公开(公告)号：US12249085B2

公开(公告)日：2025-03-11

申请号：US18185599

申请日：2023-03-17

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Hanyoup Kim ,  Siyuan Xing ,  Felice Alessio Bava ,  Rajiv Bharadwaj ,  Cedric Uytingco ,  Erica Graziosa

IPC: G06V10/24 ,  G06T7/33 ,  G06V10/25 ,  G01N1/30

Abstract: A method for aligning a sample to an array is provided. An image of sample image of a sample can be received by a data processor. The sample image having a first resolution. An array image including an overlay of an array with the sample and an array fiducial can be received by the data processor. The array image having a second resolution lower than the first resolution of the sample image. The sample image can be registered to the array image by aligning the sample image and the array image. An aligned image can be generated based on the registering. The aligned image can include an overlay of the sample image with the array. The aligned image can be provided by the data processor. A method for detecting fiducials associated with an array is provided. Systems and non-transitory computer readable mediums performing the method are also provided.

公开(公告)号：US20240253036A1

公开(公告)日：2024-08-01

申请号：US18585357

申请日：2024-02-23

Applicant: 10x Genomics, Inc.

Inventor： Hanyoup Kim ,  Augusto Manuel Tentori ,  Siyuan Xing ,  Rajiv Bharadwaj ,  Bill Kengli Lin ,  Felice Alessio Bava ,  Pratomo Putra Alimsijah ,  Nabil Mikhaiel

IPC: B01L3/00 ,  C12Q1/6837 ,  C12Q1/6841 ,  G01N1/31

CPC classification number: B01L3/502715 ,  B01L3/502723 ,  C12Q1/6837 ,  C12Q1/6841 ,  G01N1/312 ,  B01L2200/027 ,  B01L2300/0822 ,  B01L2400/0421

Abstract: Provided herein is a fluid delivery method for permeabilizing a biological sample. The method includes delivering the fluid to a first substrate and/or a second substrate. At least one of the first substrate and the second substrate includes a spacer. The method further includes assembling, subsequent to the delivering, a chamber comprising the first substrate, the second substrate, the biological sample, and the spacer. The spacer may be disposed between the first substrate and second substrate. The spacer may be configured to maintain the fluid within the chamber and maintain a separation distance between the first substrate and the second substrate. The spacer may be positioned to at least partially surround an area on the first substrate on which the biological sample is disposed and/or at least partially surround the array disposed on the second substrate.

公开(公告)号：US20240033743A1

公开(公告)日：2024-02-01

申请号：US18245855

申请日：2021-09-17

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Hanyoup Kim ,  Siyuan Xing ,  Rajiv Bharadwaj ,  Bill Kengli Lin ,  Felice Alessio Bava ,  Pratomo Putra Alimsijah ,  Hendricus Marindra ,  Spontaneous Rose Mcknight Russell ,  Nabil Mikhaiel

IPC: B01L9/00

CPC classification number: B01L9/52 ,  B01L2200/025 ,  B01L2300/027 ,  B01L2300/0822 ,  B01L2300/1883 ,  B01L7/52

Abstract: A sample holder is provided. The sample holder includes a first member including a first retaining mechanism configured to retain a first substrate comprising a sample. The first retaining mechanism configured to retain the first substrate disposed in a first plane. The sample holder further includes a second member including a second retaining mechanism configured to retain a second substrate including a reagent medium disposed in a second plane. The sample holder further includes an alignment mechanism connected to one or both of the first member and the second member. The alignment mechanism configured to align the first and second members along the first plane and/or the second plane such that the sample contacts at least a portion of the reagent medium when the first and second members are aligned and within a threshold distance along an axis orthogonal to the second plane.

公开(公告)号：US20230267625A1

公开(公告)日：2023-08-24

申请号：US18185599

申请日：2023-03-17

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Hanyoup Kim ,  Siyuan Xing ,  Felice Alessio Bava ,  Rajiv Bharadwaj ,  Cedric Uytingco ,  Erica Graziosa

IPC: G06T7/33 ,  G06V10/25

CPC classification number: G06T7/33 ,  G06V10/25 ,  G06T2207/10056 ,  G06T2207/20132

Abstract: A method for aligning a sample to an array is provided. An image of sample image of a sample can be received by a data processor. The sample image having a first resolution. An array image including an overlay of an array with the sample and an array fiducial can be received by the data processor. The array image having a second resolution lower than the first resolution of the sample image. The sample image can be registered to the array image by aligning the sample image and the array image. An aligned image can be generated based on the registering. The aligned image can can include an overlay of the sample image with the array. The aligned image can be provided by the data processor. A method for detecting fiducials associated with an array is provided. Systems and non-transitory computer readable mediums performing the method are also provided.

公开(公告)号：US20230047782A1

公开(公告)日：2023-02-16

申请号：US17796463

申请日：2021-02-05

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Rajiv Bharadwaj ,  Hanyoup Kim ,  Siyuan Xing

IPC: C12Q1/6837 ,  G02B21/36

Abstract: Quantitative methods for optimizing the permeabilization of cellular tissues for spatial transcriptomics are provided. Also provided is an instrument for quantitatively optimizing the permeabilization of cellular tissues used for spatial transcriptomics.

公开(公告)号：US20250002980A1

公开(公告)日：2025-01-02

申请号：US18884272

申请日：2024-09-13

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Rajiv Bharadwaj ,  Hanyoup Kim ,  Siyuan Xing

IPC: C12Q1/6837 ,  G02B21/36

Abstract: Quantitative methods for optimizing the permeabilization of cellular tissues for spatial transcriptomics are provided. Also provided is an instrument for quantitatively optimiz-ing the permeabilization of cellular tissues used for spatial transcriptomics.

公开(公告)号：US20240408593A1

公开(公告)日：2024-12-12

申请号：US18664237

申请日：2024-05-14

Applicant: 10x Genomics, Inc.

Inventor： Hanyoup Kim ,  Augusto Manuel Tentori ,  Siyuan Xing ,  Rajiv Bharadwaj ,  Bill Kengli Lin ,  Felice Alessio Bava ,  Pratomo Putra Alimsijah ,  Nabil Mikhaiel

IPC: B01L3/00 ,  C12Q1/6837 ,  C12Q1/6841 ,  G01N1/31

Abstract: Provided herein is a fluid delivery method for permeabilizing a biological sample. The method includes delivering the fluid to a first substrate and/or a second substrate. At least one of the first substrate and the second substrate includes a spacer. The method further includes assembling, subsequent to the delivering, a chamber comprising the first substrate, the second substrate, the biological sample, and the spacer. The spacer may be disposed between the first substrate and second substrate. The spacer may be configured to maintain the fluid within the chamber and maintain a separation distance between the first substrate and the second substrate. The spacer may be positioned to at least partially surround an area on the first substrate on which the biological sample is disposed and/or at least partially surround the array disposed on the second substrate.

公开(公告)号：US12129516B2

公开(公告)日：2024-10-29

申请号：US17796463

申请日：2021-02-05

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Rajiv Bharadwaj ,  Hanyoup Kim ,  Siyuan Xing

IPC: C12Q1/6837 ,  G02B21/36

CPC classification number: C12Q1/6837 ,  G02B21/367 ,  G06T2207/10056

Abstract: Quantitative methods for optimizing the permeabilization of cellular tissues for spatial transcriptomics are provided. Also provided is an instrument for quantitatively optimizing the permeabilization of cellular tissues used for spatial transcriptomics.

公开(公告)号：US12128403B2

公开(公告)日：2024-10-29

申请号：US17873586

申请日：2022-07-26

Applicant: 10x Genomics, Inc.

Inventor： Hanyoup Kim ,  Augusto Manuel Tentori ,  Siyuan Xing ,  Rajiv Bharadwaj ,  Bill Kengli Lin ,  Felice Alessio Bava ,  Pratomo Putra Alimsijah ,  Nabil Mikhaiel

IPC: B01L3/00 ,  C12Q1/6837 ,  C12Q1/6841 ,  G01N1/31

CPC classification number: B01L3/502715 ,  B01L3/502723 ,  C12Q1/6837 ,  C12Q1/6841 ,  G01N1/312 ,  B01L2200/027 ,  B01L2300/0822 ,  B01L2400/0421

Abstract: Provided herein is a fluid delivery method for permeabilizing a biological sample. The method includes delivering the fluid to a first substrate and/or a second substrate. At least one of the first substrate and the second substrate includes a spacer. The method further includes assembling, subsequent to the delivering, a chamber comprising the first substrate, the second substrate, the biological sample, and the spacer. The spacer may be disposed between the first substrate and second substrate. The spacer may be configured to maintain the fluid within the chamber and maintain a separation distance between the first substrate and the second substrate. The spacer may be positioned to at least partially surround an area on the first substrate on which the biological sample is disposed and/or at least partially surround the array disposed on the second substrate.

公开(公告)号：US20230351619A1

公开(公告)日：2023-11-02

申请号：US18044903

申请日：2021-09-17

Applicant: 10x Genomics, Inc.

Inventor： Augusto Manuel Tentori ,  Hanyoup Kim ,  Siyuan Xing ,  Felice Alessio Bava ,  Rajiv Bharadwaj ,  Cedric Uytingco ,  Erica Graziosa

IPC: G06T7/33

CPC classification number: G06T7/33 ,  G01N1/30

Abstract: A method for aligning a sample to an array is provided. An image of sample image of a sample can be received by a data processor. The sample image having a first resolution. An array image including an overlay of an array with the sample and an array fiducial can be received by the data processor. The array image having a second resolution lower than the first resolution of the sample image. The sample image can be registered to the array image by aligning the sample image and the array image. An aligned image can be generated based on the registering. The aligned image can include an overlay of the sample image with the array. The aligned image can be provided by the data processor. A method for detecting fiducials associated with an array is provided. Systems and non-transitory computer readable mediums performing the method are also provided.