"We hold these truths to be self-evident, that all men are created equal," read Lillie Ham Hendry, who had not always been treated equally in her life — a graduate of what was, until the State Constitution barred segregated public schools in 1947, known as the Freehold Colored School.
Experiments were normalized by enforcing equal read counts.
We then wanted to check whether the assumption of equal read proportions for each allele was justified.
For example, pXO1_0123 appeared to be co-transcribed (near equal read numbers) with the adjacent bslA (pXO1_0124).
This renders the initial assumption of equal read length invalid, and the process cannot be easily be modeled without a detailed knowledge of the contributions from each technology.
In particular, regions that are autosomal should show equal read coverage in both sexes, whereas X-linked regions only have half the coverage in males relative to females.
Of total, 3912 of piRNAs have more reads in solitary locusts, 1435 piRNAs have equal reads in two phases and only 652 piRNAs have more reads in gregarious than in solitary locusts (Supplementary Material Fig. S2).
Since absolute accuracy and lack of any bias in clone size estimation, barcoding, determination of DNA concentration, equimolar pooling and library preparation is rather impossible, deviations from the expected equal read recovery rate per BAC clone were expected.
Thus, RNA-seq represents more than 15-fold enrichment when compared to DNA-sequencing at equal read counts and therefore provides a much more efficient method for identifying sequence variations in expressed soybean seed genes.
Amplification uniformity was assessed by the distribution of copy-number (CN) ratios (CNR i) of 6,000 "equal-read" bins across the genome (Baslan et al., 2012).
