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

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

Library preparation method Library preparation kit Input amount (ng) Sequencing platform DNA samples Coverage with genomic spike-ina Coverage with PhiX spike-inb 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
  1. a25% of 250 pM genomic library spiked in
  2. b25% of 300 pM PhiX library spiked in