ArticleNucleic acids research2012
SAVoR: a server for sequencing annotation and visualization of RNA structures.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 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
10 citing papers in PubMed, 15 citations in OpenAlex.
- Secondary Structural Model of Human MALAT1 Reveals Multiple Structure-Function Relationships.International journal of molecular sciences · 2019Article
- The landscape of miRNA editing in animals and its impact on miRNA biogenesis and targeting.Genome research · 2018Article
- RNAex: an RNA secondary structure prediction server enhanced by high-throughput structure-probing data.Nucleic acids research · 2016Article
- A comprehensive database of high-throughput sequencing-based RNA secondary structure probing data (Structure Surfer).BMC bioinformatics · 2016Article
- DASHR: database of small human noncoding RNAs.Nucleic acids research · 2016Article
- RNA motif discovery: a computational overview.Biology direct · 2015Review
- StructureFold: genome-wide RNA secondary structure mapping and reconstruction in vivo.Bioinformatics (Oxford, England) · 2015Article
- Using machine learning and high-throughput RNA sequencing to classify the precursors of small non-coding RNAs.Methods (San Diego, Calif.) · 2014Article
- HAMR: high-throughput annotation of modified ribonucleotides.RNA (New York, N.Y.) · 2013Article
- CoRAL: predicting non-coding RNAs from small RNA-sequencing data.Nucleic acids research · 2013Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
RNA secondary structure is required for the proper regulation of the cellular transcriptome. This is because the functionality, processing, localization and stability of RNAs are all dependent on the folding of these molecules into intricate structures through specific base pairing interactions encoded in their primary nucleotide sequences. Thus, as the number of RNA sequencing (RNA-seq) data sets and the variety of protocols for this technology grow rapidly, it is becoming increasingly pertinent to develop tools that can analyze and visualize this sequence data in the context of RNA secondary structure. Here, we present Sequencing Annotation and Visualization of RNA structures (SAVoR), a web server, which seamlessly links RNA structure predictions with sequencing data and genomic annotations to produce highly informative and annotated models of RNA secondary structure. SAVoR accepts read alignment data from RNA-seq experiments and computes a series of per-base values such as read abundance and sequence variant frequency. These values can then be visualized on a customizable secondary structure model. SAVoR is freely available at http://tesla.pcbi.upenn.edu/savor.
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.