Data pipelines

A list of the data pipelines that create the database.

CORD-19

Collection of COVID-19 related scientific papers with metadata like authors, affiliations, references

Repo URL: https://github.com/covidgraph/data_cord19

Primary nodes: Paper, BodyText, Abstract, Author, etc

Maintainer(s): Tim

Cellmap base

Base data from Cellmap ()

Repo URL: Not public yet?

Primary nodes: Genes, Transcripts, Proteins, etc

Maintainer(s): Martin

Cellmap annotation

Gene annotation from Gene Ontology

Repo URL: Not public yet?

Primary nodes: ?

Maintainer(s): Martin

Cellmap GTEx

Gene Expression data from GTEx

Repo URL: Not public yet?

Primary nodes: ?

Maintainer(s): Martin

Johns Hopkins Covid Cases

Covid case statistics from JHU and UN World Population data

Repo URL: https://github.com/covidgraph/data_jhu_population

Primary nodes: DailyReport, Province, Country

Maintainer(s): Martin, Tim

Covid patents

From the Lens.org Covid19 Patent Dataset

Repo URL: https://github.com/covidgraph/data-lens-org-covid19-patents

Primary nodes: Patent, PatentTitle, PatentAbstract, etc

Maintainer(s): Tim

Clinical Trials

From ClinicalTrials.gov

Repo URL: https://github.com/covidgraph/data_clinical-trials-gov

Primary nodes: Clinical Trial

Maintainer(s): Kirsten

Biobase

?

Maintainer(s): Martin?

helomics/data_hetionet

?

https://github.com/helomics/data_hetionet

Processing pipelines

These pipelines do not add to the graph from an external source, instead they do some processing on the data in the graph and add to the graph from those results.

Fragmentize Text

Repo URL: https://github.com/covidgraph/graph-processing_fragmentize_text

Maintainer(s): Martin?

Text gene match

Repo URL: https://github.com/covidgraph/graph-processing_text_gene_match

Maintainer(s): Martin?