Tag Archives: quantification

A defining decade in DNA (and RNA) sequencing

rna-seq

from Nature Methods The past decade has seen a transformation, fueled by the availability of NGS platforms, in applications based on generating DNA and RNA sequence. There are more than 50 multiletter-acronym or ‘MLA-seq’ applications for interrogating a wide variety ...

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BADGE – A novel Bayesian model for accurate abundance quantification and differential analysis of RNA-Seq data

RNA-Seq

Recent advances in RNA sequencing (RNA-Seq) technology have offered unprecedented scope and resolution for transcriptome analysis. However, precise quantification of mRNA abundance and identification of differentially expressed genes are complicated due to biological and technical variations in RNA-Seq data. Researchers ...

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Application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes

rna-seq

Researchers at the Academy of Sciences of the Czech Republic propose ways to improve read mapping accuracy and sensitivity such as modifying a reference genome at RNA editing sites, using splicing- and ambiguity-competent aligners, and masking chloroplast- or nucleus-derived sequences. ...

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MIRPIPE – quantification of microRNAs in niche model organisms

rna-seq

MicroRNAs represent an important class of small non-coding RNAs regulating gene expression in eukaryotes. Present algorithms typically rely on genomic data to identify miRNAs and require extensive installation procedures. Niche model organisms lacking genomic sequences cannot be analyzed by such ...

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