ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium2008
Identifying data sharing in biomedical literature.
Article in AMIA ... Annual Symposium proceedings. AMIA Symposium, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 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
9 citing papers in PubMed.
- A content-based dataset recommendation system for researchers-a case study on Gene Expression Omnibus (GEO) repository.Database : the journal of biological databases and curation · 2020Article
- Public availability of research data in dentistry journals indexed in Journal Citation Reports.Clinical oral investigations · 2018Article
- Data management and sharing in neuroimaging: Practices and perceptions of MRI researchers.PloS one · 2018Article
- Observational
- Experimental design-based functional mining and characterization of high-throughput sequencing data in the sequence read archive.PloS one · 2013Article
- Systematic archiving and access to health research data: rationale, current status and way forward.Bulletin of the World Health Organization · 2012Article
- Extraction of data deposition statements from the literature: a method for automatically tracking research results.Bioinformatics (Oxford, England) · 2011Article
- Data standards for Omics data: the basis of data sharing and reuse.Methods in molecular biology (Clifton, N.J.) · 2011Review
- Learning regular expressions for clinical text classification.Journal of the American Medical Informatics Association : JAMIAArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Many policies and projects now encourage investigators to share their raw research data with other scientists. Unfortunately, it is difficult to measure the effectiveness of these initiatives because data can be shared in such a variety of mechanisms and locations. We propose a novel approach to finding shared datasets: using NLP techniques to identify declarations of dataset sharing within the full text of primary research articles. Using regular expression patterns and machine learning algorithms on open access biomedical literature, our system was able to identify 61% of articles with shared datasets with 80% precision. A simpler version of our classifier achieved higher recall (86%), though lower precision (49%). We believe our results demonstrate the feasibility of this approach and hope to inspire further study of dataset retrieval techniques and policy evaluation.
Indexed as
Identifiers
18998887PMC2655927What 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.