Reduction of surface nucleotide hybridization by optimizing a biosensor sensing surface area

A computer program product for manufacturing a biosensor structure for use in a biosensor device, the biosensor structure having an optimal hybridization surface area size identified based on a plurality of nucleotides structures under test, the computer program product comprising:

• one or more non-transitory computer-readable storage media and program instructions stored on the one or more computer-readable storage media, the program instructions comprising:
• instructions to form a first dielectric layer on a surface of the biosensor device;
• instructions to form an analyte affinity layer on an upper surface of the first dielectric layer having a hybridization upper surface area size determined by:
• instructions to determine a first set of properties comprising reaction coordinate values, and potential of mean force (PMF) values, for the plurality of nucleotide structures based on a first set of testing conditions comprising a first surface area material, a first surface area pattern, and a first surface area size of a biosensing structure;
• instructions to determine a second set of properties comprising reaction coordinate values, and PMF values, for the plurality of nucleotide structures based on a second set of testing conditions comprising a second surface area material, a second surface area pattern, a second surface area size, or a combination thereof;
• instructions to identify a target population of nucleotide structures among the plurality of nucleotide structures, the target population comprising nucleotide structures whose PMF values in the second set of properties are less than corresponding PMF values in the first set of properties;
• instructions to generate a graphical representation based on the identified target population of nucleotide structures, wherein the graphical representation compares PMF values and reaction coordinate values associated with the identified target population of nucleotide structures;
• instructions to determine an optimal hybridization surface area size based on the compared PMF values and reaction coordinate values associated with the identified target population of nucleotide structures;
• instructions to display the graphical representation and the calculated optimal hybridization surface area size to a user via a user device;
• and
• instructions to receive from the user, via the user device, a user input selection of a surface area value, based on the displayed generated graphical representation the calculated optimal hybridization surface area size.

A computer system for manufacturing a biosensor structure for use in a biosensor device, the biosensor structure having an optimal hybridization surface area size identified based on a plurality of nucleotides structures under test, the computer system comprising:

• one or more computer processors;
• one or more computer-readable storage media;
• program instructions stored on the computer-readable storage media for execution by at least one of the one or more processors, the program instructions comprising:
• instructions to form a first dielectric layer on a surface of the biosensor device;
• instructions to form an analyte affinity layer on an upper surface of the first dielectric layer having a hybridization upper surface area size determined by:
• instructions to determine a first set of properties comprising reaction coordinate values, and potential of mean force (PMF) values, for the plurality of nucleotide structures based on a first set of testing conditions comprising a first surface area material, a first surface area pattern, and a first surface area size of a biosensing structure;
• instructions to determine a second set of properties comprising reaction coordinate values, and PMF values, for the plurality of nucleotide structures based on a second set of testing conditions comprising a second surface area material, a second surface area pattern, a second surface area size, or a combination thereof;
• instructions to identify a target population of nucleotide structures among the plurality of nucleotide structures, the target population comprising nucleotide structures whose PMF values in the second set of properties are less than corresponding PMF values in the first set of properties;
• instructions to generate a graphical representation based on the identified target population of nucleotide structures, wherein the graphical representation compares PMF values and reaction coordinate values associated with the identified target population of nucleotide structures;
• instructions to determine an optimal hybridization surface area size based on the compared PMF values and reaction coordinate values associated with the identified target population of nucleotide structures;
• instructions to display the graphical representation and the calculated optimal hybridization surface area size to a user via a user device;
• and
• instructions to receive from the user, via the user device, a user input selection of a surface area value, based on the displayed generated graphical representation the calculated optimal hybridization surface area size.