ArticleNucleic acids research2015
Annotating RNA motifs in sequences and alignments.
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 18 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
18 citing papers in PubMed.
- Identification of 3D motifs in Rfam with JAR3D.RNA (New York, N.Y.) · 2026Article
- All-at-once RNA folding with 3D motif prediction framed by evolutionary information.Nature methods · 2025Article
- Analysis of 11,430 recombinant protein production experiments reveals that protein yield is tunable by synonymous codon changes of translation initiation sites.PLoS computational biology · 2021Article
- TISIGNER.com: web services for improving recombinant protein production.Nucleic acids research · 2021Article
- FGGA-lnc: automatic gene ontology annotation of lncRNA sequences based on secondary structures.Interface focus · 2021Article
- Article
- Genome Analysis ofGenes · 2019Article
- Automated, customizable and efficient identification of 3D base pair modules with BayesPairing.Nucleic acids research · 2019Article
- Non-Coding RNA Analysis Using the Rfam Database.Current protocols in bioinformatics · 2018Article
- PATTERNA: transcriptome-wide search for functional RNA elements via structural data signatures.Genome biology · 2018Article
- Prediction of bacterial small RNAs in the RsmA (CsrA) and ToxT pathways: a machine learning approach.BMC genomics · 2017Article
- Using sequence signatures and kink-turn motifs in knowledge-based statistical potentials for RNA structure prediction.Nucleic acids research · 2017Article
- Studying RNA Homology and Conservation with Infernal: From Single Sequences to RNA Families.Current protocols in bioinformatics · 2016Article
- Combining structure probing data on RNA mutants with evolutionary information reveals RNA-binding interfaces.Nucleic acids research · 2016Article
- Motif co-regulation and co-operativity are common mechanisms in transcriptional, post-transcriptional and post-translational regulation.Cell communication and signaling : CCS · 2015Review
- Identifying novel sequence variants of RNA 3D motifs.Nucleic acids research · 2015Article
- Structure based approach for understanding organism specific recognition of protein-RNA complexes.Biology direct · 2015Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA performs a diverse array of important functions across all cellular life. These functions include important roles in translation, building translational machinery and maturing messenger RNA. More recent discoveries include the miRNAs and bacterial sRNAs that regulate gene expression, the thermosensors, riboswitches and other cis-regulatory elements that help prokaryotes sense their environment and eukaryotic piRNAs that suppress transposition. However, there can be a long period between the initial discovery of a RNA and determining its function. We present a bioinformatic approach to characterize RNA motifs, which are critical components of many RNA structure-function relationships. These motifs can, in some instances, provide researchers with functional hypotheses for uncharacterized RNAs. Moreover, we introduce a new profile-based database of RNA motifs--RMfam--and illustrate some applications for investigating the evolution and functional characterization of RNA. All the data and scripts associated with this work are available from: https://github.com/ppgardne/RMfam.
Indexed as
Identifiers
What 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.