ArticlePloS one2011
TargetMine, an integrated data warehouse for candidate gene prioritisation and target discovery.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers, 1 of them a synthesis that pooled it.
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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.
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Who cites it
64 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma.PloS one · 2015Pooled it
- Target identification and assessment in the era of AI.Nature reviews. Drug discovery · 2026Review
- Subset binding enables detection of multimodal patient subgroup patterns and drug target discovery in idiopathic pulmonary fibrosis.Briefings in bioinformatics · 2026Article
- pyBiodatafuse: extending interoperability of data using modular queries across biomedical resources.Bioinformatics (Oxford, England) · 2026Article
- Integrated gene expression profiles reveal a transcriptomic network underlying the thermogenic response in adipose tissue.Scientific reports · 2023Article
- The Pharmacorank Search Tool for the Retrieval of Prioritized Protein Drug Targets and Drug Repositioning Candidates According to Selected Diseases.Biomolecules · 2022Article
- TargetMine 2022: a new vision into drug target analysis.Bioinformatics (Oxford, England) · 2022Article
- HumanMine: advanced data searching, analysis and cross-species comparison.Database : the journal of biological databases and curation · 2022Article
- Angiogenesis goes computational - The future way forward to discover new angiogenic targets?Computational and structural biotechnology journal · 2022Review
- PCA-based unsupervised feature extraction for gene expression analysis of COVID-19 patients.Scientific reports · 2021Article
- TrendyGenes, a computational pipeline for the detection of literature trends in academia and drug discovery.Scientific reports · 2021Article
- An integrative network-driven pipeline for systematic identification of lncRNA-associated regulatory network motifs in metastatic melanoma.BMC bioinformatics · 2020Article
- MANTA, an integrative database and analysis platform that relates microbiome and phenotypic data.PloS one · 2020Article
- Integrative Analysis Reveals Common and Unique Roles of Tetraspanins in Fibrosis and Emphysema.Frontiers in genetics · 2020Article
- Comorbidity of asthma and hypertension may be mediated by shared genetic dysregulation and drug side effects.Scientific reports · 2019Article
- Effects of Iron Oxide Nanoparticles (γ-FeInternational journal of molecular sciences · 2019Article
- A Survey of Gene Prioritization Tools for Mendelian and Complex Human Diseases.Journal of integrative bioinformatics · 2019Review
- Assessing drug target suitability using TargetMine.F1000Research · 2019Article
- Search for Therapeutic Agents for Cardiac Arrest Using a Drug Discovery Tool and Large-Scale Medical Information Database.Frontiers in pharmacology · 2019Article
- The TargetMine Data Warehouse: Enhancement and Updates.Frontiers in genetics · 2019Article
4 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
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Prioritising candidate genes for further experimental characterisation is a non-trivial challenge in drug discovery and biomedical research in general. An integrated approach that combines results from multiple data types is best suited for optimal target selection. We developed TargetMine, a data warehouse for efficient target prioritisation. TargetMine utilises the InterMine framework, with new data models such as protein-DNA interactions integrated in a novel way. It enables complicated searches that are difficult to perform with existing tools and it also offers integration of custom annotations and in-house experimental data. We proposed an objective protocol for target prioritisation using TargetMine and set up a benchmarking procedure to evaluate its performance. The results show that the protocol can identify known disease-associated genes with high precision and coverage. A demonstration version of TargetMine is available at http://targetmine.nibio.go.jp/.
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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.