Sentence examples for based on reads per from inspiring English sources

The UGT expression models were designed, based on reads per kilobase of gene model per million mapped read (RPKM) values confirmed their maximally varied expression at globular and early maturation stages of seed development.

Raw poly(A)+ mRNA transcriptome data and calculations based on reads per million (RPM).

Gene expressions were based on reads per kilobase of exon model per million mapped reads (RPKM) values [ 72].

The pioneer of RNAseq differential expression analysis, Cufflinks, is based on reads per kilobase per million mapped reads (RPKM) [ 7] and fragments per kilobase of transcript per million mapped reads (FPKM) [ 8].

First, Cufflinks fragments per-kilobase of exonic length per million base pairs mapped (FPKM) expression values were validated against SailFish, an alignment-free quantification method that uses K-mers and defines expression levels based on reads per-kilobase of exonic length per million base pairs mapped (RPKM) [ 39].

Genes were categorized based on increasing expression levels (based on reads assigned per kilobase of target per million mapped reads (RPKM)) using the RNA-seq data (GSE23865, [ 18]).

For a given BAM file, the calculateRPKM function computes the reads per kilobase per million reads sequenced (RPKM) for each transcript based on reads mapped to the exon region.

Filtering based on read quality is not sufficient per se, which caused us to make an assessment of the reliability of a read based on its abundance relative to the abundance of any other reads with highly related sequences.

After assembly, the mean density of SNPs across the four parental haplotypes in assembled regions was estimated based on read re-alignments to be 7.6 per thousand bases.

To eliminate the influence of different gene lengths and sequence discrepancies on expression calculations, gene expression levels based on read counts obtained by RSEM (version v1.2.15) were normalized using FPKM (fragments per kilo bases per million fragments) transformation (Li and Dewey 2011).

While in this example we simply illustrate this difference of expression on a qualitative level, one can utilize appropriate normalization (based on RPKM, reads per kilobase per million, on read counts of endogenous siRNA, etc).