Data from the paper "The landscape of biomedical research"
Creators
- 1. Hertie Institute for Artificial Intelligence in Brain Health, University of Tübingen
- 2. Quantitative Data Science Methods, University of Tübingen
- 3. Nomic AI, New York
Description
Data from the paper "The landscape of biomedical research" (https://www.biorxiv.org/content/10.1101/2023.04.10.536208v1).
The paper used the PubMed 2020 baseline (download date: 26.01.2021, not available anymore) supplemented with additional files from the 2021 baseline (download date: 27.04.2022, not available anymore), both originally obtained from https://www.nlm.nih.gov/databases/download/pubmed_medline.html, courtesy of the U.S. National Library of Medicine.
The data provided here includes the following files:
pubmed_landscape_data.zip, which includes:
- from the PubMed database: article title, journal, PMID, and publication year.
- produced by us: t-SNE embedding X and Y coordinates, label, and color.
pubmed_landscape_abstracts.zip, which includes:
- from the PubMed database: PMID, and paper abstracts.
PubMedBERT_embeddings_float16.npy, which includes:
- produced by us: PubMedBERT embeddings of the paper abstracts (numpy.ndarray of shape 20,687,150x768).