DNA extraction from paraffin embedded colorectal carcinoma samples: A comparison study of manual vs automated methods, using four commercially kits

Table 1 DNA isolation protocols

PureLink Genomic DNA mini kit (Invitrogen–ma-nual)	Time	iPrep genomic DNA kit (Invitrogen–aut-omated)	Time	High Pure FFPE DNA isolation kit (Rochemanual)	Time	MagnaPure LC DNA Isolation kit (Roche–automated)	Time
3 sections of 5 µm	5-10 min	3 sections of 5 µm	5-10 min	3 sections of 5 µm	5-10 min	3 sections of 5 µm	5-10 min
Deparaffinizatio-n using Xylol 3 times	3 x 10 min	Deparaffinization using Xylol 3 times	3 x 10 min	Deparaffinization using Xylol 3 times	3 x 10 min	Deparaffinization using Xylol 3 times	3 x 10 min
Lysis and digestion (20 µL of ProtK)	From 30 min to overnight	Sample lysis		Lysis and digestion (70 µL ProtK)	30-90 min	Sample lysis and binding
Binding DNA to silica membranes (columns)	15 min	Binding DNA to magnetic beads	30 min	Binding DNA to silica membranes (columns)	15 min	ProtK	30 min
Washing out contaminants	15 min	Magnetic separation of beads		Washing out contaminants	15 min	Binding DNA to beads
Eluting	3 min	Separation of liquid solutions from beads Washing beads eluting		Eluting	3 min	Washing out contaminants Washing beads eluting
~ 1.96 Euro/sample		~ 7.8 Euro/sample		~ 3.66 Euro/sample		~ 6.81 Euro/sample