Comparing allele specific expression and local expression quantitative trait loci and the influence of gene expression on complex trait variation in cattle

Table 1 Average (and standard deviation) of raw reads, reads passing QC, reads aligned and concordant pair alignment rate in each RNA-Seq dataset

		Raw reads		QC passed reads (paired)		Aligned reads (paired)		Concordant pair alignment rate (%)
RNA-Seq data	Number of samples	Average	Standard deviation	Average	Standard deviation	Average	Standard deviation	Average	Standard deviation
Angus muscle	45	17,816,260	4,293,439	6,337,427	1,840,633	5,769,907	1,677,758	90.0%	1.4%
Angus liver	37	13,616,027	7,751,116	5,437,947	3,065,337	4,478,339	2,720,511	79.7%	8.4%
Holstein liver	20	35,145,555	7,060,354	14,869,140	3,328,298	13,794,312	2,960,745	91.8%	1.0%
Holstein WBC	20	40,462,263	6,419,677	16,355,951	2,808,778	14,786,745	2,465,978	89.4%	1.1%

The average (and standard deviation) of raw reads, QC passed and aligned paired reads and concordant pair alignment rate (%) of the animals in each RNA-Seq dataset

ISSN: 1471-2164