ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium2022
Semi-Automated Data Curation from Biomedical Literature.
Article in AMIA ... Annual Symposium proceedings. AMIA Symposium, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
4 citing papers in PubMed, 2 citations in OpenAlex.
- OmniExtract: an automatic data extraction tool based on large language model and prompt engineering.Briefings in bioinformatics · 2026Article
- STING-ExositeDB: An AI-assisted curated database of protein exosites for drug discovery.Database : the journal of biological databases and curation · 2026Article
- Directory of Public Datasets for Youth Mental Health to Enhance Research Through Data, Accessibility, and Artificial Intelligence: Scoping Review.JMIR mental health · 2025Article
- Integrating AI-powered text mining from PubTator into the manual curation workflow at the Comparative Toxicogenomics Database.Database : the journal of biological databases and curation · 2025Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Data curation is a bottleneck for many informatics pipelines. A specific example of this is aggregating data from preclinical studies to identify novel genetic pathways for atherosclerosis in humans. This requires extracting data from published mouse studies such as the perturbed gene and its impact on lesion sizes and plaque inflammation, which is non-trivial. Curation efforts are resource-heavy, with curators manually extracting data from hundreds of publications. In this work, we describe the development of a semi-automated curation tool to accelerate data extraction. We use natural language processing (NLP) methods to auto-populate a web-based form which is then reviewed by a curator. We conducted a controlled user study to evaluate the curation tool. Our NLP model has a 70% accuracy on categorical fields and our curation tool accelerates task completion time by 49% compared to manual curation.
Indexed as
Identifiers
37128469PMC10148326W4367669073What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.