Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

BMC Genomics

Table 1 Summary of experiments, data and analyses

Tissue splicing	Breed splicing	sQTLs	Experiment	Tissue type	Sample No.	Breed	Individual No.
✓			I	18 various^a	54	Holstein	1
✓			II	Milk cells & mammary	12	Holstein	6
✓		✓	III	White blood cells	105	Holstein	105^b
✓	✓	✓	III	Milk cells	131	Holstein & Jersey	105^b & 26
✓		✓	IV	Liver	35	Angus	35
✓		✓	IV	Muscle	41	Angus	41

Tissue splicing: variation in differential splicing associated with tissue types estimated using RNA sequence data from all experiments. Breed splicing: variation in differential splicing associated with Holstein and Jersey breeds estimated using RNA sequence data of milk cells from experiment III. sQTLs: cis splicing quantitative trait loci, sQTLs estimated using RNA sequence data and imputed whole genome and from experiment III and IV. Data from experiment III and IV were also used to estimate exon expression eeQTLs and gene expression geQTLs
^a18 tissues from [41]. ^b The same 105 Holstein cattle, each of which had both white blood and milk cell transcriptomic data

ISSN: 1471-2164