Closed ReneRanzinger closed 9 months ago
From Vijay:
Let @Shovan5795 know if you have questions or once you have a few datasets you want him and Vijay to review.
Updates from 12/14 meeting:
@Shovan5795 Can you confirm if you'll need the abstract pdf files as well?
@kmartinez834 if you can give us the PMID, that would be great. We can extract the abstracts from there and process them later.
@ubhuiyan Will be working on this task to generate the csv.
Thanks Shovan. We've put together an instruction document and excel sheet with examples for Urnisha, who will be doing most of the curation work. Could you and Vijay please take a look and let us know if you have any feedback or changes?
Task T1.1 - Generate starting dataset.docx
Also, we have a couple more questions:
Thanks so much, Karina
The curated and reference files for Tasks 1.1 and 1.2 are located in this Sharepoint folder: Literature Mining
Direct link to the file: literature_mining_t1.1.xlsx
Small groups (20-25 papers)
May want to include “negative” examples as well
PMID
Annotation type (disease, species, tissue, cell line)
Concept ID (DOID, NCBI Taxon ID …)
Abstract phrase (text from the abstract that triggered the annotation)