From: Evaluation of whole-genome DNA methylation sequencing library preparation protocols
Short Name | Kapa | NEB | PBAT | Swift | Low NEB | Low Swift |
---|---|---|---|---|---|---|
Company Name | Roche Sequencing | New England Biolabs | N/A | Swift Biosciences | New England Biolabs | Swift Biosciences |
Kit / Protocol Name | KAPA Hyper Prep | NEBNext Enzymatic Methyl-seq | Miura F., Ito T. (2018) | Accel-NGS Methyl-Seq | NEBNext Enzymatic Methyl-seq | Accel-NGS Methyl-Seq |
Kit or Protocol? | Kit | Kit | Protocol | Kit | Kit | Kit |
Strands aligned to | OT/OB | OT/OB | CTOT/CTOB | OT/OB | OT/OB | OT/OB |
WGBS or EM-seq? | WGBS | EM-seq | WGBS | WGBS | EM-seq | WGBS |
DNA Input [ng] | 300 | 200 | 100 | 100 | 10 | 10 |
# Samples | 2 (A/B) | 2 (A/B) | 2 (A/B) | 2 (A/B) | 2 (A/B) | 2 (A/B) |
# Tech. Reps. | 2 (1/2) | 2 (1/2) | 1 (1) | 2 (1/2) | 2 (1/2) | 2 (1/2) |
Sheared? | Yes | Yes | No | Yes | Yes | Yes |
Conversion Kit | EZ DNA Methylation-Gold kit | N/A | EZ DNA Methylation-Gold kit | EZ DNA Methylation-Gold kit | N/A | EZ DNA Methylation-Gold kit |
# Amplification Rounds | 10 | 4 | 0 | 4 | 8 | 8 |
DNA Controls | lambda phage / pUC19 | lambda phage / pUC19 | lambda phage / pUC19 | lambda phage / pUC19 | lambda phage / pUC19 | lambda phage / pUC19 |
Sequencer Used | Illumina NovaSeq6000 | Illumina NovaSeq6000 | Illumina NovaSeq6000 | Illumina NovaSeq6000 | Illumina NovaSeq6000 | Illumina NovaSeq6000 |
Approx. Processing Time [hrs] | 7 | 9 | 14-16 | 7 | 9 | 7 |