Development of high-resolution multidimensional native protein microfluidic chip electrophoresis fingerprinting and its application in the quick analysis of unknown microorganisms

•2D native chip CE with the current highest reported peak capacity were achieved through multidisciplinary novel strategies.•With the further introduction of novel robust image analysis and pattern recognition algorithms, the present study is the first in which the protein chip electrophoresis fingerprint based quick microorganism analysis is achieved.•The possibility of chip fingerprint technology for the analysis of unknown target is proposed, which can also be applied into the broader fields, including unknown virus detection.