System, method, and product for scanning of biological materials
First Claim
1. A scanning system, comprising:
- one or more optical elements constructed and arranged to direct a excitation beam at a probe array;
one or more detectors constructed and arranged to receive reflected intensity data responsive to the excitation beam, wherein the reflected intensity data is responsive, at least in part, to a focusing distance between an optical element and the probe array;
a transport frame constructed and arranged to adjust the focusing distance in a first direction with respect to the probe array;
an auto-focuser constructed and arranged to determine a best plane of focus based, at least in part, upon one or more characteristics of the reflected intensity data as received at two or more focusing distances;
and wherein;
the one or more detectors are further constructed and arranged to receive a plurality of pixel intensity values based, at least in part, upon detected emissions from a plurality of probe features disposed on the probe array at the best plane of focus; and
the system further comprises an image generator constructed and arranged to associate each of the pixel intensity values with one or more image pixel positions of a probe array based, at least in part, upon one or more position correction values.
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Accused Products
Abstract
An embodiment of a scanning system is described including optical elements that direct an excitation beam at a probe array, detectors that receive reflected intensity data responsive to the excitation beam, where the reflected intensity data is responsive to a focusing distance between an optical element and the probe array, a transport frame that adjusts the focusing distance in a direction with respect to the probe array, an auto-focuser that determines a best plane of focus based upon characteristics of the reflected intensity data of at least two focusing distances where the detectors further receive pixel intensity values based upon detected emissions from a plurality of probe features disposed on the probe array at the best plane of focus, and an image generator that associates each of the pixel intensity values with at least one image pixel position of a probe array based upon one or more position correction values.
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Citations
152 Claims
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1. A scanning system, comprising:
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one or more optical elements constructed and arranged to direct a excitation beam at a probe array;
one or more detectors constructed and arranged to receive reflected intensity data responsive to the excitation beam, wherein the reflected intensity data is responsive, at least in part, to a focusing distance between an optical element and the probe array;
a transport frame constructed and arranged to adjust the focusing distance in a first direction with respect to the probe array;
an auto-focuser constructed and arranged to determine a best plane of focus based, at least in part, upon one or more characteristics of the reflected intensity data as received at two or more focusing distances;
and wherein;
the one or more detectors are further constructed and arranged to receive a plurality of pixel intensity values based, at least in part, upon detected emissions from a plurality of probe features disposed on the probe array at the best plane of focus; and
the system further comprises an image generator constructed and arranged to associate each of the pixel intensity values with one or more image pixel positions of a probe array based, at least in part, upon one or more position correction values.
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2-107. -107. (cancelled)
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108. A holder for an array unit having a planar substrate and an array of chemical moieties on a surface of the substrate, the holder comprising:
- a body with a retaining mechanism which releasably retains an array unit in a seated position, such that an array unit can be repeatedly inserted into and removed from the seated position in which it is retained in the holder;
a machine readable holder identifier which includes data on a characteristic of the holder or seated array. - View Dependent Claims (109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 128)
- a body with a retaining mechanism which releasably retains an array unit in a seated position, such that an array unit can be repeatedly inserted into and removed from the seated position in which it is retained in the holder;
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122. A method of reading an array of chemical moieties on a substrate of an array unit, the method comprising:
- seating the array unit in a holder, which holder carries a holder identifier;
mounting the holder with seated array unit into an array reader;
reading the holder identifier and retrieving data on a position or dimension of the seated array unit based on the read holder identifier; and
reading the array. - View Dependent Claims (123, 124, 125, 126, 127, 129, 130, 131, 132, 133, 134)
- seating the array unit in a holder, which holder carries a holder identifier;
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135. A method of reading an array of chemical moieties on a substrate of an array unit, the method comprising:
- seating the array unit in a holder, which holder carries a holder identifier;
reading the holder identifier and retrieving a characteristic of the holder or seated array based on the read holder identifier; and
when the retrieved characteristic does not meet a predetermined condition, rejecting the seated array unit for reading or generating an operator alert. - View Dependent Claims (136)
- seating the array unit in a holder, which holder carries a holder identifier;
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137. An apparatus for reading an array of chemical moieties on a substrate of an array unit, the apparatus comprising:
- a receptacle into which is mountable a holder carrying a seated array unit, which holder carries a holder identifier;
a reader system to read the holder identifier and data from different chemical moieties of the array; and
a processor which retrieves data on a characteristic of the holder or seated array based on the read holder identifier. - View Dependent Claims (138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152)
- a receptacle into which is mountable a holder carrying a seated array unit, which holder carries a holder identifier;
Specification