Cufflinks (http://cole-trapnelllab.github.io/cufflinks/) used the resulting alignment files to quantify the gene expression levels, identify up- and down-regulated transcripts and find the alternative splice junctions.
The percent identity (top right) between each cA-SR was calculated using EBI's EMBOSS Needle global alignment algorithm to quantify the amount of sequence similarity shared amongst these receptors.
Models of motorized vehicle operating speeds are used to assess the design consistency of planned or existing highway alignments or to quantify the potential speed outcomes of a design or traffic control decision.
This study develops a new methodology to calculate the Collagen Alignment Index (CAI) to quantify the 3D spatial organization of MSC and its type I collagen microenvironment during differentiation and remodeling.
Normalized mapped read-depth coverage at SNP sites in the hybrid and parental alignments was used to quantify the expression of alleles.
The same alignment procedure was applied to quantify the modification level at the previously described sites for each of the additional samples.
We assigned a mapping quality to every alignment of each insert to quantify the strength of the evidence that the insert could provide for the presence of the corresponding allele.
The same alignment procedure was applied to quantify the modification level at the previously described sites for each of the additional samples, revealing considerably lower editing levels in the non-neuronal tissues (Supplementary Table 1, available via Dryad data repository)." 6) Regarding the characterization of RNA editing events, events tend to be tissue specific.
The same alignment procedure was applied to quantify the modification level at the previously described sites for each of the additional samples, revealing considerably lower editing levels in the non-neuronal tissues (Alon et al. (2015), available via Dryad data repository).
Guided by good biological insights, current structural aligners use a scoring function to quantify the structural alignment quality.
