ArticleBioinformatics (Oxford, England)2012
SemMedDB: a PubMed-scale repository of biomedical semantic predications.
Article in Bioinformatics (Oxford, England), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 168 papers, 1 of them a synthesis that pooled it.
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
168 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Computational Advances in Drug Safety: Systematic and Mapping Review of Knowledge Engineering Based Approaches.Frontiers in pharmacology · 2019Pooled it
- Context-Aware Multilevel Classification of Semantic Relations in Drug-Adverse Drug Reaction (ADR) Networks-Predicting Drug-Induced Liver Injury (DILI) as a Case Study.Chemical research in toxicology · 2026Article
- Automated candidate confounder scoping for adjustment in clinical research: a retrieval-augmented generation approach.BioData mining · 2026Article
- CausalKnowledgeTrace: A Novel Computational Framework for Automated Literature-Based Causal Graph Construction and Evidence-Based Variable Selection in Biomedical Research.bioRxiv : the preprint server for biology · 2026Article
- InterFeat: a pipeline for finding interesting scientific features.Scientific reports · 2026Article
- Transcriptomic data and biomedical literature synergize in finding pharmacologic gene regulators.bioRxiv : the preprint server for biology · 2026Article
- Knowledge graph-augmented large language models for reconstructing life course risk pathways: a gestational diabetes mellitus-to-dementia case study.Journal of the American Medical Informatics Association : JAMIA · 2026Article
- LitTx: A New Treatment Relation Extraction Dataset.LREC ... International Conference on Language Resources & Evaluation : [proceedings]. International Conference on Language Resources & Evaluation · 2026Article
- Deciphering genetic susceptibility to clear cell renal cell carcinoma.Communications biology · 2025Article
- AI-based mining of biomedical literature: Applications for drug repurposing for the treatment of dementia.Artificial intelligence in medicine · 2025Article
- MINERVA-microbiome network research and visualization atlas: a scalable knowledge graph for mapping microbiome-disease associations.Briefings in bioinformatics · 2025Article
- Ontology enrichment using a large language model: Applying lexical, semantic, and knowledge network-based similarity for concept placement.Journal of biomedical informatics · 2025Article
- Research on the proximity relationships of psychosomatic disease knowledge graph modules extracted by large language models.Scientific reports · 2025Article
- DrugReX: an explainable drug repurposing system powered by large language models and literature-based knowledge graph.Research square · 2025Article
- Alzheimer's disease knowledge graph enhances knowledge discovery and disease prediction.Computers in biology and medicine · 2025Article
- Semantic Clinical Artificial Intelligence vs Native Large Language Model Performance on the USMLE.JAMA network open · 2025Article
- Lit-OTAR framework for extracting biological evidences from literature.Bioinformatics (Oxford, England) · 2025Article
- A study on large-scale disease causality discovery from biomedical literature.BMC medical informatics and decision making · 2025Article
- Predicting implicit concept embeddings for singular relationship discovery replication of closed literature-based discovery.Frontiers in research metrics and analytics · 2025Article
- Reducing diagnostic delays in acute hepatic porphyria using health records data and machine learning.Journal of the American Medical Informatics Association : JAMIA · 2025Article
108 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
summaryEffective access to the vast biomedical knowledge present in the scientific literature is challenging. Semantic relations are increasingly used in knowledge management applications supporting biomedical research to help address this challenge. We describe SemMedDB, a repository of semantic predications (subject-predicate-object triples) extracted from the entire set of PubMed citations. We propose the repository as a knowledge resource that can assist in hypothesis generation and literature-based discovery in biomedicine as well as in clinical decision-making support. AVAILABILITY AND IMPLEMENTATION: The SemMedDB repository is available as a MySQL database for non-commercial use at http://skr3.nlm.nih.gov/SemMedDB. An UMLS Metathesaurus license is required. CONTACT: kilicogluh@mail.nih.gov.
Indexed as
Identifiers
What 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.