Sentence examples for calculation of exon from inspiring English sources

Calculation of exon and gene expression.

The strand-specific RNA-seq protocols used enable including only reads belonging to the original orientation of transcription orientation for the calculation of exon and intron.

The downloading, parsing and import of gene entries, the downloading of chromosome sequences and the calculation of exon and intron sequences are described in detail in the software documentation.

The significantly reduced substitution rate in the mouse and human lincRNA exons was reproduced when all lincRNAs (intron containing and intronless) were used for the calculation of exon substitution rates (supplementary tables S2 and S3, Supplementary Material online).

These proportions were computed in a way similar to the calculation of exon frequency (i.e., the proportion of transcript isoforms that contain both [copresent] or neither [coabsent] of the two neighboring ASEs).

Here, we present a new computational data analysis strategy to achieve a robust calculation of gene and exon expression using such exon-specific platforms and we applied it to detect splicing in a collection of human tissues.

They include the location (CDS, 3′UTR, and 5′UTR) of a TE exon in the host gene; the TE family (Alu, L1, etc). to which the exonized TE belongs; the TE exon length (ELN); and the TE nucleotide proportion (RTE, see Methods section for the calculation) of a TE exon.

Transcript abundance was determined by the calculation of Reads Per Kilobase of exon per Million mapped reads (RPKM) [ 30].

Percent of exon inclusion was calculated as [exon inclusion/(exon inclusion+exon exclusion)]×100.

Cufflinks and Cuffdiff (Trapnell et al., 2012) were used for the reads per kb of exon model per million mapped reads (RPKM) calculation and differential expression analyses.

After generating the final set of genes, the Cufflinks tool was used for the calculation of gene expression values, using RNA-Seq, in terms of fragments per kilobase of exon per million of fragments mapped (FPKM).