We demonstrate for the first time a powerful yet benign approach for identification of binding motifs to poly(dimethylsiloxane) (PDMS) via comprehensively screened phage displayed peptides. Our results show that PDMS can be selectively recognized with peptide-displaying phages and bifunctional peptides. Further, along with the development of PDMS-based microstructures, recognition of PDMS with phage displayed peptides can be specifically localized in these microstructures.