Exact(4)
First, we restricted our analysis to spliced transcripts as splicing is evidence against genomic contamination and splice site asymmetry allows transcript orientation.
CAVA allows transcript specification, appropriately accommodates the strand of a gene transcript and flags variants with alternative annotations to facilitate clinical interpretation and comparison with other datasets.
RPKM has been used to normalize measurement of exon read density and allows transcript levels to be compared both within and between samples [ 25, 26].
For gene expression analysis, the number of expressed tags was calculated and then normalized to TPM (number of transcripts per million clean tags), a normalized measure of read density that allows transcript levels to be compared both within and between samples [ 33].
Similar(56)
DOI: http://dx.doi.org/10.7554/eLife.00505.024 Here we show that Rad51p allows transcripts of YAC sequences generated on chromosome III to act in trans to form hybrids and cause hybrid-mediated instability of the YAC.
Our data demonstrate a bias-free use of at least 16 cycles of PCR amplification to increase probe signal, allowing transcript analysis from 2.5 ng of the total mRNA sample.
This is primarily due to the quantitative perspective provided by absolute quantification, which could allow transcript quantities generated by any gene to be directly compared with any other gene, within and between any number of samples.
This revealed that real-time qPCR was about two magnitudes more sensitive than that provided by their SAGE dataset, allowing transcript quantities as low as 0.00075 copies per cell to be measured.
The hierarchical structure of GO terms allowed transcript classification to be summarised further to first tier terms of the three main domains of the GO database (Figure 8A, B, C).
ADAR must, therefore, edit before RNA structures are resolved and removed to allow transcript splicing.
A total of 18,769 probe sets were analyzed, allowing transcript level to be assayed for 12,931 FlyBase R5.11 annotated genes.
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