The document presents OpenVirus, a scientific knowledge base aimed at citizens during the COVID-19 pandemic, developed by Peter Murray-Rust and others. It outlines the structure, core facets, and challenges faced in creating this resource, including data scrapers, analysis tools, and various scientific topics addressed. Interns gained skills in science, data science, and project management while contributing to the knowledge base.

1. Virtual, 2020-05-28
openVirus
Scientific Knowledge for citizens in the time of COVID
TheContentMine and Others
Presented by Peter Murray-Rust
A new knowledgebase by/for citizens
Images from ContentMine CC BY and Wikimedia CC BY-SA
pm286@cam.ac.uk
peter@contentmine.org
INYAS NIPGR
KARYA

2. 1982 scientific paper predicts 2015 Liberian Ebola outbreak

3. TIGR2ESS 2019 Delhi
Food Security FEB 2019
Priya and Kareena 3rd year
interns on openVirus
JUNE 2020
Reusable
• Technology
• Strategy
• management

4. 5 core facets country
drug
funder
disease
virus

5. 8 miniprojects
Corpus (950 docs)
Dictionary (3000 terms)
3 complex topics:
- zoonosis (animal hosts)
- non-pharmaceutical (masks, social distancing, etc.)
- test and trace
- country
- disease
- drug
- funder
- virus

6. framework: ami + CProject data
scrapers: getpapers, Ferret, curl, scrapy
cleaners: PDFBox, Tidy/Jsoup, etc. Grobid
transformers: xml2html, ami ocr, KNIME
dictionaries: ami dictionary
indexing and annotation: Solr, ami
Analysis and display: R, KNIME
SOME TOOLS

7. challenges
- connectivity
- language
- equipment (laptops mobiles)
skills learnt
- science/medicine - viruses and disease
- data science - tools, quality, validation, repositories
- machine learning, NLP
- management - planning, recording, collaboration
Achievement 2020-08-10 Interns Jitu, Urja, Pooja, Simraleen, Omprakash, Dheeraj
Slides from Peter Murray-Rust, CC-BY ; images NIPGR, Wikimedia, PM-R