Methods of isolating biomarker cells

A method of isolating biomarker cells from a liquid sample comprising:

• a) providing a fluid-tight flow system comprising:
• a microfluidic chip comprising an inlet port in fluid communication with an outlet port and a cell selection module, wherein said cell selection module comprises a capture bed in fluid communication with the inlet port and the outlet port, and wherein the capture bed comprises a plurality of isolation channels configured to isolate biomarker cells from the liquid sample or solid supports configured to bind to biomarker cells;
• a first automated pipetting channel comprising a first pump, and a first pipette tip containing a liquid sample and coupled to the inlet port;
• a second automated pipetting channel comprising a second pump, and a second pipette tip coupled to the outlet port;
• and
• a non-transitory computer readable medium in communication with the first pump and the second pump, and programmed to command the first pump of the first automated pipetting channel and the second pump of the second automated pipetting channel to control flow of the liquid sample through the microfluidic chip, wherein the non-transitory computer readable medium comprises programming to control flow of the liquid sample through the cell selection module;
• b) controlling flow of the liquid sample through the cell selection module;
• and
• c) isolating biomarker cells from the liquid sample.