Sentence examples for measured isoform expression from inspiring English sources
We also measured isoform expression changes by Cufflinks [ 51].
To validate the existence of the opposing expression patterns of isoforms for various genes, we measured isoform expression by RT-qPCR for two opposing isoforms of seven genes in three breastcancer cell lines relative to the non-oncogenic HMEC cell line (Tables 1).
To measure isoform expression differences in select human brain regions, RNAs from whole brain, prefrontal cortex, frontal cortex (Ambion, Austin, TX, USA), and motor cortex [30] were used.
We used Cufflinks v2.1.1 (with −N, −u, and −b options) (Trapnell et al. 2010; Trapnell et al. 2012) to assemble isoforms and measure isoform expression.
Alternative splicing analysis in RNA-Seq data frequently focuses on quantifying isoform expression level, such as in a recent study measuring isoform abundance based on relative coverage levels of exons [38].
To determine whether IKKγ expression is affected by ssRNA virus infection, selective QRT-PCR assays were designed to measure total IKKγ isoform expression.
10.7554/eLife.03700.008 Figure 3. SeqZip assay to measure endogenous mRNA isoform expression.
(B ) Scatter plot of isoform expression measured by SeqZip and CAMSeq.
We used the isoform expression measured by microarray as the gold standard and compare with the isoform expression estimation obtained from RNA-Seq data estimated by different methods.
The Pearson's correlation coefficients PCC) of uniform model, MART, PDEGEM with the isoform expression measured by microarray in Dataset 4. Pearson's correlation coeficient Sequencing preference has been recognized as an important factor in transcript abundance estimation.
To validate the measures of transcript isoform expression predictions by Cufflinks, we determined our expected number of junction reads based on the transcript isoform abundance models of Cufflinks, and compared that number to the number of reads that directly map to annotated junction sequence, as detected by Tophat.
