Tag Archives: differential gene expression

Assessing technical performance in differential gene expression experiments with external spike-in RNA control ratio mixtures

There is a critical need for standard approaches to assess, report and compare the technical performance of genome-scale differential gene expression experiments. Here, an international team led by researchers at the NIST assess technical performance with a proposed standard ‘dashboard’ ...

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Challenges and strategies for RNA-Seq data analysis

rna-seq

RNA-seq is a methodology for RNA profiling based on next-generation sequencing that enables to measure and compare gene expression patterns at unprecedented resolution. Although the appealing features of this technique have promoted its application to a wide panel of transcriptomics ...

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Multiple Studies Cite Progress toward Quality Transcriptomes

rna-seq

from Genetic Engineering News RNA sequencing (RNA-seq), a means of depicting the transcriptome, is being used with increasing frequency to characterize a growing array of conditions—everything from prenatal birth defects to disorders of the elderly. Yet the technique, which is ...

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RNA-Seq with iReport and InSilico DB

rna-seq

RNA-Seq, or transcriptome sequencing, continues to be an exciting way to explore gene expression using next-generation sequencing (NGS). But for many researchers, the interpretation of RNA-Seq data remains a daunting task because they are using spreadsheets to read transcript names ...

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The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance

rna-seq

The concordance of RNA-sequencing (RNA-seq) with microarrays for genome-wide analysis of differential gene expression has not been rigorously assessed using a range of chemical treatment conditions. Here a team led by researchers atuse at the US FDA comprehensive study design ...

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Lecture – Basics of RNA-Seq for Differential Gene Expression

rna-seq

  Date: Tuesday, September 23, 2014, 10:00 am – 12:00 pm Location: 402 Walter Instructor(s):   This lecture will provide a basic overview of DGE analysis from RNA-Seq data. Lecture Topics: – RNA-Seq vs Microarray – Experimental Design – Sequencing ...

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Corset – differential gene expression analysis for de novo assembled transcriptomes

rna-seq

Next generation sequencing has made it possible to perform differential gene expression studies in non-model organisms. For these studies, the need for a reference genome is circumvented by performing de novo assembly on the RNA-seq data. However, transcriptome assembly produces ...

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ReadXplorer – Visualization and Analysis of Mapped Sequences

rna-seq

Fast algorithms and well-arranged visualizations are required for the comprehensive analysis of the ever-growing size of genomic and transcriptomic next generation sequencing (NGS) data. ReadXplorer is a software offering straightforward visualization and extensive analysis functions for genomic and transcriptomic DNA ...

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