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 alignment files were used to quantify transcript abundances by RSEM [ 103].
The alignment files were used to quantify transcript abundances by RSEM (Li and Dewey 2011).
The same alignment procedure was applied to quantify the modification level at the previously described sites for each of the additional samples.
Automated image analysis was used to quantify alignment of transferred cell sheets from both TNFS and controls 24 h and 7 days after transfer to a flat glass coverslip.
Secondly, unlike the more usual (1+1) REMPI probe of NO via the AΣ+←XΠ band, the transitions are not easily saturated, and this makes it easier to quantify alignment effects.
