ArticleNucleic acids research2017
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
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 24 papers.
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Who cites it
24 citing papers in PubMed.
- Therapeutic reactivation of hippocampal progenitors reverse cognition decline in mice with progressive brain demyelination.Stem cell reports · 2026Article
- Pan-Genome Analysis and Expression Profiling ofGenes · 2026Article
- RNA Structure and Its Function.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Astrocytes originated from neural stem cells drive the regenerative remodeling of pathologic CSPGs in spinal cord injury.Stem cell reports · 2024Article
- Evolutionary Structure Conservation and Covariance Scores.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Genome-wide identification and expression analysis of heat shock protein gene family in cassava.The plant genome · 2023Article
- Cytogenetics analysis as the central point of genetic testing in acute myeloid leukemia (AML): a laboratory perspective for clinical applications.Clinical and experimental medicine · 2023Review
- Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service.BMC bioinformatics · 2021Article
- Distinct mechanisms mediate X chromosome dosage compensation inLife science alliance · 2021Article
- Article
- ThePhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Article
- Laniakea: an open solution to provide Galaxy "on-demand" instances over heterogeneous cloud infrastructures.GigaScience · 2020Article
- Proof of concept web application for understanding the energetic basis of oligonucleotide unfolding.RSC advances · 2019Article
- GraphClust2: Annotation and discovery of structured RNAs with scalable and accessible integrative clustering.GigaScience · 2019Article
- The RNA workbench 2.0: next generation RNA data analysis.Nucleic acids research · 2019Article
- FOXG1 Regulates PRKAR2B Transcriptionally and Posttranscriptionally via miR200 in the Adult Hippocampus.Molecular neurobiology · 2019Article
- The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR.F1000Research · 2019Article
- Interactive implementations of thermodynamics-based RNA structure and RNA-RNA interaction prediction approaches for example-driven teaching.PLoS computational biology · 2018Article
- CMV: visualization for RNA and protein family models and their comparisons.Bioinformatics (Oxford, England) · 2018Article
- The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.Nucleic acids research · 2018Article
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Authors and funding
20 authors.
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Abstract
RNA-based regulation has become a major research topic in molecular biology. The analysis of epigenetic and expression data is therefore incomplete if RNA-based regulation is not taken into account. Thus, it is increasingly important but not yet standard to combine RNA-centric data and analysis tools with other types of experimental data such as RNA-seq or ChIP-seq. Here, we present the RNA workbench, a comprehensive set of analysis tools and consolidated workflows that enable the researcher to combine these two worlds. Based on the Galaxy framework the workbench guarantees simple access, easy extension, flexible adaption to personal and security needs, and sophisticated analyses that are independent of command-line knowledge. Currently, it includes more than 50 bioinformatics tools that are dedicated to different research areas of RNA biology including RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribosome profiling, RNA-seq analysis and RNA target prediction. The workbench is developed and maintained by experts in RNA bioinformatics and the Galaxy framework. Together with the growing community evolving around this workbench, we are committed to keep the workbench up-to-date for future standards and needs, providing researchers with a reliable and robust framework for RNA data analysis. AVAILABILITY: The RNA workbench is available at https://github.com/bgruening/galaxy-rna-workbench.
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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.