The invention relates to methods for conducting binding assays in an assay device that includes one or more storage and use zone. The storage zones of the assay device are configured to house one or more reagents used in an assay conducted in the use zone of the device.

Provided herein are methods for detecting and identifying discase-specific biomarkers, such as target antigens associated with infection.

Multiplex analysis methods and systems for accurately detecting and quantitating multiple analytes in a sample are disclosed. The sample is contacted with an analyte capturing agent and immobilized on a magnetic particle, followed by magnetic separation and washing of the particle and bound analyte. This complex is then contacted with a detection agent labeled with an oligonucleotide barcode specific to the analyte target, followed by quantitative measurement of the barcode by qPCR or NGS. The combination of a plurality of analyte capture particles and cognate detection probes allows multiple analytes to be assayed simultaneously and in a multiplex manner.