ArticleNucleic acids research2015
sRNAtoolbox: an integrated collection of small RNA research tools.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 127 papers.
What it found
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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.
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Who cites it
127 citing papers in PubMed, 249 citations in OpenAlex.
- Genomic exploration of Bemisia tabaci microRNAs using predictive modeling and confirmation through experimental evidence.Scientific reports · 2025Article
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- Small RNA Landscape of Platelet Dust: Platelet-Derived Extracellular Vesicles from Patients with Non-Small-Cell Lung Cancer.Non-coding RNA · 2025Article
- Deciphering the impact of microRNAs in plant biology: a review of computational insights and experimental validation.Molecular biology reports · 2025Review
- An Overview of miRNA and miRNA Target Analysis Tools.Methods in molecular biology (Clifton, N.J.) · 2025Review
- RNA silencing is a key regulatory mechanism in the biocontrol fungus Clonostachys rosea-wheat interactions.BMC biology · 2024Article
- Circulating microRNA profile of long-lived Okinawans identifies novel potential targets for optimizing lifespan and health span.Aging cell · 2024Article
- A dynamic microRNA profile that tracks a chemotherapy resistance phenotype in osteosarcoma. Implications for novel therapeutics.medRxiv : the preprint server for health sciences · 2024Article
- Differential expression of miRNAs associated with pectoral myopathies in young broilers: insights from a comparative transcriptome analysis.BMC genomics · 2024Article
- MicroRNAs modulate immunological and inflammatory responses in Holstein cattle naturally infected with Mycobacterium avium subsp. paratuberculosis.Scientific reports · 2024Article
- Nicotine-induced Genetic and Epigenetic Modifications in Primary Human Amniotic Fluid Stem Cells.Current pharmaceutical design · 2024Article
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- Identification and characterization of miRNAs in spleens of sheep subjected to repetitive vaccination.Scientific reports · 2023Article
- Genome-Wide Analysis of microRNA Expression Profile in Roots and Leaves of Three Wheat Cultivars under Water and Drought Conditions.Biomolecules · 2023Article
- Extracellular vesicle small RNA cargo discriminates non-cancer donors from pediatric B-lymphoblastic leukemia patients.Frontiers in oncology · 2023Article
- tiny-count: a counting tool for hierarchical classification and quantification of small RNA-seq reads with single-nucleotide precision.Bioinformatics advances · 2023Article
- Application of annotation-agnostic RNA sequencing data analysis tools for biomarker discovery in liquid biopsy.Frontiers in bioinformatics · 2023Article
- RNA silencing proteins and small RNAs in oomycete plant pathogens and biocontrol agents.Frontiers in microbiology · 2023Article
67 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
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Small RNA research is a rapidly growing field. Apart from microRNAs, which are important regulators of gene expression, other types of functional small RNA molecules have been reported in animals and plants. MicroRNAs are important in host-microbe interactions and parasite microRNAs might modulate the innate immunity of the host. Furthermore, small RNAs can be detected in bodily fluids making them attractive non-invasive biomarker candidates. Given the general broad interest in small RNAs, and in particular microRNAs, a large number of bioinformatics aided analysis types are needed by the scientific community. To facilitate integrated sRNA research, we developed sRNAtoolbox, a set of independent but interconnected tools for expression profiling from high-throughput sequencing data, consensus differential expression, target gene prediction, visual exploration in a genome context as a function of read length, gene list analysis and blast search of unmapped reads. All tools can be used independently or for the exploration and downstream analysis of sRNAbench results. Workflows like the prediction of consensus target genes of parasite microRNAs in the host followed by the detection of enriched pathways can be easily established. The web-interface interconnecting all these tools is available at http://bioinfo5.ugr.es/srnatoolbox.
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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.