Systems and methods for multiplexed biomarker quantitation using single cell segmentation on sequentially stained tissue

A biological marker, cell technology, applied in image analysis, character and pattern recognition, image enhancement, etc.

Active Publication Date: 2015-12-02
莱卡微系统 CMS +1
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  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

However, 3D cells are not divided as units

Method used

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  • Systems and methods for multiplexed biomarker quantitation using single cell segmentation on sequentially stained tissue
  • Systems and methods for multiplexed biomarker quantitation using single cell segmentation on sequentially stained tissue
  • Systems and methods for multiplexed biomarker quantitation using single cell segmentation on sequentially stained tissue

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Embodiment Construction

[0101] The present disclosure will be further described with respect to the following examples; however, the scope of the present disclosure is not limited thereby.

[0102] Material

[0103] Images were acquired with an Olympus microscope from: i) a representative dataset of tissue samples of different degrees of prostate cancer, and ii) xenograft images. Typical biomarkers of interest include, but are not limited to: DAPI, CFP3, S6, pS6, DAPI, CFP4, Glul, pCad, CFP5, pCREB, Ki67, pS6235, CFP6, AF_pCREB, AF_Ki67, CFP7, FOX03a, NaKATP, CFP8, pAkt , keratin, CFP9, and pGSK3β.

[0104] Structural flags include: T structural ={DAPI,S6,pCad,NaKATP,keratin}, the rest are protein markers T Protein .

[0105] method review

[0106]As noted above, the following definitions of the present disclosure mathematically formalize an "individual cell" as an entity in the following respects: (i) Compartment: Each somatic cell has a generally semicircular / elliptical shape and consists of...

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Abstract

Improved systems and methods for the analysis of digital images are provided. More particularly, the present disclosure provides for improved systems and methods for the analysis of digital images of biological tissue samples. Exemplary embodiments provide for: i) segmenting, ii) grouping, and iii) quantifying molecular protein profiles of individual cells in terms of sub cellular compartments (nuclei, membrane, and cytoplasm). The systems and methods of the present disclosure advantageously perform tissue segmentation at the sub-cellular level to facilitate analyzing, grouping and quantifying protein expression profiles of tissue in tissue sections globally and / or locally. Performing local-global tissue analysis and protein quantification advantageously enables correlation of spatial and molecular configuration of cells with molecular information of different types of cancer.

Description

field of invention [0001] Embodiments relate generally to the analysis of digital images, and more particularly, to the analysis of digital images of biological tissue samples. Background of the invention [0002] In general, the term demarcation refers to the identification of the boundaries of biological units, such as cells, within a digital image. These boundaries separate individual units from each other. Digital images can be obtained using a microscope. Weak or data-driven segmentation algorithms can be used to define cell boundaries. For example, watershed transformation is an image processing technique that has been used to segment images of cells. Using the watershed transform, digital images can be modeled as three-dimensional topological surfaces, where the values ​​(eg, brightness or gray level) of pixels in the image represent geographic heights. [0003] However, due to histological variations across different tissue types, weak segmentation algorithms ma...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06T7/00
CPCG06K9/0014G06T7/0012G06T2207/10064G06T2207/30024G06V20/695
Inventor A.桑塔马里亚-庞B.D.萨拉钱J.里特谢尔D.R.帕菲尔德A.肯Z.庞M.O.贝罗F.M.金蒂C.J.塞文斯基Q.李M.P.罗思尼
Owner 莱卡微系统 CMS
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