US-20260127842-A1 - COMPUTERIZED SYSTEMS AND METHODS FOR ELECTRONIC IMAGE ANALYSIS FOR IDENTIFYING REGIONS OF INTEREST

US20260127842A1US 20260127842 A1US20260127842 A1US 20260127842A1US-20260127842-A1

Abstract

Disclosed herein is a computer implemented method to receive a user defined region of interest selection of a sample image that is used to extract a portion of sample for analysis by an analysis device.

Inventors

Sabrina Shore
Maria Elena GALLINA
Gina Clotilde BENEDETTO
Henri A. Kester

Assignees

Singular Genomics Systems, Inc.

Dates

Publication Date: 20260507
Application Date: 20251022

Claims (20)

1 . A method of processing a sample for analysis, the method comprising: providing a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session distinct from the first image processing sub-session; capturing a sample image; capturing a region of interest selection within the sample image in the first image processing sub-session; capturing a second set of data items in accordance with the second data processing sub-session of the region of interest selection session, the second set of data items distinct from the sample image and comprising one or more of: data obtained from the user or user-input data.
2 . The method of claim 1 , wherein the first image processing sub-session comprises, consists, or consists essentially of an initial sub-session, the initial sub-session comprising, consisting, or consisting essentially of capturing the sample image via one or more cameras or downloading an image.
3 . The method of claim 1 , wherein the first image processing sub-session comprises, consists, or consists essentially of a subsequent sub-session, the subsequent sub-session comprising, consisting, or consisting essentially of capturing the region of interest boundary selection, sample boundary selection, sample scale selection and combinations thereof.
4 . The method of claim 3 , wherein the second data processing sub-session comprises, consists, or consists essentially of capturing user-input data.
5 . The method of claim 1 , further comprising transferring data from the first image processing sub-session and/or second data processing sub-session to an analysis device or technician.
6 . The method of claim 1 , further comprising processing a portion of sample that corresponds to the region of interest selection by the analysis device based at least in part on the data from the first image processing sub-session and/or second data processing sub-session.
7 . The method of claim 1 , further comprising analyzing at least a portion of the sample based at least in part on the data from the first image processing sub-session and/or second data processing sub-session.
8 . The method of claim 1 , further comprising outputting a report based at least in part on the data from the first image processing sub-session and/or second data processing sub-session.
9 . The method of claim 1 , wherein the sample image comprises, consists, or consists essentially of one or more frames that represent the sample.
10 . The method of claim 9 , wherein the region of interest boundary selection comprises, consists, or consists essentially of one or more region of interest boundary selections on one or more sample image.
11 . The method of claim 10 , wherein the sample boundary selection comprises, consists, or consists essentially of one or more sample boundary overlay on one or more sample image.
12 . The method of claim 11 , wherein the sample scale selection comprises, consists, or consists essentially of one or more sample scale overlay on one or more sample image.
13 . The method of claim 1 wherein providing the region of interest selection session comprises, consists, or consists essentially of: providing a top-level interface that comprises, consists, or consists essentially of a first interface tile, wherein the first interface tile corresponds to the first image processing sub-session, and wherein the first image processing sub-session comprises, consists, or consists essentially of a first image processing sub-session interface level that is at a same level relative to a level of the top-level interface.
14 . The method of claim 13 , wherein providing the region of interest selection session comprises, consists, or consists essentially of: providing a top-level interface that comprises, consists, or consists essentially of a second interface tile, wherein the second interface tile corresponds to the second data processing sub-session, and wherein the second data processing sub-session comprises, consists, or consists essentially of a second data processing sub-session interface level that is at a same level relative to a level of the top-level interface.
15 . The method of claim 3 , wherein the region of interest boundary selection, sample boundary selection and/or sample scale selection comprises, consists, or consists essentially of an image overlay.
16 . The method of claim 1 , wherein the second data processing sub-session is initiated (i) subsequent to or (ii) before the completion of the first image processing sub-session.
17 . The method of claim 5 , wherein transferring data from the first image processing sub-session and/or second data processing sub-session to an analysis device or technician comprises, consists, or consists essentially of transferring at least one of the first set of data items or the second set of data items.
18 . The method of claim 1 , wherein the region of interest corresponds to a cutting device.
19 . A method of selecting a region of interest in a sample for analysis, the method comprising: providing by a webserver a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session distinct from the first image processing sub-session; capturing by a visual display device a sample image during the first image processing sub-session; capturing by a visual display device a region of interest boundary selection of the sample image during the first image processing sub-session; and capturing by a visual display device user input during the second data processing sub-session thereby selecting a region of interest in the sample for analysis.
20 . A method of selecting a region of interest in a sample for analysis, the method comprising: providing by a visual display device a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session distinct from the first image processing sub-session; capturing by a visual display device a sample image during the first image processing sub-session; capturing by a visual display device a region of interest boundary selection of the sample image during the first image processing sub-session; and capturing by a visual display device user input during the second data processing sub-session thereby selecting a region of interest in the sample for analysis.

Description

CROSS-REFERENCES TO RELATED APPLICATIONS This application claims the benefit of U.S. Provisional Application No. 63/733,690, filed Dec. 13, 2024, and U.S. Provisional Application No. 63/715,770, filed Nov. 4, 2024, each of which are incorporated herein by reference in their entirety and for all purposes. BACKGROUND Historically, biological samples are received by a diagnostic organization from the transferring clinician. The diagnostic organization assesses the sample without comment from the transferring clinician even though the transferring clinician may believe that a portion of the sample is more desirable for assessment than others. Accordingly, identification of regions of interest in a sample remains a concern. Even if the transferring clinician is able to convey region of interest information to the sequencing organization via in-person interactions or virtual interactions, there is currently no method to receive and utilize a region of interest selection from a transferring clinician to define the portion of the sample that is detected. Disclosed herein, inter alia, are solutions to these and other problems in the art. BRIEF SUMMARY In an aspect provided a method of selecting a region of interest in a sample for analysis. In embodiments, the method includes providing, by a webserver, a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session; capturing by a webserver a sample image during the first image processing sub-session; capturing by a webserver a region of interest boundary selection of the sample image during the first image processing sub-session; and capturing by a webserver user input during the second data processing sub-session thereby selecting a region of interest in the sample for analysis. In another aspect is provided a method of selecting a region of interest in a sample for analysis. In embodiments, the method includes providing, by a visual display device, a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session; capturing by a visual display device a sample image during the first image processing sub-session; capturing by a visual display device a region of interest boundary selection of the sample image during the first image processing sub-session; and capturing by a visual display device user input during the second data processing sub-session thereby selecting a region of interest in the sample for analysis. In another aspect is provided a system for receiving a region of interest selection, the system including: a memory configured to store a sample image; and one or more processors in communication with the memory, the one or more processors configured to: provide a region of interest selection session configured to allow a user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session. In an aspect is provided a non-transitory computer-readable storage medium having stored thereon instructions that, when executed, cause one or more processors to: provide a region of interest selection session to a user, the region of interest selection session configured to allow the user to navigate a plurality of sub-sessions comprising at least a first image processing sub-session and a second data processing sub-session. BRIEF DESCRIPTION OF THE DRAWINGS FIG. 1 is a block diagram illustrating an example system 100 that comprises, consists, or consists essentially of one or more example visual display device(s) 2, one or more analysis device(s) 5, network 10, one or more edge device(s) 3, and one or more webserver(s) 4, in accordance with one or more techniques disclosed herein. FIG. 2 is a functional block diagram illustrating an example configuration of an example visual display device of FIG. 1, in accordance with one or more techniques disclosed herein. FIG. 3 is an example user interface (UI) visualization on an example visual display device, in accordance with one or more techniques of this disclosure. FIG. 4 is a flowchart illustrating an example method in accordance with one or more techniques of this disclosure. FIG. 5 is a flowchart illustrating an example method in accordance with one or more techniques of this disclosure. Like reference characters denote like elements throughout the description and figures. DETAILED DESCRIPTION The aspects and embodiments described herein relate to user interfaces configured to allow a user to identify a region of interest in a tissue sample image. Aspects and embodiments of this disclosure are directed to one or more visual display devices having processing circuitry, where the processing circuitry is configured to facilitate region of interest selection for spatial sequ