Tag Archives: transcript abundance

RNA-seq Data – Challenges in and Recommendations for Experimental Design and Analysis

rna-seq

RNA-seq is widely used to determine differential expression of genes or transcripts as well as identify novel transcripts, identify allele-specific expression, and precisely measure translation of transcripts. Thoughtful experimental design and choice of analysis tools are critical to ensure high-quality ...

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Seqnature – RNA-Seq Alignment to Individualized Genomes Improves Transcript Abundance Estimates in Multiparent Population

rna-seq

Massively parallel RNA sequencing (RNA-seq) has yielded a wealth of new insights into transcriptional regulation. A first step in the analysis of RNA-seq data is the alignment of short sequence reads to a common reference genome or transcriptome. Genetic variants ...

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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‚ÄĒeverything from prenatal birth defects to disorders of the elderly. Yet the technique, which is ...

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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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The correlation coefficient alone is not sufficient to assess equality among sample replicates

Reliability and reproducibility are key metrics for gene expression assays. This report assesses the utility of the correlation coefficient in the analysis of reproducibility and reliability of gene expression data. The correlation coefficient alone is not sufficient to assess equality ...

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