This smaller presentation was a part of Dr Peter Murray Rust's Mphil Computational Biology Seminar presentation.

1. https://en.wikipedia.org/wiki/Wikidata by Unknown Author is licensed under CC BY-SA
Cambridge-India
penVirus
Overview of the Project and the Community
https://en.wikipedia.org/wiki/Wikimedia_Foundation by Unknown Author is licensed under CC BY-SA
Presenters: Shweata N. Hegde and Dr. Ambreen Hamadani

2. Outline
• How we Built our Team
• The Architecture
• Ambreen – About ML and Jupyter Notebook
endeavours.

3. NO simple way for citizens or even researchers to
get insights from the Open Literature!
Open Climate
Knowledge

4. Where it began…
INYAS KARYA
Interns
NIPGR Interns
CamBio
Hackathon 2020

5. Diverse Backgrounds!
Built upon Collaboration, Inclusivity, and
Equity

6. We work in the open
 Meet Biweekly (virtually):
Abuzz with Ideas
 Update our progress
Show it to the World
Credits: MS PowerPoint Icons
Open Notebook Publication

7. #openVirus lab meeting livestreamed on YouTube
Links: https://www.youtube.com/watch?v=XiTngk-POm8
https://www.youtube.com/watch?v=AXmqMMGiZUw&t

8. https://github.com/petermr/openVirus/wiki/Outreach
Outreach!
@ CamBioHackathon 2020

9. Mini Projects for gathering insights
Viral
Epidemics
Credits: MS PowerPoint 3D Models;
How do we text mine the
literature?

10. Dictionary
Ami search
Mini-corpora
Results
Architecture

11. 1. Mini-corpora
getpapers
This Photo by Unknown Author is licensed under CC BY-NC
X
1000
Section
clean
Downloads hundreds of
papers in minutes
http://www.seer.ufu.br/index.php/sociedadenatureza/issue/view/1922is licensed under CC BY
On local
machines.
Open Repository
Preprint Servers
Latin American Repository
Has millions of open
access papers.

12. Dictionary
Ami search
Mini -corpora
Results
X 1000
Mini-corpora
getpapers
This Photo by Unknown Author is licensed under CC BY-SA

13. Wikidata
• A sister project of Wikimedia Foundation.
• Central Storage for Structured Data.
• Has almost 90 Million Items
Wikidata ID

14. 2. DictionariesWikidata-based Annotation
ami dict
This Photo by Unknown Author is licensed under CC BY-SA
Dictionary

15. Extract multidisciplinary knowledge
“Viral Epidemics”
MULTILINGUAL
By Version 1 by Nohat (concept by Paullusmagnus); Wikimedia. - File:Wikipedia-logo.svg as of 14 May 2010T23:16:42, CC BY-SA 3.0, https://en.wikipedia.org/w/index.php?curid=33285413
Animal carriers of disease
Masks
Dictionaries…
Country Diseases Drugs Organizations
Viruses
Test and Trace Zoonoses
Non-Pharmaceutical
Interventions

16. This is how a dictionary would look like…
Different Language Equivalents
for a given term

17. Mini-corpora
getpapers

18. Ami search, Our ‘search engine’
Mini-corpora
Results
Dashboard
Co-occurrence
Ami
Search and
annotate
This Photo by Unknown Author is licensed under CC BY-SA

19. Transitioning towards
Jupyter Notebook…
https://en.wikipedia.org/wiki/File:Jupyter_logo.svgCC BY-SA

20. • Repositories are for everyone everywhere
• Save the time of the reader
• The repository system is a growing
communal organism
Credits: India Post, Government of India - [1], GODL-India, https://commons.wikimedia.org/w/index.php?curid=74877762; By Gennadi Blindmann (gblindmann@hotmail.com) - Photo, http://www.multi-touch-solution.com/, Public Domain,
https://commons.wikimedia.org/w/index.php?curid=12145131; hudsoncrafted, Pixabay
Inspiration
Father of Global Library Science

21. Our Colorful Team
UK, India, China

22. Our Colorful Team
UK, India, China

23. Aishwarya Dharan
MSc (Bioinformatics)
Central Univ. Punjab
Shweata N. Hegde
BSc Student
Regional Inst. Of Edu. Mysore
Ayush Garg
GIIS Singapore
Anugrah S. R.
BS-MS(Biological
Sciences) IISER Bhopal
Ebhoimen Israel
Samuel Adegboyega
University, Nigeria
Padmini Rai
B. Tech Computer
Science
Mukul Bhambri
Undergrad, SRM
University

24. Useful Links
Main GitHub page: https://github.com/petermr/openVirus
Dictionary GitHub page: https://github.com/petermr/dictionary
Outreach: https://github.com/petermr/openVirus/wiki/Outreah
Over to Dr. Ambreen
Hamadani…