A gene analysis apparatus comprising: a sample preparation chip suitable for preparing a polymerase chain reaction solution sample, comprising a bead chamber comprising beads for lysing a cell, and comprising a polymerase chain reaction chip suitable for performing a polymerase chain reaction on the polymerase chain reaction solution sample; and a package layer on which the sample preparation chip and the polymerase chain reaction chip are mounted, wherein the package layer comprises a channel in which in use the polymerase chain reaction solution sample flows from the sample preparation chip to the polymerase chain reaction chip; a first region (A1, 10A1) for biomaterial sample storage, which connects a sample supply hole in the package layer to the bead chamber of the sample preparation chip; a second region (10A2) for lysis buffer flow, which connects a lysis buffer supply hole in the package layer to the bead chamber of the sample preparation chip; a third region (10A3) for supply of external air, which connects an air supply hole in the package layer to the bead chamber of the sample preparation chip; a fourth region (10A4) for supply of a washing solution, which connects a washing solution supply hole in the package layer to the bead chamber of the sample preparation chip; and a fifth region (10A5) for waste discharge, which connects a waste discharge hole in the package layer to a waste discharge hole in the sample preparation chip; the bead chamber having an inlet and an outlet; the package layer comprising a main layer (10A, 20A), and a cover (10B, 20B) which covers the main layer (10A, 20A); the main layer (10A, 20A) having a microchannel, an end of the microchannel corresponding to an outlet of the bead chamber; the microchannel connecting to a plurality of holes; at least some of the plurality of holes connecting to the PCR chip. a sample preparation chip suitable for preparing a polymerase chain reaction solution sample, comprising a bead chamber comprising beads for lysing a cell, and comprising a polymerase chain reaction chip suitable for performing a polymerase chain reaction on the polymerase chain reaction solution sample; and a package layer on which the sample preparation chip and the polymerase chain reaction chip are mounted, wherein the package layer comprises a channel in which in use the polymerase chain reaction solution sample flows from the sample preparation chip to the polymerase chain reaction chip; a first region (A1, 10A1) for biomaterial sample storage, which connects a sample supply hole in the package layer to the bead chamber of the sample preparation chip; a second region (10A2) for lysis buffer flow, which connects a lysis buffer supply hole in the package layer to the bead chamber of the sample preparation chip; a third region (10A3) for supply of external air, which connects an air supply hole in the package layer to the bead chamber of the sample preparation chip; a fourth region (10A4) for supply of a washing solution, which connects a washing solution supply hole in the package layer to the bead chamber of the sample preparation chip; and a fifth region (10A5) for waste discharge, which connects a waste discharge hole in the package layer to a waste discharge hole in the sample preparation chip; the bead chamber having an inlet and an outlet; the package layer comprising a main layer (10A, 20A), and a cover (10B, 20B) which covers the main layer (10A, 20A); the main layer (10A, 20A) having a microchannel, an end of the microchannel corresponding to an outlet of the bead chamber; the microchannel connecting to a plurality of holes; at least some of the plurality of holes connecting to the PCR chip.