Parallelized sample processing and library prep

An integrated microfluidic device comprising:

• an array of reaction sites, wherein individual reaction sites of the array of reaction sites comprises an assay chamber and a sample chamber, and wherein sample inlets provide sample to the sample chambers and assay inlets provide assay reagents to the assay chambers;
• and
• a plurality of sample processing unit cells comprising a plurality of sample processing sites, wherein the unit cell is in fluidic communication with a plurality of different reagent inlets, wherein the plurality of sample processing sites comprise a plurality of chambers, and wherein individual unit cells further comprises at least one column configured to retain beads;
• wherein sample inlets to the array are downstream of the plurality of sample processing sites of the plurality of unit cells.

A method of performing an assay on an integrated microfluidic device, comprising:

• loading beads into a column of a unit cell from a shared inlet;
• capturing sample biomolecules of interest on the beads;
• washing the beads;
• eluting captured biomolecules into a first chamber;
• loading preamp mastermix into a second chamber;
• performing a preamplification reaction;
• loading amplicon from preamplification reaction into sample chambers;
• loading an assay mix into assay chambers;
• and
• mixing at least a fraction of the contents of the sample chamber and assay chamber.