Useful External Resources

CoronaWhy General External Resources (an Awesome-List)

Project Management

1. V&T Trello
2. Vaccine-related tasks spreadsheet
3. Example of Kaggle contributions page
4. CoronaWhy General Trello
5. Projected Deliverable Final Notebook Template

Shared Resources

1. Shared datasets in CoronaWhy - courtesy of Brandon Eychaner
2. A compiled collection of resources for biomedical relation extraction

Code Practices

1. Best practices for data science code
2. Best practices for creating a good analytics report

Kaggle Notebooks

1. Brandon's pre-processing notebook [possibly depricated]
2. Kaggle notebook with some independent drug exploration
3. Another notebook with some independent v&t exploration
4. Original Kaggle call to join CoronaWhy
5. Embeddings from abstracts
6. Parse the full body text and clean up

NLP Resources

1. A covid pre-trained BERT model for NLI
2. SpaCy Universe - modules for a variety of relevant NLP tasks in Python including relation extraction and negation detection
3. SciBite NER Annotations

Biology Resources

1. COVID-19 Cell Atlas
2. Vaccines and therapeutics tracker
3. Open clinical trials
4. Genomic sequence and variants of covid

Miscellaneous Resources

1. A covid literature knowledge graph
2. Corona Data Scraper
3. Pathway extraction from figures
4. MIT Open Source COVID repurposing challenging - features some interesting datasets and points to other good resources

Literature

1. Example of a computational (homology model based) paper for repurposing for COVID-19
2. Massive experimental effort to discover novel COVID-relevant protein-protein interactions (PPIs)
3. Levels of evidence in evidence-based medicine