Sentence examples for transcripts estimate from inspiring English sources
Cufflinks tools [ 18] version 2.1.1 were then used to assemble aligned RNA-seq reads into transcripts, estimate their abundances, and test for differential expression and regulation [ 18].
The algorithm Cufflinks was used to assemble mapped reads into transcripts, estimate their abundances, and test for differential expression between experimental samples (see Trapnell et al. 2012).
With the advance of next generation sequencing technologies, it is now possible to reconstruct full-length transcripts, estimate their expression levels, and compare the structural and quantitative differences between samples.
Cufflinks (Trapnell et al., 2012) was used to assemble transcripts, estimate their abundance, and score differential expression.> Focusing first on predicted minor introns (∼700) in the minor intron database (U12DB) (Alioto, 2007), we detected 429 that passed the threshold for expressed genes of fragments per kilobase per million mapped reads (FPKM) > 1 in control AMO.
Similar results were obtained with the 636 immune-related transcripts estimated by microarray hybridization.
The distribution of expressed transcripts is also included in Table 6 for comparison (with the distribution of expressed transcripts estimated as mentioned in Section 3.1).
We obtained a number of 50698 transcripts, which is in the range of the number of transcripts estimated in poplar, Arabidopsis and rice (Table 2).
The mean number of transcripts estimated in each highly expressed gene was also low in the cancer-associated chromosomes (54 versus 69 transcripts per each gene).
This provides a percent spliced in (PSI) value indicating the proportion of transcripts estimated to be from each isoform for a gene.
Known, predicted and EST transcripts Estimates of transcript abundance on Exon arrays can be affected by biases due to cross hybridisation as a result of probes hybridising to off-target transcripts [ 8, 21].
The aligned reads were processed by the Cufflinks [ 17] and Cuffdiff software for assembling the transcripts, estimating transcript abundance, and testing for differential expression between control and acriflavine-treated samples.
