ArticleJournal of biosciences2015
pubmed.mineR: an R package with text-mining algorithms to analyse PubMed abstracts.
Article in Journal of biosciences, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 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
53 citing papers in PubMed.
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- An integrated drug repositioning analysis identifies rosiglitazone as a treatment for sarcopenia.Communications biology · 2026Article
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- Text mining for case report articles on "peritoneal dialysis" from PubMed database.Therapeutic apheresis and dialysis : official peer-reviewed journal of the International Society for Apheresis, the Japanese Society for Apheresis, the Japanese Society for Dialysis Therapy · 2025Article
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- Computational identification of perturbed pathways in type 2 diabetes mellitus patients reveals necroptosis and NF-κB pathways with potential for susceptibility to psoriasis.Journal of biosciences · 2025Article
- Population Characteristics in Justice Health Research Based on PubMed Abstracts From 1963 to 2023: Text Mining Study.JMIR formative research · 2024Article
- Investigating role of positively selected genes and mutation sites of ERG11 in drug resistance of Candida albicans.Archives of microbiology · 2024Article
- Global hotspots and trends of nutritional supplements in sport and exercise from 2000 to 2024: a bibliometric analysis.Journal of health, population, and nutrition · 2024Review
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- SexAnnoDB, a knowledgebase of sex-specific regulations from multi-omics data of human cancers.Biology of sex differences · 2024Article
- biotextgraph: graphical summarization of functional similarities from textual information.Bioinformatics (Oxford, England) · 2024Article
- Bioinformatics-Assisted Extraction of All PCa miRNAs and their Target Genes.MicroRNA (Shariqah, United Arab Emirates) · 2024Article
- Prioritization of risk genes in colorectal cancer by integrative analysis of multi-omics data and gene networks.Science China. Life sciences · 2024Article
- Comparative Efficacy of Metformin and Glimepiride in Modulating Pharmacological Network to Increase BDNF Levels and Benefit Type 2 Diabetes-Related Cognitive Impairment.Biomedicines · 2023Article
- SRC and TKS5 mediated podosome formation in fibroblasts promotes extracellular matrix invasion and pulmonary fibrosis.Nature communications · 2023Article
- Withaferin A for COVID-19: a Network Pharmacology Approach.Applied biochemistry and biotechnology · 2023Article
- Identification of potential molecular mechanisms and candidate drugs for radiotherapy- and chemotherapy-induced mucositis.Supportive care in cancer : official journal of the Multinational Association of Supportive Care in Cancer · 2023Article
- An explainable machine learning-driven proposal of pulmonary fibrosis biomarkers.Computational and structural biotechnology journal · 2023Article
- Adjustment ofFrontiers in genetics · 2023Article
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
The PubMed literature database is a valuable source of information for scientific research. It is rich in biomedical literature with more than 24 million citations. Data-mining of voluminous literature is a challenging task. Although several text-mining algorithms have been developed in recent years with focus on data visualization, they have limitations such as speed, are rigid and are not available in the open source. We have developed an R package, pubmed.mineR, wherein we have combined the advantages of existing algorithms, overcome their limitations, and offer user flexibility and link with other packages in Bioconductor and the Comprehensive R Network (CRAN) in order to expand the user capabilities for executing multifaceted approaches. Three case studies are presented, namely, 'Evolving role of diabetes educators', 'Cancer risk assessment' and 'Dynamic concepts on disease and comorbidity' to illustrate the use of pubmed.mineR. The package generally runs fast with small elapsed times in regular workstations even on large corpus sizes and with compute intensive functions. The pubmed.mineR is available at http://cran.rproject. org/web/packages/pubmed.mineR.
Indexed as
Identifiers
26564970What 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.