ArticleNucleic acids research2017
LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 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
18 citing papers in PubMed, 1 synthesis or guideline pooled it, 48 citations in OpenAlex.
- Computational Advances in Drug Safety: Systematic and Mapping Review of Knowledge Engineering Based Approaches.Frontiers in pharmacology · 2019Pooled it
- Hepatotoxicity Evaluation of Levornidazole and Its Three Main Impurities: Based on Structure-Toxicity Classification Prediction Combined with Zebrafish Toxicity Assessment.Molecules (Basel, Switzerland) · 2025Article
- Systematic analysis of hepatotoxicity: combining literature mining and AI language models.Frontiers in artificial intelligence · 2025Article
- Unveiling the mechanisms of nephrotoxicity caused by nephrotoxic compounds using toxicological network analysis.Molecular therapy. Nucleic acids · 2023Article
- Expanding a database-derived biomedical knowledge graph via multi-relation extraction from biomedical abstracts.BioData mining · 2022Article
- Challenges and opportunities for mining adverse drug reactions: perspectives from pharma, regulatory agencies, healthcare providers and consumers.Database : the journal of biological databases and curation · 2022Article
- Natural language processing in toxicology: Delineating adverse outcome pathways and guiding the application of new approach methodologies.Biomaterials and biosystems · 2022Article
- COVID-19 vaccine design using reverse and structural vaccinology, ontology-based literature mining and machine learning.Briefings in bioinformatics · 2022Article
- dialogi: Utilising NLP With Chemical and Disease Similarities to Drive the Identification of Drug-Induced Liver Injury Literature.Frontiers in genetics · 2022Article
- Emerging Bioinformatics Methods and Resources in Drug Toxicology.Methods in molecular biology (Clifton, N.J.) · 2022Article
- DILIFrontiers in genetics · 2022Article
- Artificial intelligence to deep learning: machine intelligence approach for drug discovery.Molecular diversity · 2021Review
- Applying citizen science to gene, drug and disease relationship extraction from biomedical abstracts.Bioinformatics (Oxford, England) · 2020Article
- Constructing knowledge graphs and their biomedical applications.Computational and structural biotechnology journal · 2020Review
- Bioengineering tools for the production of pharmaceuticals: current perspective and future outlook.Bioengineered · 2019Review
- Generating the Blood Exposome Database Using a Comprehensive Text Mining and Database Fusion Approach.Environmental health perspectives · 2019Article
- Annotation and detection of drug effects in text for pharmacovigilance.Journal of cheminformatics · 2018Article
- ADEPt, a semantically-enriched pipeline for extracting adverse drug events from free-text electronic health records.PloS one · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A considerable effort has been devoted to retrieve systematically information for genes and proteins as well as relationships between them. Despite the importance of chemical compounds and drugs as a central bio-entity in pharmacological and biological research, only a limited number of freely available chemical text-mining/search engine technologies are currently accessible. Here we present LimTox (Literature Mining for Toxicology), a web-based online biomedical search tool with special focus on adverse hepatobiliary reactions. It integrates a range of text mining, named entity recognition and information extraction components. LimTox relies on machine-learning, rule-based, pattern-based and term lookup strategies. This system processes scientific abstracts, a set of full text articles and medical agency assessment reports. Although the main focus of LimTox is on adverse liver events, it enables also basic searches for other organ level toxicity associations (nephrotoxicity, cardiotoxicity, thyrotoxicity and phospholipidosis). This tool supports specialized search queries for: chemical compounds/drugs, genes (with additional emphasis on key enzymes in drug metabolism, namely P450 cytochromes-CYPs) and biochemical liver markers. The LimTox website is free and open to all users and there is no login requirement. LimTox can be accessed at: http://limtox.bioinfo.cnio.es.
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.