System and method with fiducials in non-rectilinear layouts

Patent metadata

Field	Value
Publication number	US-11249025-B2
Application number	US-201816482630-A
Country	US
Kind code	B2
Filing date	Jan 31, 2018
Priority date	Feb 1, 2017
Publication date	Feb 15, 2022
Grant date	Feb 15, 2022

Abstract

Fiducial markers are provided on a patterned array of the type that may be used for molecular analysis, such as sequencing. The fiducial markers may have configurations and layouts 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 non-rectilinear layouts that may provide for more robust location of both the fiducial markers and sites 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
fiducial features on the support having a fluorescent material that responds in the successive cycles of fluorescent imaging, wherein the fiducial features are disposed on the support in a non-rectilinear layout, wherein the non-rectilinear layout comprises a non-repeating layout across the support.

2. The array of claim 1 , wherein the non-rectilinear layout comprises positions of the fiducial feature that are at different X distances from a first edge of the support and at different Y distances from a second edge of the support, wherein the second edge is orthogonal to the first edge.

3. The array of claim 1 , wherein the fluorescent material of the fiducial features is responsive to at least two different wavelengths of light used in the successive cycles of fluorescent imaging.

4. The array of claim 1 , wherein the fiducial features comprise at least one depression and objects disposed in the at least one depression, the objects comprising the fluorescent material.

5. The array of claim 4 , wherein the objects disposed in the at least one depression are too large to be received in the locations of the support that receive the biological samples.

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

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

8. The array of claim 1 , wherein the fiducial features comprise adjacent but non-concentric shapes.

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

10. The array of claim 1 , further comprising:
at least one additional fiducial feature that is formed in or on the support and is optically reflective to, during the successive cycles of fluorescent imaging, return at least a portion of incident radiation for locating or registering the support or the locations.

11. 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
fiducial features on the support having a fluorescent material that responds in the successive cycles of fluorescent imaging, wherein the fiducial features are disposed on the support in a non-rectilinear layout, wherein the fiducial features comprise a non-closed shape.

12. A method, comprising:
disposing biological samples at locations on a support, the biological samples differing from one another to respond differently in successive cycles of fluorescent imaging; and
disposing fiducial features on the support, each of the fiducial features comprising a fluorescent material that responds in the successive cycles of fluorescent imaging, wherein the fiducial features are disposed on the support in a non-rectilinear layout.

13. The method of claim 12 , further comprising:
imaging the biological samples and the fiducial features in the successive cycles of fluorescent imaging at different wavelengths of light to produce image data that encodes fluorescent signals produced by the biological samples and the fiducial features.

14. A method, comprising:
accessing image data encoding successive images of biological samples disposed at locations on a support, the biological samples differing from one another to respond differently in successive cycles of fluorescent imaging, the image data further encoding successive images of fiducial features on the support having fluorescent material that responds in the successive cycles of fluorescent imaging, wherein the fiducial features are disposed on the support in a non-rectilinear layout;
registering, for the successive images of the biological samples, the locations on the support by a reference to the successive images of the fiducial features on the support; and
processing the registered successive images of the biological samples to transform data derived from the registered successive images of the biological samples to sequence data.

15. The method of claim 14 , further comprising:
characterizing molecules having tags at the locations on the support in each of the registered successive images of the biological samples.

16. The method of claim 15 , wherein the molecules comprise nucleic acids.

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

• G01N21/6486

  Measuring fluorescence of biological material, e.g. DNA, RNA, cells (G01N21/6428 takes precedence) · CPC title

• G01N21/6456 Primary

  Spatial resolved fluorescence measurements; Imaging · CPC title

• B01J2219/00659

  Two-dimensional arrays · CPC title

• B01J2219/00648

  by the use of solid beads · CPC title

• B01J2219/00549

  2-dimensional · CPC title