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Assembly of transcripts and identification of differentially expressed genes (DEGs, Fold change (log2)>1.5; P<0.05) were conducted by Cufflinks (v 2.1.1).
Cufflinks does not make use of existing gene annotations during assembly of transcripts, but rather assembles a minimum set of transcripts that best describe the reads in the dataset.
The Brassica unigenes were assembled using parameters that enabled the separate assembly of transcripts of paralogous genes within each diploid Brassica genome (as these differ by ~15% at the nucleotide level) but the co-assembly of transcripts of homoeologous genes (which differ by only ~3%).
Cufflinks does not make use of existing gene annotations during assembly of transcripts, but rather constructs a minimum set of transcripts that bests describe the reads in the dataset.
Further, de novo assembly of transcripts from RNA-Seq data represents a potential avenue for gene annotation [ 68– 71].
The greater sequence coverage obtained with Illumina facilitates the assembly of transcripts and enables rare transcripts to be identified.
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Though he did not say if it had resulted in a criminal referral, Sessions cited in particular a recent disclosure to The Washington Post of transcripts of Trump conversations with Mexican President Enrique Peña Nieto and Australian Prime Minister Malcolm Turnbull.
PhyloP scores [ 19] were used to obtain the CDI of transcripts' extremes.
They bind to the 3′ untranslated regions (UTR) of transcripts 14 and lead to messenger RNA (mRNA) degradation, or inhibition of translation into protein.
Reverse transcriptase quantitative PCR of transcript levels from muscle RNA did not demonstrate elevated SDHA although other mitochondrial proteins had increased transcript levels (SPG7, AFG3L2 and OPA1).
Analysis of variance (ANOVA) of transcript abundance between the mutant and the corresponding parent was done in Microsoft Excel (Redmond, WA, USA).
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