Difference between revisions of "COVID-19"

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<b>Graph Gurus 37: Combining Natural Language Processing with a Graph Database for COVID-19 Dataset
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</b><br>Learn how to process text and extract entities (words and phrases) as well as classes linking the entities using SciSpacy, a [[Natural Language Processing (NLP)]] tool. Import the output of NLP and semantically link it in TigerGraph  Run advanced analytics queries with TigerGraph to analyze the relationships and deliver insights
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<b>The Covid Graph - Neo4j Online MeetUp
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</b><br>Martin Preusse (Kaiser & Preusse) provides an overview of the Covid Graph Knowledge Graph, linking many different data sources, such as genome information and research papers together to aid rapid research on COVID-19.
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http://covidgraph.org
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=== NLP-Powered Epidemiological Investigation ===
 
=== NLP-Powered Epidemiological Investigation ===

Revision as of 08:40, 29 August 2020

Youtube search... ...Google search

Machine Learning Projects Against COVID-19
IBM Research is proud to host professor Yoshua Bengio — one of the world’s leading experts in AI — in a discussion of how AI can contribute to the fight against COVID-19. Professor at the Université de Montréal since 1993, Bengio is also the founder and scientific director of Mila–Quebec Artificial Intelligence Institute, the world’s largest university-based research group in deep learning. In this video, he describes two of many projects started at Mila to to contribute to the fight against COVID-19. The first involves searching for antiviral drugs and the second is about predicting contagiousness risk based on data acquired on phones.

How is AI helping to fight the coronavirus COVID-19
In this special video, I give an overview of the possible areas that AI helps us fight the coronavirus and then deep dive a little bit into how data is used with machine learning in that fight. Of course, there are many areas where AI is helping. Also, just AI is not a silver bullet. We need people, experts, processes, tools, governments, health organizations, and many entities to come together in a systematic way to defeat the virus. Here's what I can do to help you. I speak on the topics of architecture and AI, help you integrate AI into your organization, educate your team on what AI can or cannot do, and make things simple enough that you can take action from your new knowledge.

Collective and Augmented Intelligence Against COVID-19 (CAIAC) Launch
A virtual event hosted by the Stanford Institute for Human-Centered Artificial Intelligence (HAI) and the AI Initiative at The Future Society to officially announce a global alliance on the COVID-19 pandemic response. The alliance will provide an information service not yet available that is vitally important to facing and mitigating the crisis. In parallel with the UN High Level Political Forum, the launch agenda will include details on the partnership and speakers from the private sector, academia, government, and multilateral institutions, including UNESCO, the World Bank, the WHO and UN Global Pulse, offering unique perspectives on the roadblocks and opportunities to addressing the COVID-19 pandemic. Topics covered will include challenges with disparate data and determining meaningful information in the fight against the virus, as well as the importance of building multi-stakeholder collaborations. Fei-Fei Li

AI and Data Science against COVID-19: part 1
Starting on 11 May 2020, The Finnish Center for Artificial Intelligence FCAI organises a webinar series together with Helsinki Centre for Data Science HiDATA. The webinar series sheds light on how artificial intelligence-based systems and data science could be of help while fighting against COVID-19. Come and listen to the top researchers at University of Helsinki and Aalto University and other related talks in the field of artificial intelligence and data science. The sessions are chaired by FCAI and HiDATA leading professors.

Covid 19 and Digital Health: Challenges and Opportunities
Hamad bin Khalifa University

Intelligent Detection & Artificial Intelligence Solution for Covid-19
Premiered Jul 1, 2020

Robotics and AI for COVID Resilience
Neil Jacobstein, mediaX Distinguished Visiting Scholar and chair of the Artificial Intelligence and Robotics Track at Singularity University hosted the third webinar in the mediaX series “Thinking Tools for Wicked Problems”. Neil’s webinar covers some of the current uses of AI in addressing COVID-19, focusing on large scale collaborations and many team efforts to develop drugs and vaccines. Included in this are these three takeaways. 1. AI and robotics are already delivering significant value in combating pandemic disease. 2. International collaboration on machine learning datasets and open source robotic designs are accelerating progress. 3. AI and robotics can decrease cost, increase effectiveness, accelerate solutions, and save lives in the current COVID-19 pandemic, and the public health crises to come.

Webinar: Leveraging Artificial Intelligence in a COVID-19 Environment
Get the latest insights on the use of artificial intelligence and machine learning in the fight against COVID-19 through this informative Applied Radiology webinar. You'll hear from industry experts on what role these technologies play in this new era. This program is brought to you through a cooperative effort between New York University School of Professional Studies and the American Board of Artificial Intelligence in Medicine.

MUSC AI effort to address COVID-19
Matthew Turner, Mathew Davis, M.D., Stephane Meystre, M.D., Les Lenert, M.D., Jihad Obeid, M.D. Experts from MUSC share how they leveraged artificial intelligence in response to COVID-19

Stanford HAI - COVID-19 and AI: A Virtual Conference - Session One
Sponsored by the Stanford Institute for Human-Centered Artificial Intelligence (HAI), COVID-19 and AI: A Virtual Conference convened experts from Stanford and beyond to advance the understanding of the virus and its impact on society. The speakers and topics engaged the broad research community, government and international organizations and civil society, uniting a global community toward solutions to benefit all of humanity. Fei-Fei Li


Research

Analyzing COVID-19: Can the Data Community Help?
Online Tech Talk hosted by Denny Lee, Developer Advocate @ Databricks My name is Denny Lee and I’m a Developer Advocate at Databricks. But before this, I was a biostatistician working on HIV/AIDS research at the Fred Hutchinson Cancer Research Center and University of Washington Virology Lab in the Seattle-area. Watching my friends and colleagues working the front lines of this current pandemic has inspired me to see if we - as the data scientist community - can potentially help with “flattening the curve”. But before we dive into data science, remember - the most important thing you can do is wash your hands and social distancing! With the current concerns over SARS-Cov-2 and COVID-19, there are now available various COVID-19 datasets on Kaggle and GitHub as well as competitions such as the COVID-19 Open Research Dataset Challenge (CORD-19). Whether you are a student or a professional data scientist, we thought we could help out by providing a primer session with notebooks on how to start analyzing these datasets. For this primer session we will review (and shortly publish thereafter) iPython notebooks working with Apache Spark and/or Pandas (or both) for the following datas sets.

CORD-19 Search: Using Machine Learning to Explore COVID-19 Scientific Literature | AWS Public Sector
Healthcare providers and researchers face an exponentially increasing volume of information about COVID-19, which makes it difficult to derive trends that can inform treatment. In response, Amazon Web Services (AWS) launched CORD-19 Search, a search website powered by machine learning, to help researchers quickly search for research papers and documents to answer questions like “When is the salivary viral load highest for COVID-19?”

COVID-19 Epidemic Mitigation via Scientific Machine Learning (SciML)
Chris Rackauckas Applied Mathematics Instructor, MIT Senior Research Analyst, University of Maryland, Baltimore School of Pharmacy This was a seminar talk given to the COVID modeling journal club on scientific machine learning for epidemic modeling

Data Analytics Tools for COVID-19 Applications
David Yang - Hamad bin Khalifa University


Research Tools

Research Datasets

Using natural language processing, AI could generate valuable new insights from the published research.

Cleaning and exploring the COVID-19 Open Research Dataset (CORD-19)
I show how to open and explore the CORD-19 dataset of scientific publications related to COVID-19 (coronavirus). This includes parsing json files with jsonlite, rectangling the data with tidyr's hoist and unnest_wider, and doing named entity recognition by combining tidytext with the spacyr package and scispacy models. The CORD-19 dataset was released by a collaboration of government and research organizations, and is hosted by Kaggle

Data and AI For COVID 19(05/09/2020)
As the COVID-19 pandemic sweeps the globe, big data and AI have emerged as crucial tools for everything from diagnosis and epidemiology to therapeutic and vaccine development. Here, we collect and review the latest development in how big data is fighting back against COVID-19. Andrew is a senior data science engineer with IBM. Andrew is a data science and machine learning advocate. His current interests are computer vision, Natural Language Processing (NLP), and scaling machine learning in a hybrid multi-cloud enterprise environment. Before joining IBM, Andrew was an enterprise architect with Novartis Pharmaceuticals. Previously he was a senior tech lead managing large scale news media Internet operations in New York.

Which help to uncover potential patterns across research papers...

COVID-19 Knowledge Graph

Graph Gurus 37: Combining Natural Language Processing with a Graph Database for COVID-19 Dataset
Learn how to process text and extract entities (words and phrases) as well as classes linking the entities using SciSpacy, a Natural Language Processing (NLP) tool. Import the output of NLP and semantically link it in TigerGraph Run advanced analytics queries with TigerGraph to analyze the relationships and deliver insights

The Covid Graph - Neo4j Online MeetUp
Martin Preusse (Kaiser & Preusse) provides an overview of the Covid Graph Knowledge Graph, linking many different data sources, such as genome information and research papers together to aid rapid research on COVID-19. http://covidgraph.org

NLP-Powered Epidemiological Investigation

When the Coronavirus outbreak hit China, Alibaba’s DAMO Academy developed the StructBERT NLP model. Being deployed in Alibaba’s ecosystem, the model powered not only the search engine on Alibaba’s retail platforms but also anonymous healthcare data analysis. By analyzing the text of medical records and epidemiological investigation, the Centers for Disease Control (CDCs) used StructBERT for fighting against COVID-19 in China cities. Being based on the BERT pre-trained model, StructBert not only understands the context of words in search queries but also leverages the structural information: sentence-level ordering and word-level ordering.

Kaggle

The primary goal of Kaggle’s COVID-19 effort is to find factors that impact the transmission of COVID-19 (particularly those that map to the NASEM/WHO open scientific questions). You've already shown great results in producing meaningful insights to help address the pandemic! - Kaggle Team

  • COVID-19 Dataset Challenge: Kagglers will need to find, curate, share -- and join -- useful public datasets. You can review the relevant threads for sharing datasets and discussing dataset ideas to get an idea of the types of things that Kagglers find most useful. For this challenge we are only considering public datasets on Kaggle.

Acknowledgments

3-s2.0-B9780443073670000409-f040-001-9780443073670.jpg

Virus Management & Operations

Virus Testing

Virus Detection

How is Coronavirus Diagnosed?

Contact Tracing

Tracking

Reading COVID-19 graphics


Simulations

Outbreak Prediction

Vaccines and the Immune Response

Vaccines are among the most powerful weapons we have for preventing infectious disease. In the 1950s, hundreds of thousands of Americans were infected by measles every year. But by 2015, after decades of vaccination, a mere 191 cases were reported. Unfortunately, most vaccines take years to develop, and in the midst of a pandemic, society can’t wait. One promising approach to accelerate this process is to use machine learning, a form of artificial intelligence, to guide vaccine design. What does it mean to design a vaccine? Vaccines work by exposing you to parts of a pathogen with the aim that your immune system will more easily recognize it in the future, mounting a quicker and more robust response. The oldest forms of vaccines were composed of dead viruses that are relatively safe but sometimes ineffective or live, weakened viruses that pose greater safety risks. More recent vaccines tend to contain specific components of a virus (such as the surface protein for hepatitis B vaccines) that are judged to be safe and effective. Future vaccines might even include specific viral protein fragments. Regardless of the way in which a vaccine is composed, the design goal is always to include viral components that are highly immunogenic: visible to your immune system and eliciting an immune response. Can artificial intelligence help us design vaccines? | Ethan Fast and Binbin Chen - Brookings Institution

Unlocking the Pathogen Puzzle

Knowledge Graphs for Drug Repurposing

Drug Discovery

drug_discovery_and_development_process_Slide01.jpg

Fighting the Virus

Society Impacts

Social Distancing

Behavioral Health

Logistics


Improper Payments

Policy - Data Driven Decisions

Intelligence Community (IC)

Understanding the Virus

What is Corona virus? What is COVID-19? Coronaviruses (CoV) are a large family of viruses that cause illness ranging from the common cold to more severe diseases such as Middle East Respiratory Syndrome (MERS-CoV) and Severe Acute Respiratory Syndrome (SARS-CoV). Coronavirus disease (COVID-19) caused by SARS-COV2 is a new strain that was discovered in 2019 and has not been previously identified in humans. Coronaviruses are zoonotic, meaning they are transmitted between animals and people. Detailed investigations found that SARS-CoV was transmitted from civet cats to humans and MERS-CoV from camels to humans. Several known coronaviruses are circulating in animals that have not yet infected humans. It is believed that COVID-19 was transmitted from pangolin to humans (current theory). Common signs of infection include respiratory symptoms, fever, cough, shortness of breath and breathing difficulties. In more severe cases, infection can cause pneumonia, severe acute

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The "Six-Foot Rule" For The Coronavirus Is Based On Science From The 1930s. | Lydia Bourouiba - MIT disease transmission researcher - JAMA

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From email stating the source is The Center for Infectious Diseases at Johns Hopkins...

  • The virus is not a living organism, but a protein molecule (DNA) covered by a protective layer of lipid (fat), which, when absorbed by the cells of the ocular, nasal or buccal mucosa, changes their genetic code. (mutation) and convert them into aggressor and multiplier cells.
  • Since the virus is not a living organism but a protein molecule, it is not killed, but decays on its own. The disintegration time depends on the temperature, humidity and type of material where it lies.
  • The virus is very fragile; the only thing that protects it is a thin outer layer of fat. That is why any soap or detergent is the best remedy, because the foam CUTS the FAT (that is why you have to rub so much: for 20 seconds or more, to make a lot of foam).

By dissolving the fat layer, the protein molecule disperses and breaks down on its own.

  • HEAT melts fat; this is why it is so good to use water above 25 degrees Celsius for washing hands, clothes and everything. In addition, hot water makes more foam and that makes it even more useful.
  • Alcohol or any mixture with alcohol over 65% DISSOLVES ANY FAT, especially the external lipid layer of the virus.
  • Any mix with 1 part bleach and 5 parts water directly dissolves the protein, breaks it down from the inside.
  • Oxygenated water helps long after soap, alcohol and chlorine, because peroxide dissolves the virus protein, but you have to use it pure and it hurts your skin.
  • NO BACTERICIDE OR ANTIBIOTIC SERVES. The virus is not a living organism like bacteria; antibodies cannot kill what is not alive.
  • NEVER shake used or unused clothing, sheets or cloth. While it is glued to a porous surface, it is very inert and disintegrates only
    • between 3 hours (fabric and porous),
    • 4 hours (copper and wood)
    • 24 hours (cardboard),
    • 42 hours (metal) and
    • 72 hours (plastic).

But if you shake it or use a feather duster, the virus molecules float in the air for up to 3 hours, and can lodge in your nose.

  • The virus molecules remain very stable in external cold, or artificial as air conditioners in houses and cars.

They also need moisture to stay stable, and especially darkness. Therefore, dehumidified, dry, warm and bright environments will degrade it faster.

  • UV LIGHT on any object that may contain it breaks down the virus protein. For example, to disinfect and reuse a mask is perfect. Be careful, it also breaks down collagen (which is protein) in the skin.
  • The virus CANNOT go through healthy skin.
  • Vinegar is NOT useful because it does not break down the protective layer of fat.
  • NO SPIRITS, NOR VODKA, serve. The strongest vodka is 40% alcohol, and you need 65%.
  • LISTERINE IF IT SERVES! It is 65% alcohol.
  • The more confined the space, the more concentration of the virus there can be. The more open or naturally ventilated, the less.
  • You have to wash your hands before and after touching mucosa, food, locks, knobs, switches, remote control, cell phone, watches, computers, desks, TV, etc. And when using the bathroom.
  • You have to HUMIDIFY HANDS DRY from so much washing them, because the molecules can hide in the micro cracks. The thicker the moisturizer, the better.
  • Also keep your NAILS SHORT so that the virus does not hide there.

-JOHNS HOPKINS HOSPITAL

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The Exponential Power of Now | Nicholas P. Jewell is Chair of Biostatistics and Epidemiology at the London School of Medicine and Tropical Medicine


Epidemiology, Pathophysiology, Diagnostics

Sialic acids are a diverse group of carbohydrates that blossom like leaves from the tips of proteins covering the surfaces of human cells. ...This canopy of sugars is typically the first thing you'd bump into if you were the size of a virus or bacterium, so it's no surprise that these chemicals serve as a security badge, identifying friend from foe."Most coronaviruses infect cells in two steps – first by recognising abundant sialic acids as binding sites to gain a foothold, and then seeking out the higher affinity protein receptors like ACE2," says physician Ajit Varki. Strangely, a human-like elimination of the NeuA5c gene in mice gives them a boost in running ability, and in activating other parts of their immune system. Given the new cognitive and physical talents emerging in humans a couple of million years ago, asthma and cholera might well have been worth the swap. Humans Might Be So Sickly Because We Evolved to Avoid a Single Devastating Disease | Mike Mcrae and Ann Gibbons - Science Alert - Science Magazine

Treatment, Prognosis, Precautions | Zach Murphy

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