DNA mapping and sequencing on linearized DNA molecules

A method of optically mapping DNA, the method comprising:

• a) providing a micropatterned substrate, the micropatterned substrate comprising:
• at least one binding region having a first width;
• and
• at least one non-binding region having a second width;
• wherein the binding regions and the non-binding regions alternate across at least a portion of the substrate;
• b) contacting the micropatterned substrate with a solution comprising at least one molecule of DNA, wherein one end of at least one molecule of DNA attaches to the binding region of the micropatterned substrate;
• and
• c) combing the at least one molecule of DNA such that the at least one molecule of DNA extends from the binding region into at least a portion of an adjacent non-binding region;
• and
• optically mapping the at least one molecule of DNA.

A method of on surface DNA sequencing library generation, the method comprising:

• a) providing a micropatterned substrate, the micropatterned substrate comprising:
• at least one binding region having a first width;
• and
• at least one non-binding region having a second width;
• wherein the binding regions and the non-binding regions alternate across at least a portion of the substrate;
• b) contacting the micropatterned substrate with a solution comprising at least one molecule of DNA, the at least one molecule of DNA comprising a T7 promoter
• wherein one end of at least one molecule of DNA attaches to the binding region of the micropatterned substrate;
• c) combing the at least one molecule of DNA such that the at least one molecule of DNA extends from the binding region into at least a portion of an adjacent non-binding region;
• and
• d) generating a DNA sequencing library.

A method of DNA sequencing library generation, the method comprising:

• a) providing a micropatterned substrate, the micropatterned substrate comprising:
• at least one binding region having a first width;
• and
• at least one non-binding region having a second width;
• wherein the binding regions and the non-binding regions alternate across at least a portion of the substrate;
• b) contacting the micropatterned substrate with a solution comprising at least one molecule of DNA, the at least one molecule of DNA wherein one end of at least one molecule of DNA attaches to the binding region of the micropatterned substrate;
• c) combing the at least one molecule of DNA such that the at least one molecule of DNA extends from the binding region into at least a portion of an adjacent non-binding region;
• d) amplifying the at least one molecule of DNA using at least one isothermal amplification method, thereby forming an amplified product;
• e) eluting the amplified product from the device;
• and
• f) generating a DNA sequencing library using the eluted amplified product.

A method of on surface DNA sequencing library generation, the method comprising:

• a) providing a micropatterned substrate, the micropatterned substrate comprising:
• at least one binding region having a first width;
• and
• at least one non-binding region having a second width;
• wherein the binding regions and the non-binding regions alternate across at least a portion of the substrate;
• b) contacting the micropatterned substrate with a solution comprising at least one molecule of DNA, the at least one molecule of DNA wherein one end of at least one molecule of DNA attaches to the binding region of the micropatterned substrate;
• c) combing the at least one molecule of DNA such that the at least one molecule of DNA extends from the binding region into at least a portion of an adjacent non-binding region;
• d) performing a tagmentation reaction on the at least one molecule of DNA, thereby generating at least one tagmented product;
• e) amplifying the at least one tagmented product, thereby forming an amplified product;
• and
• f) generating a DNA sequencing library using the amplified product.

A method of on surface DNA sequencing, the method comprising:

• a) providing a micropatterned substrate, the micropatterned substrate comprising:
• at least one binding region having a first width;
• and
• at least one non-binding region having a second width;
• wherein the binding regions and the non-binding regions alternate across at least a portion of the substrate;
• b) contacting the micropatterned substrate with a solution comprising at least one molecule of DNA, the at least one molecule of DNA wherein one end of at least one molecule of DNA attaches to the binding region of the micropatterned substrate;
• c) combing the at least one molecule of DNA such that the at least one molecule of DNA extends from the binding region into at least a portion of an adjacent non-binding region;
• d) sequencing the at least one molecule of DNA.