Andrew Su

report all REVEL scores from dbNSFP

1

Reported in an [email to the mailing list](https://groups.google.com/g/biothings/c/ZKHGA-soMFY/m/CLlU9rK5BgAJ): >I have a question for you about the REVEL scores, REVEL scores are transcript-specific, and dbSNFP updated their site in early 2022...

Examples of non-ideal merging of records

1

The merging of multiple records in source databases into a single record in mychem.info is a challenging process, and one where I doubt we'll ever get it perfectly "right". Having...

[This PubChem record](https://pubchem.ncbi.nlm.nih.gov/compound/142582737) (InchiKey: WRSNFEVXRKOMLL-UHFFFAOYSA-N) lists "SRI-37330" as a synonym. But that synonym (nor any synonyms) is not listed in the corresponding mychem record https://mychem.info/v1/chem/WRSNFEVXRKOMLL-UHFFFAOYSA-N, which means that this free-text...

Adverse reaction data from MedEffect Canada

3

More info here: https://www.canada.ca/en/health-canada/services/drugs-health-products/medeffect-canada/adverse-reaction-database.html zip file download here: https://www.canada.ca/en/health-canada/services/drugs-health-products/medeffect-canada/adverse-reaction-database/medeffect-canada-caveat-privacy-statement-interpretation-data-search-canada-vigilance-adverse-reaction-online-database.html ``` Archive: extract_extrait.zip Length Date Time Name --------- ---------- ----- ---- 24844376 2019-10-28 10:20 cvponline_extract_20190731/drug_product_ingredients.txt 1351083 2019-10-28 10:20 cvponline_extract_20190731/drug_products.txt 121 2019-10-28...

new data source: dgidb

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drug-gene interaction database downloads page: http://www.dgidb.org/downloads

import CMap/LINCS data

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CMap should provide gene expression measurements associated with chemical compounds. In theory, that data should be accessible via https://clue.io/cmap, but on first glance it is unclear how one can actually...

https://comptox.epa.gov/dashboard Looks like they do some aggregation among other resources, but they also have new data of their own. Downloadable files here: https://comptox.epa.gov/dashboard/downloads

Investigate which id/date/etc fields to use from ORCID API in `orcid.py`

15

### Checks - [X] I have searched **[the docs](https://greene-lab.gitbook.io/lab-website-template-docs)**, [existing issues](https://github.com/greenelab/lab-website-template/issues), and [existing discussions](https://github.com/greenelab/lab-website-template/discussions) for answers first. ### Link to your website repo https://github.com/andrewsu/sulab.org ### Version of Lab Website Template...

Use `created-date` instead of `last-modified-date` in `orcid.py`

2

### Checks - [X] I have searched **[the docs](https://greene-lab.gitbook.io/lab-website-template-docs)**, [existing issues](https://github.com/greenelab/lab-website-template/issues), and [existing discussions](https://github.com/greenelab/lab-website-template/discussions) for answers first. ### Link to your website repo https://github.com/andrewsu/sulab.org ### Version of Lab Website Template...

incorrect "Updated" date?

2

It seems like every entry in SmartAPI is reporting a last updated date of today. I tested this pretty diverse cross section of APIs (some of which I _think_ are...