Science Infrastructure

Tools to help the Research Community, including research infrastructure, collections and communication tools for scientists


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โœ๏ธ Edit this document to make it better โœ๏ธ

For Studies Currently Recruiting:

๐Ÿ”—coronavirustechhandbook.com/science/studies-recruiting

For Monitoring Ongoing Clinical Trials:

๐Ÿ”—http://covid19.trialstracker.net/data_viz.html

For NLP Initiatives and Solutions:

๐Ÿ”—coronavirustechhandbook.com/nlp

Literature Reviews

Research Collections

WHO website with built-in search

๐Ÿ‡บ๐Ÿ‡ณ๐Ÿ”—https://www.who.int/emergencies/diseases/novel-coronavirus-2019/global-research-on-novel-coronavirus-2019-ncov

WHO is gathering the latest scientific findings and knowledge on Coronavirus disease (COVID-19) and compiling it in a database. We update the database daily from searches of bibliographic databases, hand searches of the table of contents of relevant journals, and the addition of other relevant scientific articles that come to our attention. The entries in the database may not be exhaustive and new research will be added regularly.

ACS Pubs

๐Ÿ”—ย https://pubs.acs.org/doi/10.1021/acscentsci.0c00272

Research and Development on Therapeutic Agents and Vaccines for COVID-19 and Related Human Coronavirus Diseases

Cambridge University Press

๐Ÿ”—https://www.cambridge.org/core/browse-subjects/medicine/coronavirus-free-access-collection

Coronavirus Free Access Collection from Cambridge University Press

Centre Borelli's Repository of a selection of papers related to COVID-19 outbreak operated

๐Ÿ‡ซ๐Ÿ‡ท๐Ÿ”—https://github.com/MyrtoLimnios/covid19-biblioย Repository of a selection of papers related to COVID-19 outbreak operated by Centre Borelli (ENS Paris-Saclay, CNRS, Universitรฉ de Paris, SSA) Data maintained in English.

Clarivate resources

๐Ÿ”—https://clarivate.com/coronavirus-resources/

Get the insights you need on COVID-19. Access the worldโ€™s leading research and late-breaking news on this rapidly evolving health emergency.

COVID-19 Social Science Research Tracker

๐Ÿ”—https://github.com/natematias/covid-19-social-science-research/

โœ‰๏ธhttps://twitter.com/natematiasย J. Nathan Matias (Cornell University, Communication

โœ‰๏ธhttps://twitter.com/alexleavittย Alex Leavitt (Facebook Research, Health Integrity)

This international list tracks new social science research about COVID-19, including published findings, pre-prints, projects underway, and projects at least at proposal stage.

COVID-19 Open Research Dataset

๐Ÿ”—https://www.semanticscholar.org/cord19

An open database to store and provide access to scientific articles. The data is machine readable.

COVID-19 Primer

๐Ÿ”—https://covid19primer.com/

Quickly understand the scientific progress in the fight against COVID-19. Using the most advanced NLP algorithms, read summaries and discover trends in the latest research papers and the conversations around them. Every 24hrs.

Data Science for COVID-19

๐Ÿ”—ย https://easychair.org/cfp/DS-COVID-19-2020

Call for chapters for new book: Data Science for COVID-19, edited by Utku Kose, Deepak Gupta, Victor Hugo C. de Albuquerque, Ashish Khanna, to be published by Elsevier. Submission deadline April 30, 2020.

Elsevier

๐Ÿ”—ย https://www.elsevier.com/connect/coronavirus-information-centerย 

Free Elsevier's free health and medical research on COVID-19

Examine's Research breakdown on COVID-19

๐Ÿ”—https://examine.com/topics/coronavirus/research/ย 

A list of papers on the impact of Coronavirus, arranged into categories and subcategories. Technical Tools & Resources

GitHub - COVID-19 review

๐Ÿ”—https://github.com/greenelab/covid19-review

COVID-19-review - A collaborative review of the emerging COVID-19 literature.

Google scholar

๐Ÿ”—https://scholar.google.com/scholar?hl=en&as_sdt=0%2C5&q=coronavirus&btnG=&oq=

Google scholar search for 'Coronavirus'.

Johns Hopkins school of public health

๐Ÿ”—http://www.centerforhealthsecurity.org/resources/COVID-19/index.html

The link collates the Johns Hopkins experts output in analyzing and fact sheets related to COVID-19 outbreak. The following resources will be routinely updated.

Lancet COVID-19 Resource Centre

๐Ÿ”—https://www.thelancet.com/coronavirus

Lancet Comments and correspondence from the medical research community relating to the corona outbreak.

LitCovid- curated NIH literature hub

๐Ÿ”—https://www.ncbi.nlm.nih.gov/research/coronavirus/

The NIH curated literature hub for tracking up-to-date scientific information about the 2019 novel Coronavirus. It is the most comprehensive resource on the subject, providing a central access to 3761 (and growing) relevant articles in PubMed. The articles are updated daily and are further categorized by different research topics and geographic locations for improved access.

Medium.com COVID-19 Science Paper Compilation

๐Ÿ”—https://medium.com/@gweninvestor/science-compilation-on-covid-19-750574c16ac9

List of Peer Reviewed Publications.

Negative Results

๐Ÿ”—ย http://www.negative-results.org/

โœ‰๏ธ [email protected]

A journal which publishes negative results

Oxford University Press

๐Ÿ”—https://academic.oup.com/journals/pages/coronavirus

Coronavirus Free Access Collection from Oxford University Press

Project evidence (anonymous)

๐Ÿ”—ย https://project-evidence.github.io/

Anonymous research to examine evidence regarding (1) the SARS-CoV-2 virus was present at a biolaboratory in Wuhan, China, and (2) the SARS-CoV-2 virus was introduced into the greater Wuhan population by an infected lab worker or animal. (Published

ResearchGate COVID-19 selection

๐Ÿ”—https://www.researchgate.net/community/COVID-19

Community board on ResearchGate containing latest research, discussions and expert findings concerning COVID-19

Science (AAAS): Coronavirus: Research, Commentary, and News

๐Ÿ”—https://www.sciencemag.org/collections/coronavirus

These Science journal articles provide rigorous and timely research, analysis, and news coverage of COVID-19 and the Coronavirus that causes it.

Springer

๐Ÿ”—https://www.springernature.com/gp/researchers/campaigns/coronavirusย 

Springer Nature is committed to supporting the global response to COVID-19 enabling fast and direct access to the latest available research, evidence, and data. Access to 19,000 artcicles.

Taylor and Francis Group

๐Ÿ”—https://newsroom.taylorandfrancisgroup.com/coronavirus-reading-list/ย 

This microsite provides links and references to all relevant COVID-19 research articles, book chapters and information that can be freely accessed on Taylor & Francis Onlineย and Taylor & Francis ebooks in support of the global efforts in diagnosis, treatment, prevention and further research into COVID-19.

UKCDR COVID-19 Research Project Tracker

๐Ÿ”—https://www.ukcdr.org.uk/funding-landscape/covid-19-research-project-tracker/

This is a live database of funded research projects across the world related to the current COVID-19 pandemic. By providing an overview of research projects mapped against the priorities identified in the WHO Coordinated Global Research Roadmap: 2019 Novel Coronavirus, we aim to support funders and researchers deliver a more effective and coherent global research response.

Wiley

๐Ÿ”—https://novel-coronavirus.onlinelibrary.wiley.com/

More than 5,000 Coronavirus related articles freely available in support of the global efforts in its diagnosis, treatment and prevention.

The World Pandemic Research Network (WPRN)

๐Ÿ”—https://wprn.org/ย 

A platform serving research communities. It maintains a searchable global directory of the scientific resources available on the societal and human impacts of the Covid-19 pandemic. It showsย who works on what, where, in real time, at global level.

Reviewing Pre-prints

ArXiv COVID-19 pre-preints

๐Ÿ”—ย https://news.cornell.edu/stories/2020/03/arxiv-announces-new-covid-19-quick-search

Biorxiv

๐Ÿ”—https://connect.biorxiv.org/relate/content/181

Review pre-prints related to COVID-19. Consider reading through submissions, providing feedback, and flagging any concerns.

Cardiovid-19

๐Ÿ”—ย https://cmdresearch.wixsite.com/covid-19

A website dedicated to reviewing the literature on cardiovascular and metabolic health related to COVID-19 outbreak

COVID-19 Preprints

๐Ÿ”—http://covidpreprints.com/

A new website showing a timeline of landmark COVID-19-related preprints, including their short summaries

The Lancet

๐Ÿ”—https://www.thelancet.com/pdfs/journals/langlo/PIIS2214-109X(20)30113-3.pdf

Preprint platforms facilitate discourse about COVID-19, Science by The Lancet

Outbreak Science

๐Ÿ”—ย https://outbreaksci.prereview.org

โœ‰๏ธย https://twitter.com/outbreaksci

Outbreak Science Rapid PREreview is a web application for open, rapid reviews of outbreak-related preprints.

On this platform you can find rapid reviews of existing preprints, request reviews of preprints (your own, or preprints you are interested in), review preprints.

ArXiv COVID-19 pre-preints

๐Ÿ”—ย https://news.cornell.edu/stories/2020/03/arxiv-announces-new-covid-19-quick-search

Pre-print links submitted directly to the handbook

Development of CRISPR as an antiviral strategy to combat SARSCoV-2 and influenza

๐Ÿ”—ย https://www.cell.com/pb-assets/products/coronavirus/CELL_CELL-D-20-00736.pdf

The COVID-19 pandemic, caused by the SARS-CoV-2 virus, has highlighted the need for antiviral approaches that can target emerging viruses with no effective vaccines or pharmaceuticals. Here we demonstrate a CRISPR-Cas13-based strategy, PAC-MAN (Prophylactic Antiviral CRISPR in huMAN cells), for viral inhibition that can effectively degrade RNA from SARS-CoV-2 sequences and live influenza A virus (IAV) in human lung epithelial cells.

Related Research, suggested articles.

DARPAโ€™s Pandemic Preparedness Platform

๐Ÿ”—https://spectrum.ieee.org/the-human-os/biomedical/bionics/darpas-firebreak-treatment-for-the-coronavirus

Researchers working under DARPAโ€™s Pandemic Preparedness Platform seek to create instant, short-term countermeasures.

SARS-CoV-2 RNA concentrations in primary municipal sewage sludge as a leading indicator of COVID-19 outbreak dynamics

๐Ÿ”—https://www.medrxiv.org/content/10.1101/2020.05.19.20105999v1.full.pdf

Can you use sewage to monitor the level of the virus in an area?

Genomics- Real-time tracking of pathogen evolution

๐Ÿ”—https://github.com/nextstrain

Provides information about the genomics of the virus, very pretty but very technical.

D.E. Shaw Research Tweets (simulations of molecular dynamics)

๐Ÿ”—https://twitter.com/DEShawResearch/status/1248306064577232896

Molecular dynamics simulations (run on our Anton 2 supercomputers) under a CC-BY license to assist other researchers working to understand SARS-CoV-2 and develop therapies for COVID-19 (various animations in thread)

DNA Fingerprinting Analysis

๐Ÿ”—https://www.notion.so/DNA-Fingerprinting-Analysis-9377c7f0b30644be8c467f147f483c70

The virus is muting all the time and its DNA fingerprint can let us understand how is evolving from country to country. Contains a list of resources associated with DNA fingerprinting analysis.

MedRxivArticle: Saliva is more sensitive for SARS-CoV-2 detection in COVID-19 patients than nasopharyngeal swabs

๐Ÿ”—https://www.medrxiv.org/content/10.1101/2020.04.16.20067835v1

This article highlights the pros of using saliva as a medium for detection for SARS-CoV-2 in Coronavirus patients.

Seasonality of Respiratory Viral Infections

๐Ÿ”—https://www.annualreviews.org/doi/pdf/10.1146/annurev-virology-012420-022445

Seasonality of Respiratory Viral Infections. March 2020

Covid-19: identifying and isolating asymptomatic people helped eliminate virus in Italian village

๐Ÿ”—https://www.bmj.com/content/368/bmj.m1165?

An Italian academic has claimed striking evidence that most people infected with covid-19 show no symptoms but are still able to infect others, which he says has huge implications for testing policy, particularly in hospitals.

ARA Research to Mitigate a Shortage of Respiratory Protection Devices During Public Health Emergencies

๐Ÿ”—https://www.ara.com/news/ara-research-mitigate-shortage-respiratory-protection-devices-during-public-health-emergencies

Recommendations for sterilization of face masks, supply chain shortage mitigation and links for healthcare professionals.

Map clusters of diseases to tackle multimorbidity

๐Ÿ”—https://www.nature.com/articles/d41586-020-00837-4?

Map clusters of diseases to tackle multimorbidity: article defines at risk groups for severe COVID-19 infection

Clinical and epidemiological features of 36 children with Coronavirus disease 2019

๐Ÿ”—https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(20)30198-5/fulltext

An observational cohort study, primary research article. Epidemiology/Medicine by The Lancet: Infectious Disease

Effect of Social Distancing on the Spread of COVID-19

๐Ÿ”—https://science.sciencemag.org/content/early/2020/03/25/science.abb4218?

It remains unclear how these unprecedented interventions, including travel restrictions, affected COVID-19 spread in China. We used real-time mobility data from Wuhan and detailed case data including travel history to elucidate the role of case importation in transmission in cities across China and to ascertain the impact of control measures. primary research article

Estimates of the severity of COVID-19 disease

๐Ÿ”—https://www.medrxiv.org/content/10.1101/2020.03.09.20033357v1.full.pdf

A range of case fatality ratio (CFR) estimates for COVID-19 have been produced that differ substantially in magnitude.

The first three months of the COVID-19 epidemic

๐Ÿ”—https://www.medrxiv.org/content/10.1101/2020.03.28.20036715v2

Epidemiological evidence for two separate strains of SARS-CoV-2 viruses spreading and implications for prevention strategies

High Contagiousness and Rapid Spread of Severe Acute Respiratory Syndrome Coronavirus 2

๐Ÿ”—https://wwwnc.cdc.gov/eid/article/26/7/20-0282_articleย 

Article on COVID-19: High Contagiousness and Rapid Spread of Severe Acute Respiratory Syndrome Coronavirus 2 (EID Journal, Volume 26, Number 7โ€”July 2020; Early Release)

Turbulent Gas Clouds and Respiratory Pathogen Emissions

๐Ÿ”—https://jamanetwork.com/journals/jama/fullarticle/2763852?resultClick=1

Turbulent Gas Clouds and Respiratory Pathogen Emissions: Potential Implications for Reducing Transmission of COVID-19, JAMA, March 26, 2020

A Plausible "Penny" Costing Effective Treatment for Corona Virus

๐Ÿ”—https://clinmedjournals.org/articles/jide/journal-of-infectious-diseases-and-epidemiology-jide-6-113.php?jid=jide

Many viruses require reduced sulfhydryl groups for cell fusion and entry. Corona viruses, including SARS-CoV-2 (the cause of the condition now named coronavirus disease 2019 or COVID-19), are rich in cysteine, which residues must be intact for viral activity. Sulfhydryl groups are vulnerable to oxidation. Ozone therapy, a very inexpensive and safe modality may safely exploit this critical vulnerability in many viruses, inclusive of SARS-CoV-2.

COVID-19 found in wastewater

๐Ÿ”—https://www.rivm.nl/node/153991

COVID-19 found in wastewater, good way to monitor in population

Time Article:Vaccines, Antibodies and Drug Libraries. The Possible COVID-19 Treatments Researchers Are Excited About

๐Ÿ”—https://time.com/5819965/coronavirus-treatments-research/

TIME Article on developments for a vaccine. 14 April 2020.

How the Coronavirus hijacks cells

๐Ÿ”—https://www.statnews.com/2020/05/21/coronavirus-hijacks-cells-in-unique-ways/

โ€˜Itโ€™s something I have never seenโ€™: How the Coronavirus hijacks cells

Nature: A SARS-CoV-2 protein interaction map reveals targets for drug re-purposing

๐Ÿ”—https://www.nature.com/articles/s41586-020-2286-9_reference.pdf

This is a peer reviewed paper detailing major new work on a SARS-CoV-2 protein interaction map that reveals targets for drug re-purposing. Nature article, printed on 30 April 2020.

Research Tools

Research Communities

AsOne

๐Ÿ”—https://asone.ai

Reddit for research.

Research Hub

๐Ÿ”—https://www.researchhub.com/

We're a community seeking to improve prioritization, collaboration, reproducibility, and funding of scientific research

OSF by Center for Open Science

๐Ÿ”—https://osf.io/

Open platform to support your research and enable collaboration.

Behavioral Science Research Community

๐Ÿ”—https://www.reddit.com/r/BehSciResearch/

include research ideas, experiment designs, discussion of preprints, evaluation of published work, information on past work and discussions of its relevance now, moving from research to policy, and methods and tools.

Behavioural Science response to COVID-19

๐Ÿ”—https://www.scibeh.org/

Reconfiguring behavioral science for crisis knowledge management. How can the behavioral science community be most effective in responding to the present global COVIDโ€“19 crisis? What kind of science can we do, and how should we go about doing it?

COVID-19 Host Genetics Initiative

๐Ÿ”—https://www.covid19hg.org/

This initiative brings together the human genetics community to generate, share and analyze data to learn the genetic determinants of COVID-19 susceptibility, severity and outcomes.

Open and Collaborative Tools

eLife

๐Ÿ”—https://elifesciences.org/

eLife works to improve research communication through open science and open technology innovation

JoeDocs

๐Ÿ”—https://joedocs.com/

JoeDocs is a tool that allows for meaningful global collaboration. Users can easily create editable websites so anyone can contribute to open-source projects and tackle difficult challenges.

OpenCovid19

๐Ÿ”—https://app.jogl.io/program/opencovid19

OpenCovid19 is a JOGL program that develops open-source and low-cost tools and methodologies that are safe and easy to use in response to the COVID-19 pandemic. The OpenCovid19 program is powered by a global community of 4000+ volunteers and experts who create solutions to better prevent, detect, and treat COVID-19, and to help forecast the pandemicโ€™s evolution.

COVID-19 Pathways and Interactions Research Activities

๐Ÿ”—https://docs.google.com/document/d/1T61ZVn9r6qoq5kIp5TRjLLI583S0C-IqNu73UWZBZXU/edit#heading=h.asjjvhy3x09t

The purpose of this document and GitHub organization is to serve as a way for different groups who are doing biomedical relation extraction / knowledge modeling / curation / pathway modeling in the COVID-19 space to share resources and discuss improvements to their interoperability.

Research Analysis Tools

Image based attempt at Coronavirus2019 (COVID-19) diagnosis ๐Ÿ‘

๐Ÿ”—ย https://github.com/JordanMicahBennett/SMART-CT-SCAN_BASED-COVID19_VIRUS_DETECTOR

This project aims to develop a quick way to detect COVID-19 in Xray and CT scans using artificial neural networks.

COVID19 Research Explorer ๐Ÿ‘

๐Ÿ”—https://covid19-research-explorer.appspot.com/

Get answers to complex scientific questions related to COVID-19

Extracting Data From Preprints

๐Ÿ”—ย https://www.medrxiv.org/,ย https://www.biorxiv.org/,ย https://arxiv.org/

โœ‰๏ธย https://twitter.com/L_Brierley

Graphs about number and category of posts to different preprint servers.

Data Sources: The above 3 preprint servers via:ย https://github.com/lbrierley/epi_preprint

Cloud-based Genomic Data Science

๐Ÿ”—https://anvilproject.org/

AnVIL โ€“ an Analysis, Visualization, and Informatics Lab-space for democratizing genomic data access, sharing and computing across large genomic-related data sets.

Scite

๐Ÿ”—ย https://scite.ai/

๐Ÿ”—ย https://twitter.com/scite

A new platform that allows anyone to see how a scientific paper has been cited - not just how many times but specifically, if it has been supported or contradicted.

On this platform you can see how research articles on Coronavirus have been cited and if they have been supported or contradicted. For exampleย https://scite.ai/reports/10.1101/2020.01.25.919787

Extracting Genes from Published Pathway Figures

๐Ÿ”—ย https://github.com/wikipathways/cord-19

โœ‰๏ธย https://twitter.com/xanderpico

Pipeline for detecting gene mentions from pathway figures in the literature. 1.1M gene mentions in 60k figures so far from 1995-2019. Almost 5000 gene mentions found in 216 pathway figures from the CORD-19 dataset. Repo includes raw OCR, identified genes and initial characterization under CC0 waiver.

Causaly - Complete Coronavirus Drug Discovery Dataset

๐Ÿ”—ย https://www.causaly.com/

โœ‰๏ธ [email protected]

Causalyโ€™s relationship database was co-created for Novartis, and maps all biomedical literature, including related Corona diseases, most likely targets and potential treatments. Causalyโ€™s dataset has been provided to the Global Health Drug Discovery Institute (GHDDI) to support COVID-19 research. If you are a researcher or health official for COVID-19 research, reach out on the details above.

COVID-19 Ask Miso Anything

๐ŸŒ๐Ÿ”—https://covid19.askmiso.com/

A platform to help healthcare professionals, scientists, and public health officials ask questions and get answers, answers sourced from 7,000+ peer-review and pre-print research papers and guidelines and commentary from the CDC, WHO, and other experts.

Benchling

๐ŸŒ๐Ÿ”—https://www.benchling.com/covid-19/

Benchling is undertaking several initiatives to support researchers and health care workers on the front lines of the COVID-19 crisis. We are collecting research resources such as sequences and protocols, centralizing donation requests from the scientific community, and offering the Benchling platform pro bono for COVID-19 testing.

Builder: public release of work on Coronavirus

๐Ÿ”—htps://www.builder.ai/blog/builder-ais-open-source-covid-19-mapping-framework

An Open-Source COVID-19 Spread Detection and Vaccine Mapping Framework. Details the challenges faced when innovating to combat Coronavirus.

A fast, easy-to-use platform for microbiome analysis

๐Ÿ”—https://www.onecodex.com

Free analysis of SARS-CoV-2 genomics data. One Codex is offering free analysis and support for groups sequencing SARS-CoV-2 strains, including both clinical and public health laboratories.

AI algorithm trained from radiology images

๐Ÿ”—http://medicalsegmentation.com/covid19/

AI segmentation tool and algorithm trained on a compilation of COVID-19 radiology images

Open-source project for low cost detection

๐Ÿ”—ย https://app.jogl.io/program/opencovid19

๐Ÿ”—https://open-covid19.slack.com/join/shared_invite/zt-e1a4kc6a-h8dSqkIlqYBmWfaDhH5srA#/

Join the slack channel first as this is much more active than website

Genomic epidemiology of novel Coronavirus (nCoV-19)

๐Ÿ”—ย https://nextstrain.org/

โœ‰๏ธ [email protected]

Open source virus sequence tracker. Use visualisations to show pathogen evolution. ย Open issues, some of them marked as `good first issues`:

๐Ÿ”—ย https://github.com/orgs/nextstrain/projects/5ย from a quick glance skills required are Python and JS

Strain sequences map (Global Initiative on Sharing All Influenza Data)

๐Ÿ”—https://www.gisaid.org/

โœ‰๏ธhttps://www.gisaid.org/help/contact/

Sequence and strain info from GISAID. ย Provides a publicly accessible database designed by scientists for scientists, to improve the sharing of influenza data.

JoVE

๐Ÿ”—https://www.jove.com/coronavirusresource

dedicated link to COVID-19 resources from JoVE: Advancing research by making and publishing videos of scientific experiments from the top laboratories around the globe

Software

Vccafe

๐Ÿ”—https://www.vccafe.com/2020/03/18/100-startups-offering-free-products-and-services-in-response-to-coronavirus/?fbclid=IwAR0YcEaHhVbOOfgK7_9G7Lvy

Free products and services being offered to people working on Coronavirus

Delve

๐Ÿ”—https://docs.google.com/forms/d/e/1FAIpQLScdqhFqddSaQg3M_NmMiELyk4lylCIge_7wOLnJXGJTOiIrng/viewform

Delve (transcript analysis and synthesis tool) is offering a free 6-month membership for Coronavirus-related studies.

Castor

๐Ÿ”—ย https://www.castoredc.com/for-researchers/

โœ‰๏ธ [email protected]

Research Data Capture Platform made free for those researching COVID-19. Get in contact using the details above.

Better and faster decision making

๐Ÿ”—https://www.contextlabs.com/provenpaths

Allows analysts, researchers, and business users to make better and faster decisions using data that was previously inaccessible or unusable.

Randox

https://www.randox.com/coronavirus-randox/cormarketingonavirus-radox/

Providing tools to identify and combat the lethal strain of COVID-19

HPC

https://github.com/MauriceKarrenbrock/HPC_Drugarrenbrock/HPC_Drug

HPC_Drug a python middleware to automatize computational drug disco. It is still in an early stage but it is already being used to calculate binding free energy for a set of small molecules on SARS-CoV-2 proteins.

Rescale

๐Ÿ”—https://www.rescale.com/

Anyone in need of virtually unlimited high performance computing resources with no queue, for a special offer in this time of need. Rescale has been used to accelerate gene sequencing for customized patient care and a variety of intervention technology designs. Choose one of the ~400 software packages or bring your own solver.

Strategies

NIAID strategic plan details COVID-19 research priorities

eleases/niaid-strategic-plan-details-covid-19-research-priorities

The U.S. National Institutes of Health has detailed key priorities and strategic plans for Covid-19 research. The four key priorities: understanding the disease; developing diagnostics; testing treatments; and developing vaccines.

National Academy of Sciences Covid-19 Update Video

๐Ÿ‡บ๐Ÿ‡ธhttp://www.nasonline.org/about-nas/events/annual-meeting/nas157/covid19-update.html

This National Academy of Sciences video update hosted a diverse panel to speak to the whole experience on dealing with this pandemicโ€”from US to international, to the state of diagnostic, treatment and vaccine development, to the importance of communication. Filmed on 25 April 2020.

How can Human-Computer Interaction (HCI) research(ers) address the coronavirus crisis?

๐Ÿ”—http://www.cecchinato.me/how-can-hci-researchers-address-the-coronavirus-crisis-part-5/

Summary of Human Computer Interaction panel discussion

Collections of Trials

Covid Trials ย ๐Ÿ‘

๐Ÿ”—https://www.covid-trials.org/

Real-time dashobard of Covid-19 clinical trials which provides a visual representation of the evidence network of clinical trials of that are of the top 15 interventions. See the description in The Lancet (https://www.thelancet.com/pdfs/journals/landig/PIIS2589-7500(20)30086-8.pdf)

COVID-19 Collaboration Platform

๐Ÿ”—https://covidcp.org/

This platform is a home for randomized clinical trial protocols that are available for collaboration:

In the context of public health emergencies... study teams should be encouraged to collaborate on existing, ongoing protocols rather than starting new, independent trials.

Important Research/Collections

WHO website with built-in search:

๐Ÿ”—https://www.who.int/emergencies/diseases/novel-coon

COVID-19 Registered Trials

๐Ÿ”—ย https://www.cebm.net/oxford-covid-19/covid-19-registered-trials-and-analysis/

COVID-19 trials registered up to 8 March 2020โ€”an analysis of 382 studies. By Jeffrey K Aronson, Robin E Ferner, Nicholas DeVito, Carl Heneghan/MGlobal Coronavirus COVID-19

Clinical Trial Tracker

๐Ÿ”—https://www.covid-trials.org/

A COVID-19 clinical trials registry to collate all trials. The dashboard includes a world map of clinical trials, an interactive treatment network, a cumulative distribution graph of the number of interventions, and a cumulative distribution graph of expected enrolment by treatment.BAt volunteer database is a US-based database of scientists that are able to volunteer their time, expertise, equipment and consumables.

Cross-Publisher COVID-19 Rapid Review Initiative

๐Ÿ”—https://researchsupport.admin.ox.ac.uk/funding/cross-publisher-covid-19-rapid-review-initiative

Please help us rapidly and efficiently peer-review new research on COVID-19

COVID-19 Pandemic Shareable Scientist Response Databaseโ€‹

๐Ÿ”—https://datastudio.google.com/u/0/reporting/715dc546-0160-419d-976d-f87b219f2d5d/page/veXJB?fbclid=IwAR00IdW7AeIw46RUKiWsQYkqpkdGCzecbMQKKoS_NB7gKEi9Xc1MSFMhmFk

Database of scientists who are Columbia University's volunteering help

C19 Youtube Channel

๐Ÿ“บย https://www.youtube.com/channel/UC_zWVmJnKnhRrcj1cTUBLDg

Video podcast which highlights two to three recent scientific papers about COVID-19 and talks about where you might be able to contribute your skills. Created by Columbia University's Department of Biomedical Informatics.

Crowdsourced Science

Coronavirus Research Ideas for EAs

๐Ÿ”—https://forum.effectivealtruism.org/posts/AcksHPwQupvPRKcZm/coronavirus-research-ideas-for-eas

Research questions for effective altruists to focus on.

COVID-19 Science Subreddit

๐Ÿ”—https://www.reddit.com/r/COVID19/

This subreddit seeks to facilitate scientific discussion of this potential global pub lic health threat.

COVID-19 Ther

๐Ÿ”—https://www.lifespan.io/road-maps/the-covid-19-roadmap/e-covid-19-roadmap/

The COVID-19 Therapeutics roadmaThe p is a crowd apeutics roadmap

source project, tracking the development of potentially life-saving treatments against the novel Coronavirus

AnalysisMode

๐Ÿ”—https://www.analysismode.com/w.

This game empowers people to find patterns. (AI) to predict vaccine formulas

All (Washed) Hands on Deck: How to Help Yourself & Others Right Now wit

๐Ÿ”—https://www.alieward.com/ologies/handsondeckologies/handsondeck

Episode of the popular science podcast Ologies with invitation to scientists to volunteer on a testing project

ResearchHub

๐Ÿ”—https://www.researchhub.com/aboutsearchhub.com/about

ResearchHub is a community seeking to improve prioritization, collaboration, reproducibility, and funding of scientific research. Our goal is to make a modern mobile and web application where people can collaborate on scientific research in a more efficient way, similar to what GitHub has done for sof hardest problems.

More information can be found on our platform for Citizen Science and Crowdsourcing:

See also:

๐Ÿ”—https://coronavirustechhandbook.com/techcommunities

See also :

๐Ÿ”—https://coronavirustechhandbook.com/self-reporting

Challenges

Sag Home of the Polymath Wiki.e Health Coronavirus Drug Discovery Competition

๐Ÿ”—ย https://www.sage-health.org/coronavirus/

โœ‰๏ธ [email protected]

Sage Healthโ€™s open source competition to find potential Coronavirus treatments by machine learning. Page has descriptions of the methodology and datasets used by the three winners, and links to github repositories of their code.

COVID-19 Open Research Dataset Challenge

๐Ÿ”—https://www.kaggle.com/allen-institute-for-ai/CORD-19-research-challenge

Challenge to develop text mining tools to extract data from a machine-readable literature collection.

Citizen Science

Quantified Flu

๐Ÿ”—ย https://quantifiedflu.org

๐Ÿ”—ย https://www.twitter.com/gedankenstueckeย /

An open source, collaborative citizen science project to understand whether our wearable devices can be used to predic when we're sick!

[email protected] for Coronavirus Research

๐Ÿ”—https://foldingathome.org/covid19/

๐Ÿ”—ย https://twitter.com/drGregBowman

By downloading [email protected], you can donate your unused computational resources to the [email protected] Consortium, where researchers are working to advance our understanding of the structures of potential drug targets for 2019-nCoV that could aid in the design of new therapies. The data you help generate will be quickly and openly disseminated as part of an open science collaboration of multiple laboratories around the world, giving researchers new tools that may unlock new opportunities for developing lifesaving drugs.

FoldingHome - papers

๐Ÿ”—https://the-eye.eu/public/Papers/CoronaVirusPapers/

Papers pulled out by the FoldingHome project.

Stanford University Folding Project

๐Ÿ”—https://pcmasterrace.org/folding/

Folding at home is a project started at Stanford University, also involving many other top universities and laboratories all around the world, and that uses our computing power to help study the process of protein folding so as to aid research on various diseases, including many forms of cancer, Alzheimer's, Huntington's and Parkinson's.

The Zooniverse

๐Ÿ”—ย https://www.zooniverse.org/

๐Ÿ—ฃ Twitter:ย https://twitter.com/the_zooniverseย / online forum:

talk.zooniverse.org

โœ‰๏ธ [email protected]

Online citizen science platform with over 2 million registered volunteers who have participated in hundreds of projects on a variety of topics, including biomedical research and time-sensitive projects for e.g. disaster relief. Specialities include advanced pattern detection in images and other datasets, and interfaces with machine learning algorithms in a variety of disciplines. If you have a dataset that urgently needs help sorting through, get in touch. They have expertise in building effective projects that collect results at expert-level accuracies. Some research councils have told us funding is available to support this work.

Young Foundation Study

๐Ÿ”—https://youngfoundation.org/promote_home/community-covid-you/

Young Foundation launches UK-wide programme to understand the impact of COVID-19 on communities.

Fundings and Grant

๐Ÿ”—https://coronavirustechhandbook.com/fundingandbook.com/funding

NSERC Alliance COV

๐Ÿ”—https://www.nserc-crsng.gc.ca/Innovate-Innover/COVID-19/index_eng.asp

Offers grants of up to $50,000 to university researchers collaborating with private-sector, public-sector or not-for-profit organizations.

Letโ€™s Fund

๐Ÿ”—https://lets-fund.org/ps://lets-fund.org/

Crowdfunding for highly impactful causes

Can scientists fill the science journalism void? Online public engagement with science stories authored by scientists

๐Ÿ”—https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0222250

In recent years traditional journalism has experienced a collapse, and science journalism has been a major casualty. One potential remedy is to encourage scientists to write for news media about science.

Gerstein Science Information Centre

๐Ÿ”—https://guides.library.utoronto.ca/c.php?g=715025&p=5100061

This guide is a living document. More content will be added as new information and resources become available and as the COVID-19 situation develops. Last updated: May 21, 2020.

Gap between science and media revisited

๐Ÿ”—https://www.pnas.org/content/110/Supplement_3/14102

Science communication can't be left just to journalists. Researchers and Medical experts must communicate to the public too.

Skype a Scientist

๐Ÿ”—https://www.skypeascientist.com/kypeascientist.com/

Skype a Scientist matches scientists with classrooms around the world.

Edit wikipedia

๐Ÿ”—https://en.wikipedia.org/wiki/2019%E2%80%9320_coronavirus_pandemic

Help wikipedians edit the relevant pages surrounding the Coronavirus pandemic. Hereโ€™s a handy tutorial for beginners.

Twitter accounts to follow on Covid-19

๐Ÿ”—https://www.ucl.ac.uk/oppenheim/Covid-19_tweeps.shtml?id-19_tweeps.shtml?

A list of scientists and organisations

Coronavirus outbreak changes how scientists communicate

๐Ÿ”—https://www.sciencemag.org/news/2020/02/completely-new-culture-doing-research-coronavirus-outbreak-changes-how-scientistsnges-how-scientists

pre-print publishing, slack, twitter -Restoring the culture of doing research - outbreak changes how scientists communicate, lay article.

Science Chatbots/ Expert Answers

COVID-19 BOT

๐Ÿ”—https://covid19.fas.org/

The Federation of American Scientists, the New Jersey Office of Innovation and the Governance Lab have developed an COVID-19 Ask-A-Scientist ChatBot service, which is powered by volunteers.

Jennifer

๐Ÿ”—https://www.newvoicesnasem.org/jennifer-ai-chatbot

National Academies of Science, Engineering and Medicine (NASEM) ha aive developed the Jennifer COVID-19 Chatbot. You can sign up as a volunteer to help answer questions and expand the ChatBotโ€™s knowledge base.

Trusted Voices

๐ŸŒ๐Ÿ”—https://www.ucl.ac.uk/oppenheim/Covid-19_tweeps.shtml?

A list of scientists and organisations with expertise who arehemselves highly followed by experts

Ask A Behavioural Scientist

๐Ÿ”—https://www.reddit.com/r/BehSciAsk/

Global Pandemic Prediction Dashboard

๐ŸŒ๐Ÿ”—https://pandemic.metaculus.com/dashboard

Aggregated forecasts on critical COVID-19 questions including global epidemlogy, testing and tracking, medical interventions, government policy, economy and business, social and political impact, and clinical science.

Blogs

A blog on Coronavirus

๐Ÿ”—https://bryanalexander.org/category/coronavirus/tegohttps://twitter.com/BryanAlexander.com/BryanAlexander

Bryan Alexander is a futurist. He is currently posting every 1-2 days about Coronavirus and higher education.

80000 Hours

๐Ÿ”—https://80000h

A non-profit that provides research and support to help people find careers that effectively tackle pressing problems. This page presents all our content related to the COVID-19 crisis and other useful resources. It covers key information about the crisis, how to use your time and money to tackle it effectively, ideas on how to personally cope, and how to use your career to help prevent future pandemics.cision-making stuff

โ€˜A completely new culture of doing research.โ€™ Coronavirus outbreak changes how scientists communicate

๐Ÿ”—https://www.sciencemag.org/news/2020/02/completely-new-culture-doing-research-coronavirus-outbreak-changes-how

COVID-19 living survey - live draft

https://docs.google.com/document/d/1dSD6y5U5eUctNNE-SFJOyNeGkPzOCYbgM07r8aRAU44/edit#heading=h.qzvmntkis2ux

A research project to understand why citizens do/donโ€™t enact key public health behaviours that can slow the spread of the novel Coronavirus. A live draft of the Survey of COVID-19 Responses to Understand Behaviour (SCRUB) being collaboratively developed by an international group of researchers.

Using infrared camera images t๐Ÿ”—https://err.ersjournals.com/content/28/152/190011ntehttps://support.owlstonenanotech.com/hc/en-us/community/topics?_ga=.172014691.1757891918.1583628709-1120005712.158362870920005712.1583628709

โœ‰๏ธ [email protected]

I have multiple methods to screen images, I have found indicators specific to COVID-1on long range military optics. Using the sensor (gyroscope, accelerometer) data in your phone to detect cough pattern via algorithm, based on how phone is being held, or microphone to listen/apply AI to cough with distinguishing characteristics to pneumonia specific to COVID-19 - Also Smartphone or other Breath Biopsy to detect

CRISPR-based therapies

๐Ÿ”—http://bit.ly/coronavirus-guides

See CRISPR guide RNA design tutorial here for the spike (S) protein

Seasonal Mimicry Approaches for Combating COVID-19

๐Ÿ”—https://docs.google.com/document/d/1wCZ2floqy25CwTgNPj7CDxJE3JW53NqpE_7T13ZGZ4E/edit?usp=sharing

Collaborative research document investigating potential tactics and strategies to combat COVID-19 transmission and human susceptibility through exploiting its apparent sensitivity to seasonal conditions. Is it possible to recreate these conditions - whatever they are - out-of-season?