ArticleNucleic acids research2010
rQuant.web: a tool for RNA-Seq-based transcript quantitation.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- scMAPA: Identification of cell-type-specific alternative polyadenylation in complex tissues.GigaScience · 2022Article
- AIDE: annotation-assisted isoform discovery with high precision.Genome research · 2019Article
- Alternative polyadenylation produces multiple 3' untranslated regions of odorant receptor mRNAs in mouse olfactory sensory neurons.BMC genomics · 2019Article
- Computational Methods for Mapping, Assembly and Quantification for Coding and Non-coding Transcripts.Computational and structural biotechnology journal · 2019Review
- Modeling and analysis of RNA-seq data: a review from a statistical perspective.Quantitative biology (Beijing, China) · 2018Article
- Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project.Journal of visualized experiments : JoVE · 2017Article
- PARRoT- a homology-based strategy to quantify and compare RNA-sequencing from non-model organisms.BMC bioinformatics · 2016Article
- Modeling Enzyme Processivity Reveals that RNA-Seq Libraries Are Biased in Characteristic and Correctable Ways.Cell systems · 2016Article
- RiboAbacus: a model trained on polyribosome images predicts ribosome density and translational efficiency from mammalian transcriptomes.Nucleic acids research · 2015Article
- WemIQ: an accurate and robust isoform quantification method for RNA-seq data.Bioinformatics (Oxford, England) · 2015Article
- Differential Expression Analysis in RNA-Seq by a Naive Bayes Classifier with Local Normalization.BioMed research international · 2015Article
- IsoSCM: improved and alternative 3' UTR annotation using multiple change-point inference.RNA (New York, N.Y.) · 2015Article
- Dynamic analyses of alternative polyadenylation from RNA-seq reveal a 3'-UTR landscape across seven tumour types.Nature communications · 2014Article
- Detecting translational regulation by change point analysis of ribosome profiling data sets.RNA (New York, N.Y.) · 2014Article
- Cardiovascular transcriptomics and epigenomics using next-generation sequencing: challenges, progress, and opportunities.Circulation. Cardiovascular genetics · 2014Review
- Efficient RNA isoform identification and quantification from RNA-Seq data with network flows.Bioinformatics (Oxford, England) · 2014Article
- Piecing the puzzle together: a revisit to transcript reconstruction problem in RNA-seq.BMC bioinformatics · 2014Article
- Assessment of transcript reconstruction methods for RNA-seq.Nature methods · 2013Article
- eQTL Mapping Using RNA-seq Data.Statistics in biosciences · 2013Article
- Accurate detection of differential RNA processing.Nucleic acids research · 2013Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We provide a novel web service, called rQuant.web, allowing convenient access to tools for quantitative analysis of RNA sequencing data. The underlying quantitation technique rQuant is based on quadratic programming and estimates different biases induced by library preparation, sequencing and read mapping. It can tackle multiple transcripts per gene locus and is therefore particularly well suited to quantify alternative transcripts. rQuant.web is available as a tool in a Galaxy installation at http://galaxy.fml.mpg.de. Using rQuant.web is free of charge, it is open to all users, and there is no login requirement.
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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.