An apparatus for and method of purifying nucleic acids of cells or viruses are provided. The nucleic acid purification apparatus includes: a cell lysis capillary having a sample inlet through which samples, magnetic beads, and a solid support are introduced; a vibrator attached to the capillary and mixing the samples, magnetic beads, and solid support in the capillary; a laser generator attached to the capillary and irradiating a laser beam onto the capillary; a magnetic force generator attached to the capillary and fixing the magnetic beads to a capillary wall; a waste chamber attached to the capillary and discharging a lysate; an elution buffer chamber attached to the capillary and eluting nucleic acids from the solid support having nucleic acids bound thereto; and a neutralization buffer chamber attached to the capillary and supplying a neutralization buffer for neutralizing the eluted nucleic acid solution. According to the apparatus and method, PCR inhibitors can be removed to increase PCR yield and nucleic acids can be purified using a silicon substrate or silica beads. Thus, the apparatus and method can be applied to LOC fabrication.