
- CovidTriage: a search engine developed as part of SIBiLS to rank the COVID-19 literature (Medline, PMC, Cord-19) according to the 9 axis of the COVoc ontology
SIB Educational Resources
SIB has developed a number of fun ways to discover bioinformatics and the key role it plays in the life sciences and health today:
- ChromosomeWalk: a saunter along the human genome? Take a walk and discover the world of genes, proteins and bioinformatics!
- PrecisionMedicine: an overview of what precision medicine means in oncology.
- Drug Design Workshop: a web-based educational tool to introduce computer-aided drug design to the general public.
- Genome Jumper: an educational mobile game to explore human diversity.
UniProtKB
SWISS-MODEL
STRING
PROSITE