System and method with reflective fiducials for locating or registering locations receiving biological samples in successive cycles of fluorescent imaging

Patent metadata

Field	Value
Publication number	US-11262307-B2
Application number	US-201816482653-A
Country	US
Kind code	B2
Filing date	Jan 31, 2018
Priority date	Feb 1, 2017
Publication date	Mar 1, 2022
Grant date	Mar 1, 2022

Abstract

Fiducial markers are provided on patterned arrays of the type that may be used for molecular analysis, such as sequencing. The fiducial markers may have configurations that enhance their detection in image or detection data, that facilitate or improve processing, that provide encoding of useful information, and so forth. Examples of the fiducial markers may include features and materials that are provided on or in the support of a patterned array and that return at least a portion of incident light by reflection. The fiducial markers may form gratings or other encoding configurations that assist in image processing, alignment, or other aspects of processing of the patterned array.

First claim

The invention claimed is:

1. An array, comprising:
a support having locations that, in an operation, receive biological samples differing from one another to respond differently in successive cycles of fluorescent imaging; and
a fiducial feature that is formed as troughs in or as ridges on a surface of the support, and that is optically reflective to, during the successive cycles of fluorescent imaging, return at least a portion of an incident light away from the surface of the support for locating or registering the support or the locations.

2. The array of claim 1 , wherein the fiducial feature lies outside of an area in which the locations are provided.

3. The array of claim 1 , wherein the fiducial feature comprises a Bragg grating.

4. The array of claim 1 , wherein the locations are disposed in a regular repeating pattern on the support.

5. The array of claim 1 , wherein the support comprises a plurality of areas of the locations, and wherein the fiducial feature is provided in each of the plurality of areas.

6. The array of claim 1 , wherein the fiducial feature comprises a registration fiducial feature located among the locations of the support that receive the biological samples.

7. The array of claim 1 , wherein the locations of the support that receive the biological samples are disposed on an area of the support, and wherein the fiducial feature comprises an auto-centering fiducial feature located outside of the area.

8. The array of claim 1 , further comprising:
a plurality of fiducial features,
wherein the fiducial feature is one of the plurality of fiducial features, and wherein the plurality of fiducial features are disposed on the support in a non-rectilinear layout.

9. The array of claim 1 , wherein the fiducial feature is structured to produce image data encoding information.

10. An array, comprising:
a support comprising a glass material, a semiconductor material, or combinations thereof, the support having locations that, in an operation, receive biological samples differing from one another to respond differently in successive cycles of fluorescent imaging; and
a fiducial feature that is formed in or on the support and that is optically reflective to, during the successive cycles of fluorescent imaging, return at least a portion of an incident radiation for locating or registering the support or the locations,
wherein the fiducial feature comprises a metallic material.

11. A method, comprising:
disposing biological samples at a plurality of locations on a support, the biological samples differing from one another to respond differently in successive cycles of fluorescent imaging; and
disposing a fiducial feature as troughs in or as ridges on a surface of the support, the fiducial feature being optically reflective to, during the successive cycles of fluorescent imaging, return at least a portion of an incident light away from the surface of the support for locating or registering the support or the plurality of locations.

12. A method, comprising:
accessing image data encoding successive images of biological samples disposed at locations on a support and of a fiducial feature formed as troughs in or as ridges on a surface of a support, the biological samples differing from one another to respond differently in successive cycles of fluorescent imaging, the fiducial feature being optically reflective to, during each of the successive cycles of fluorescent imaging, return at least a portion of an incident light away from the surface of the support for locating or registering the support or the locations;
registering, for the successive images, the locations on the support by a reference to the fiducial feature; and
processing the registered successive images to transform data derived from the registered successive images to sequence data.

13. The method of claim 12 , wherein only some of the biological samples appear in the successive images to an exclusion of other of the biological samples, but in which the fiducial feature appears in all of the successive images.

Assignees

• Illumina Inc

Inventors

• Vieceli John S
• Nemiroski Alex
• Belitz Paul
• Langlois Robert
• Bowen M Shane
• Chan Danny Yuan
• Venkatesan Bala Murali K
• Han Hui
• Samiee Kevan
• Tanner Stephen

Classifications

• B01L2200/143

  Quality control, feedback systems · CPC title

• B01L3/5085

  for multiple samples, e.g. microtitration plates · CPC title

• B01J2219/00549

  2-dimensional · CPC title

• G01N2021/6421

  Measuring at two or more wavelengths · CPC title

• B01J19/0046

  Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays (synthesis methods per se C40B50/00) · CPC title