Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten

Table 4 Comparison of coverage and duplicate reads for bisulphite libraries when spiked with genomic library or PhiX

Library preparation method	Library preparation kit	Input amount (ng)	Sequencing platform	DNA samples	Coverage with genomic spike-in^a	Coverage with PhiX spike-in^b	Duplicate read % with genomic spike-in	Duplicate read % with PhiX spike-in
Post-BS	TruMethyl WG v1.9	200	HiSeq X Ten	1. Blood sample (23)	14.02×	16.6×	32	39
				2. Blood sample (24)	13.66×	19.67×	21	30
				3. Blood sample (25)	12.43×	18.37×	22	33
				4. Blood sample (26)	12.6×	17.34×	28	36
				5. Cell line (27)	12.36×	16.29×	33	44
				6. Cell line (28)	13.37×	18.33×	25	36
				7. Blood sample (5)	11.8×	15.19×	36	48
				8. Blood sample (6)	15.14×	20.24×	21	28
				9. Blood sample (13)	10.86×	17.41×	18	30
				10. Blood sample (14)	11.79×	15.55×	31	43

ISSN: 1756-8935