Methods for targeted protein quantification by bar-coding affinity reagent with unique DNA sequences

A method for high throughput target molecule identification and quantification, comprising:

• contacting a sample with a plurality of modified affinity reagents under conditions that promote binding of modified affinity reagents of the plurality to target molecules if present in the contacted sample, wherein each modified affinity reagent of the plurality is coupled to an identifying nucleotide sequence;
• removing unbound modified affinity reagent from the contacted sample;
• and
• amplifying and sequencing an identifying nucleotide sequence coupled to each bound modified affinity reagent whereby the target molecules are identified and quantified based on detection of coupled identifying nucleotide sequences of the bound modified affinity reagents wherein the identifying nucleotide sequence is selected from SEQ ID NOs:1 and 4-103.