Sentence examples for estimate transcript from inspiring English sources

We show that recurrent 454 pyrosequencing of a single cDNA sample is necessary to attain a thorough representation of the transcriptional universe present in maize, that can also be used to estimate transcript abundance of specific genes.

Moreover, because of the low redundancy of sequencing reads, EST data are not suitable to quantitatively estimate transcript abundance [16], [18].

To estimate transcript mutation rates (Table S2), RT-PCR products were cloned into plasmid following a commercial protocol (PCR-Script™ Amp, Stratagene) and sequenced by standard automated sequencing after isolating DNAs from plasmids by alkaline miniprep kits (Qiagene).

The strength of this approach is that the resulting set of putative gene models can be used to estimate transcript abundance, as in the recently released Cufflinks software [22].

Fragments per kilobase of transcript per million mapped reads (FPKM) were used to estimate transcript abundance.

These reads were used to estimate transcript expression of all 6 samples.

By conservatively treating the three sample groups collected at different times as biological replicates from which to estimate transcript-wise dispersion values in edgeR's differential expression analysis [ 57], we identified 1,717 transcripts significantly upregulated in H and 2,948 transcripts upregulated in VMN, which were the focus of downstream analyses.

To estimate transcripts from infected C. ribicola, the WWP shoot-tip transcriptome was also search against the M. laricis-populina protein database (http://genome.jgi-psf.org/Mellp1/Mellp1.download.ftp.html).ftp.html

For mRNAs, the RSEM normalized estimated counts were used; this is analogous to using salmon-derived estimated transcript abundances, as described in a recent paper (Soneson et al., 2016).

We estimated transcript concentrations for these 19 transcripts using GLAM, choosing three randomly selected probesets as a training set (Fig. 1).

Application of a comprehensive leave-one-out procedure (Fig. 3C) shows that our approach to estimating transcript concentration performs well on the Illumina platform; the average estimated concentrations show an R2 of 0.992 and a slope of 1.165.