ArticlePLoS computational biology2021
Memes: A motif analysis environment in R using tools from the MEME Suite.
Article in PLoS computational biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers.
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Who cites it
65 citing papers in PubMed.
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- Network-based identification of regulatory hubs and therapeutic targets in multiple sclerosis: an integrated transcriptomic and molecular docking approach.Acta neurologica Belgica · 2026Article
- Hybrid metabolic engineering enables xylose-driven co-production of polyhydroxybutyrate and violacein in Escherichia coli.Journal of biological engineering · 2026Article
- Genome-Wide Identification and Abiotic Stress Response Analysis of the Isopentenyl Transferase (Plants (Basel, Switzerland) · 2026Article
- Dilated cardiomyopathy-associated RNA-binding motif protein 20 regulates long pre-mRNAs in neurons.eLife · 2026Article
- MotifPeeker: benchmarking epigenomic profiling methods using motifs.Bioinformatics advances · 2026Article
- Discovery of bioactive inhibitors targeting onion yellow dwarf virus coat protein based on molecular docking and simulation.BMC plant biology · 2025Article
- Identification and characterization of ninePlant signaling & behavior · 2025Article
- Genome-Wide Identification of DlGRAS Family and Functional Analysis ofInternational journal of molecular sciences · 2025Article
- Transcriptomic analysis reveals that pyruvate kinase potentially plays a key role in the differentiation of Spirometra mansoni proglottids by regulating the glycolysis pathway.PLoS neglected tropical diseases · 2025Article
- Genome-wide identification and expression analysis of JmjC domain-containing family in Vitis vinifera L.BMC genomics · 2025Article
- Trihelix transcription factors are involved in drought stress response of Mangifera indica.Molecular biology reports · 2025Article
5 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors.
Funding
Abstract
Identification of biopolymer motifs represents a key step in the analysis of biological sequences. The MEME Suite is a widely used toolkit for comprehensive analysis of biopolymer motifs; however, these tools are poorly integrated within popular analysis frameworks like the R/Bioconductor project, creating barriers to their use. Here we present memes, an R package that provides a seamless R interface to a selection of popular MEME Suite tools. memes provides a novel "data aware" interface to these tools, enabling rapid and complex discriminative motif analysis workflows. In addition to interfacing with popular MEME Suite tools, memes leverages existing R/Bioconductor data structures to store the multidimensional data returned by MEME Suite tools for rapid data access and manipulation. Finally, memes provides data visualization capabilities to facilitate communication of results. memes is available as a Bioconductor package at https://bioconductor.org/packages/memes, and the source code can be found at github.com/snystrom/memes.
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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.