- COVID 19 tracker in Slovenia
- COVID.si - Citizen Science and the fight against the coronavirus
- COVID 19 publications on COBISS national bibliographic catalogue
- Ministry of Health COVID 19 web page
- COVID 19 forecast for Slovenia
- COVID 19 EU data portal
- OpenAire COVID 19 gateway
- COVID 19 data collections on Harvard Dataverse
- ECDC COVID 19 web page
- John Hopkins COVID 19 tracker
- WHO COVID 19 web page
- Figshare COVID-19 open research data
- Zenodo Coronavirus Disease Research Community
The Slovenian national supercomputing network is available for researchers in universities, research institutions and industrial development centers who need significant computing capacities to run compute-intensive algorithms and massively parallel algorithms (HPC/supercomputing) and use distributed processing of large numbers of tasks across several clusters (compute grid, HTC/high throughput computing) and big data processing. The network provides access to cluster-based Slovenian and international computing and storage capacities. It is available to eligible ARNES network users, members of industry research teams and SLING members. As part of international collaborations and projects, users can also access the network through the EGI network and collaborations, such as ELIXIR and CLARIN.
The consortium encompasses computing capabilities from some of the most powerful and advanced computers in the world. It is possible to request allocations of up to 6 months.
ELIXIR nodes have made available a broad variety of computing resources.
Publicly accessible infrastructure and workflows for SARS-CoV-2 data analyses from different scientific domains (genomics, proteomics, metabolomics, cheminformatics…).
PRACE provides access to world-class high performance computing resources for researchers from academia and industry. PRACE has a fast review track for project proposals requesting computing resources to contribute to the mitigation of the impact of the COVID-19 pandemic.
CLARIN.SI is the Slovene national consortium of the European research infrastructure CLARIN. Its goal is to support research communities from Humanities, Social Sciences and other language-related disciplines with:
- language resources and technologies and
- expertise and knowledge transfer.
Its vision is to broaden the scope of technological solutions for language studies, with the emphasis on Slovene and other South Slavic languages, as well as encourage cross-disciplinary cooperation.
Text and literature
For central COVID-19 hubs of text and literature, please see:
A downloadable database of COVID-19 literature. This database is updated by systematically searching various bibliographic databases and hand searching selected grey literature sources.
Large collection of scientific articles (currently 130000) related to coronaviruses from Pubmed, biorxiv, medrxiv and other sources. All articles are provided in a standardized JSON format.
A version of the CORD-19 dataset with semantic annotations in FHIR RDF format.
Bulk download of Elsevier fulltext articles related to COVID-19 and other resources.
A curated database of COVID-19 articles in PubMed compiled by the National Library of Medicine.
Combined page for all COVID-19 publications posted on medRxiv and bioRxiv.
Articles available for bulk download.
Clinical data and clinical trials
US clinical trials register.
Official database of clinical trials within the EU.
Map of clinical trials related to COVID-19 world wide.
WHO database of clinical trials. See also https://apps.who.int/trialsearch/.
Anonymous register with COVID-19 patient data from over 200 hospitals.
Epidemiology and mobility data
COVID-19 mobility data from Apple Maps.
Training and testing data for a weekly competition in forecasting COVID-19 cases and fatalities.
Reports on worldwide COVID-19 cases.
Evolution and worldwide distribution of SARS-CoV-2 genotypes.
COVID-19 mobility data from Google Maps.
Predictions for cases, tests, deaths and required hospital resources.
Worldwide COVID-19 statistics.
This dataset is a curated collection of over 200 publicly available COVID-19 datasets from sources like Johns Hopkins, the WHO, the World Bank, the New York Times, and many others. It includes data on a wide variety of potentially powerful statistics and indicators, like local and national infection rates, global social distancing policies, geospatial data on movement of people, and more. The data comes with a Kaggle competition hosted by the Roche Data Science Coalition (RDSC) which comprises number of tasks developed and evaluated by global frontline healthcare providers, hospitals, suppliers, and policy makers.
Structure predictions for COVID-19-related proteins from AlphaFold.
Results from a large crystallographic fragment screen against the SARS-CoV-2 main protease (MPro, PDB ID: 6YB7) conducted by XChem at the Diamond Light Source.
Tools and other resources
Artificial intelligence models
A BERT base model fine-tuned on COVID-19-related texts for natural language processing.
Other COVID-19 tools
Repository for cell-specific expression data.
The COVID-19 Disease Map is an assembly of molecular interaction diagrams, established based on literature evidence. The focus is on host-pathogen interactions specific to the SARS-CoV-2 virus.
BIAFLOWS is an open-source web platform to benchmark and reproducibly deploy Bio Image Analysis (BIA) workflows.
BISE is a search engine for tools, training materials and data for bioimage analysis.
ImJoy is a plugin powered hybrid computing platform for deploying deep learning applications such as advanced image analysis tools.
scispaCy is a Python package containing spaCy models for processing medical text.
spacy is a natural language processing library which integrates deep learning models for a variety of text analysis tasks.
Discussion groups, online workshops, networks
A platform that connects COVID-19 researchers with expert volunteers from various domains.
A forum that connects clinicians, virologists, immunologists with machine learners, bioinformaticians, epidemiologists and statisticians. For posting questions and finding collaborations.
This series of online workshops presents projects on how to tackle COVID-19 using methods of machine learning and AI, carried out by leading international researchers. Research topics include outbreak prediction, epidemiological modelling, drug development, viral and host genome sequencing, and health care management. Meetings can be attended by live streaming or watched as recordings.
The forum’s focus is software-oriented aspects of scientific imaging, particularly (but not limited to) image analysis, processing, acquisition, storage, and management of digital scientific images. It is the primary discussion forum of the bioimaging community.
NEUBIAS is a network of bioimage analysts in Europe, aiming at strengthening the bridge between life science, computer science and digital image processing. It also offers many training activities including online workshops and a YouTube channel.
Training and teaching resources
Recordings from workshops presenting different AI projects related to COVID-19.
Collection of tutorials developed and maintained by the worldwide Galaxy community.
Videos related to bioimage analysis.
Link lists with COVID-19 projects and resources
List of COVID-19 resources curated by the Cell Death, Lysosomes and Artificial Intelligence Group at Lund University.
A list of data, services and other resources compiled by the data-against-covid.org community.
Secondary data and statistics sources for COVID-19 researchers compiled by the CDC.
A global collection of Open Source projects related to COVID-19.
A list of resources compiled to support participants of the Swedish Hack the Crisis hackathon.
A list of resources compiled to support participants of the COVID-19 Biohackathon.
A curated list of open funding calls and other support for researchers, non-profit organizations and commercial organizations, specifically for COVID-19 research.