Table 1.

Sample and library preparations used as input for our equine transcriptome

Tissue	Library Preparation	Library Characteristics	#Samples	#Frag (M)	#bp (Gb)	Reference
Brainstem	RiboRNA-depleted	PEl00bp, stranded	8*	166.73	33.68	Finno et al., 2016 [13]
Cerebellum	RiboRNA-depleted	PEl00bp, stranded	12	411.48	82.3	Scott et al., 2016 [23]
Muscle	Poly-A capture	PE125bp, stranded	12	301.94	76.08
Retina	Poly-A captured	PE80bp unstranded	2	20.3	3.28	Bellone et al., 2013
Spinal Cord	RiboRNA-depleted	PEl00bp, stranded	16*	403	81.4	Finno et al., 2016 [13]
Skin	Poly-A captured	PE80bp, unstranded	2	18.54	3	Holl et al., 2016
	Poly-A captured	SE80bp, unstranded	2	16.57	1.34	Holl et al., 2016
	Poly-A captured	SE95bp unstranded	3	105.51	10.02	Bellone et al., 2013
Embryo ICM	Ovation RNA-seq	PEl00bp, unstranded	3	126.32	25.26	Iqbal et al., 2014
	Ovation RNA-seq	SEl00bp, unstranded	3	115.21	11.52	Iqbal et al., 2014
Embryo TE	Ovation RNA-seq	PEl00bp, unstranded	3	129.84	25.96	Iqbal et al., 2014
	Ovation RNA-seq	SEl00bp, unstranded	3	102.26	10.23	Iqbal et al., 2014
Total				1917.7	364.07

Notes: *Seven individuals had both brainstem and spinal cord tissue collected from them. Seven of the skin samples were taken from 5 individuals and one individual had both retina and skin sampled, bringing our total number of individuals to 59