A multi-step surface modification procedure for the creation of DNA arrays on chemically modified gold surfaces that can be used in surface plasmon resonance (SPR) imaging studies of protein-DNA interactions is demonstrated. The multi-step procedure is required to create an array of spots that are surrounded first by a hydrophobic background which allows for the pinning of aqueous DNA solutions onto individual array elements and then to replace that hydrophobic background with one that resists the non-specific adsorption of proteins during in situ SPR imaging measurements. An amine-terminated alkanethiol monolayer is employed as the base layer, and Fmoc and PEG modifiers are used to create the sequentially hydrophobic and protein adsorption-resistant surfaces, respectively. Specifically, the chemical modification steps are: (1) the adsorption and self-assembly of an 11-mercaptoundecylamine (MUAM) monolayer on an evaporated gold thin film, (2) the reaction of the MUAM monolayer with an Fmoc protecting group to create a hydrophobic surface, (3) the photopatterned removal of the alkanethiol followed by (4) the re-adsorption of MUAM to create an array of MUAM squares (750 x 750 um) surrounded by a hydrophobic MUAM-Fmoc background that can pin drops of aqueous solution, (5) the attachment of oligonucleotide sequences onto the MUAM squares by the reaction of the amine-terminated surface with the heterobifunctional cross linker SSMCC followed by a coupling reaction to a small volume (0.1 uL) of thiol-modified DNA, (6) the removal of the Fmoc protecting group followed by (7) a pegylation reaction of the MUAM with PEG-NHS to create a protein adsorption-resistant background. A combination of polarization-modulation FTIR spectroscopy, contact angle and scanning angle SPR measurements are used to characterize the surface modification procedure. An SPR imaging measurement of the adsorption of single-stranded DNA binding protein (SSB) onto an oligonucleotide array created by this procedure is used to demonstrate the utility of these surfaces.