Direct mapping of DNA chips to detector arrays
First Claim
1. A device for detecting the pattern of polynucleic acid hybridization to a surface, the device comprising:
- (a) a nucleic acid chip holder configured to receive a nucleic acid chip and keep the chip in a sampling position;
the nucleic acid chip being an object with a flat sample surface and an opposed surface that is joined to the sample surface by a thickness, with the sample surface having sequences of nucleic acids immobilized thereto, with each sequence being immobilized to a particular chip address;
(b) an optical filter that selectively transmits light;
(c) an electronic light detector array, the detector array comprising detector pixels, the detector pixels being sensors located at particular detector pixel addresses; and
(d) a light source that generates source light wherein the sampling position is a position that places the sample surface of the chip in a well-defined spatial relationship relative to the electronic light detector array so that the source light that touches a chip address on the sample surface is substantially directed onto at least one detector pixel with an address that is correlated to the chip address.
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Accused Products
Abstract
A device for detecting the pattern of polynucleic acid hybridization to a surface, the device includes (a) a positioning device for receiving a nucleic acid chip and keeping the chip in a sampling position, the nucleic acid chip being an object with a flat sample surface and an opposed surface that is joined to the sample surface by a thickness, with the sample surface having sequences of nucleic acids immobilized thereto, with each sequence being immobilized to a particular chip address. And, (b) an electronic light detector array, the detector array comprising detector pixels, the detector pixels being sensors located at particular detector pixel addresses, wherein the sampling position places the sample surface of the chip at a well-defined position relative to the electronic light detector array so that light leaving a chip address is substantially directed onto at least one detector pixel with an address that is correlated to the chip address.
179 Citations
86 Claims
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1. A device for detecting the pattern of polynucleic acid hybridization to a surface, the device comprising:
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(a) a nucleic acid chip holder configured to receive a nucleic acid chip and keep the chip in a sampling position;
the nucleic acid chip being an object with a flat sample surface and an opposed surface that is joined to the sample surface by a thickness, with the sample surface having sequences of nucleic acids immobilized thereto, with each sequence being immobilized to a particular chip address;
(b) an optical filter that selectively transmits light;
(c) an electronic light detector array, the detector array comprising detector pixels, the detector pixels being sensors located at particular detector pixel addresses; and
(d) a light source that generates source light wherein the sampling position is a position that places the sample surface of the chip in a well-defined spatial relationship relative to the electronic light detector array so that the source light that touches a chip address on the sample surface is substantially directed onto at least one detector pixel with an address that is correlated to the chip address. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26)
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27. A device for detecting the pattern of polynucleic acid hybridization to a surface, the device comprising:
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(a) a nucleic acid chip holder configured to receive a nucleic acid chip and keep the chip in a sampling position;
the nucleic acid chip being an object with a flat sample surface and an opposed surface that is joined to the sample surface by a thickness, with the sample surface having sequences of nucleic acids immobilized thereto, with each sequence being immobilized to a particular chip address; and
(b) an electronic light detector array, the detector array comprising detector pixels, the detector pixels being sensors located at particular detector pixel addresses;
wherein the sampling position places the sample surface of the chip at a well-defined position relative to the electronic light detector array so that source light from a light source that touches a chip address on the sample surface is substantially directed onto at least one detector pixel with an address that is correlated to the chip address. - View Dependent Claims (28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41)
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42. A device for detecting the pattern of polynucleic acid hybridization to a surface, the device comprising:
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(a) a nucleic acid chip holder configured to receive a nucleic acid chip and keep the chip in a sampling position;
the nucleic acid chip being an object with a flat sample surface and an opposed surface that is joined to the sample surface by a thickness, with the sample surface having sequences of nucleic acids immobilized thereto, with each sequence being immobilized to a particular chip address; and
(b) an electronic light detector array, the detector array comprising detector pixels, the detector pixels being sensors located at particular detector pixel addresses;
wherein the sampling position places the sample surface of the chip at a well-defined position relative to the electronic light detector array so that light leaving a chip address is substantially directed onto at least one detector pixel with an address that is correlated to the chip address. - View Dependent Claims (43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65)
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66. A system for imaging spots of polynucleic acid on a polynucleic acid chip, the system comprising:
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(a) light source means that emits source light;
(b) light detector means, the light detector means including detector pixels;
(c) holding means for holding the chip, the chip comprising a top sample surface and a bottom, the sample surface having addresses, the holding means being positioned relative to the light detector means so that light leaving a sample surface address is mapped onto at least one detector pixel;
(d) electronic data processing means that processes electronic data from the chip;
(e) data transmitting means that transmits data from the electronic light detector array (f) the system having a sample light path, which is the light path that must be to the electronic data processing means; and
traveled by all of the light that leaves the sample surface and is detectable by the light detector means. - View Dependent Claims (67, 68, 69, 70, 71, 72, 73, 74, 75, 76)
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77. A method for detecting spots of polynucleic acid on a polynucleic acid chip, the method comprising the following steps:
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(a) loading a polynucleic acid chip in a holder, (b) positioning the holder at a sampling position, the sampling position being a position relative to a light detector that establishes a sampling distance between the top sample surface of the chip and the light detector that allows light that emanates from a point approximately at the surface of the chip to travel along a short light path to the light detector, and (c) using a detection means to detect the signal generated by the light detector. - View Dependent Claims (78, 79, 80, 81, 82, 83, 84, 85, 86)
(i) moving the holder to a new position, (ii) using the light detector, the detection means, and a graphic display means to visualize the surface of the sample; and
(iii) repeating steps (i) and (ii) until a sampling distance desired by a user is achieved.
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86. The method of claim 85 wherein the focusing steps are automatically performed by a programmable computer.
Specification