AU2016342355B2 - Computer method and system for deriving cell-to-cell spatial proximities - Google Patents

Computer method and system for deriving cell-to-cell spatial proximities Download PDF

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AU2016342355B2
AU2016342355B2 AU2016342355A AU2016342355A AU2016342355B2 AU 2016342355 B2 AU2016342355 B2 AU 2016342355B2 AU 2016342355 A AU2016342355 A AU 2016342355A AU 2016342355 A AU2016342355 A AU 2016342355A AU 2016342355 B2 AU2016342355 B2 AU 2016342355B2
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biomarker
cells
sample
pair
electromagnetic radiation
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AU2016342355A1 (en
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Jennifer BORDEAUX
Brian LITTLE
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Novartis AG
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Novartis AG
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    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/645—Specially adapted constructive features of fluorimeters
    • G01N21/6456—Spatial resolved fluorescence measurements; Imaging
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/483—Physical analysis of biological material
    • G01N33/4833—Physical analysis of biological material of solid biological material, e.g. tissue samples, cell cultures
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00—Antineoplastic agents
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/574—Immunoassay; Biospecific binding assay; Materials therefor for cancer
    • G01N33/57484—Immunoassay; Biospecific binding assay; Materials therefor for cancer involving compounds serving as markers for tumor, cancer, neoplasia, e.g. cellular determinants, receptors, heat shock/stress proteins, A-protein, oligosaccharides, metabolites
    • G01N33/57492—Immunoassay; Biospecific binding assay; Materials therefor for cancer involving compounds serving as markers for tumor, cancer, neoplasia, e.g. cellular determinants, receptors, heat shock/stress proteins, A-protein, oligosaccharides, metabolites involving compounds localized on the membrane of tumor or cancer cells
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
    • G06T7/00—Image analysis
    • G06T7/0002—Inspection of images, e.g. flaw detection
    • G06T7/0012—Biomedical image inspection
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H30/00—ICT specially adapted for the handling or processing of medical images
    • G16H30/20—ICT specially adapted for the handling or processing of medical images for handling medical images, e.g. DICOM, HL7 or PACS
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H40/00—ICT specially adapted for the management or administration of healthcare resources or facilities; ICT specially adapted for the management or operation of medical equipment or devices
    • G16H40/60—ICT specially adapted for the management or administration of healthcare resources or facilities; ICT specially adapted for the management or operation of medical equipment or devices for the operation of medical equipment or devices
    • G16H40/63—ICT specially adapted for the management or administration of healthcare resources or facilities; ICT specially adapted for the management or operation of medical equipment or devices for the operation of medical equipment or devices for local operation
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H50/00—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics
    • G16H50/30—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for calculating health indices; for individual health risk assessment
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G01N2021/6439—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2800/00—Detection or diagnosis of diseases
    • G01N2800/52—Predicting or monitoring the response to treatment, e.g. for selection of therapy based on assay results in personalised medicine; Prognosis
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
    • G06T2207/00—Indexing scheme for image analysis or image enhancement
    • G06T2207/30—Subject of image; Context of image processing
    • G06T2207/30004—Biomedical image processing
    • G06T2207/30096—Tumor; Lesion

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  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Biomedical Technology (AREA)
  • General Health & Medical Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Immunology (AREA)
  • Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Medical Informatics (AREA)
  • Public Health (AREA)
  • General Physics & Mathematics (AREA)
  • Urology & Nephrology (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • Hematology (AREA)
  • Molecular Biology (AREA)
  • Cell Biology (AREA)
  • Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
  • Medicinal Chemistry (AREA)
  • Epidemiology (AREA)
  • Primary Health Care (AREA)
  • Food Science & Technology (AREA)
  • Oncology (AREA)
  • Radiology & Medical Imaging (AREA)
  • Biotechnology (AREA)
  • Hospice & Palliative Care (AREA)
  • Microbiology (AREA)
  • Data Mining & Analysis (AREA)
  • General Business, Economics & Management (AREA)
  • Business, Economics & Management (AREA)
  • Databases & Information Systems (AREA)
  • Optics & Photonics (AREA)
  • Biophysics (AREA)
  • Quality & Reliability (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Theoretical Computer Science (AREA)
  • Animal Behavior & Ethology (AREA)
  • Veterinary Medicine (AREA)
  • Pharmacology & Pharmacy (AREA)
AU2016342355A 2015-10-23 2016-10-21 Computer method and system for deriving cell-to-cell spatial proximities Active AU2016342355B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201562245933P 2015-10-23 2015-10-23
US62/245,933 2015-10-23
US201562259326P 2015-11-24 2015-11-24
US62/259,326 2015-11-24
PCT/US2016/058278 WO2017070582A1 (en) 2015-10-23 2016-10-21 Computer method and system for deriving cell-to-cell spatial proximities

Publications (2)

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AU2016342355A1 AU2016342355A1 (en) 2018-05-17
AU2016342355B2 true AU2016342355B2 (en) 2022-07-28

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US (3) US10712331B2 (enExample)
EP (1) EP3365682B1 (enExample)
JP (2) JP6780910B2 (enExample)
CN (1) CN108463727B (enExample)
AU (1) AU2016342355B2 (enExample)
ES (1) ES2837015T3 (enExample)
WO (1) WO2017070582A1 (enExample)

Families Citing this family (17)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10004596B2 (en) 2014-07-31 2018-06-26 Lensgen, Inc. Accommodating intraocular lens device
US10533953B2 (en) * 2016-04-04 2020-01-14 Kla-Tencor Corporation System and method for wafer inspection with a noise boundary threshold
EP3519828A4 (en) * 2016-09-29 2020-06-03 Animantis, LLC METHOD AND DEVICE FOR EVALUATING IMMUNE SYSTEM ACTIVITY AND THERAPEUTIC EFFECTIVENESS
WO2018145023A1 (en) * 2017-02-06 2018-08-09 Novartis Ag Method of predicting response to immunotherapy
US10909723B2 (en) * 2017-06-13 2021-02-02 X-Rite, Incorporated Hyperspectral imaging spectrophotometer and system
EP3652534B1 (en) * 2017-07-13 2024-03-27 Institut Gustave Roussy A radiomics-based imaging tool to monitor tumor-lymphocyte infiltration and survival of cancer patients treated with anti-pd-1/pd-l1
WO2019213282A1 (en) 2018-05-01 2019-11-07 Novartis Ag Biomarkers for evaluating car-t cells to predict clinical outcome
US11246527B2 (en) 2018-08-31 2022-02-15 Seno Medical Instruments, Inc. Method and system for managing feature reading and scoring in ultrasound and/or optoacoustice images
US11375984B2 (en) 2018-08-31 2022-07-05 Seno Medical Instruments, Inc. Method and system for managing feature reading and scoring in ultrasound and/or optoacoustic images
EP3693974A1 (en) * 2019-02-07 2020-08-12 Koninklijke Philips N.V. Identifying responsiveness to radio-immuno combination therapy
WO2020257482A1 (en) * 2019-06-19 2020-12-24 Seno Medical Instruments, Inc. Method and system for managing feature reading and scoring in ultrasound and/or optoacoustice images
US11908130B2 (en) * 2020-01-03 2024-02-20 Protein Metrics Llc Apparatuses and methods for digital pathology
CN113192553B (zh) * 2020-01-14 2022-09-09 北京大学 基于单细胞转录组测序数据预测细胞空间关系的方法
CN114981899A (zh) * 2020-01-28 2022-08-30 佩治人工智能公司 用于处理用于生物标志物定位的电子图像的系统和方法
JP2023520683A (ja) * 2020-03-30 2023-05-18 セキュリティ マターズ リミテッド 電子システムのｘｒｆマーキングおよびｘｒｆマークの読取りのための方法およびシステム
US11683098B2 (en) * 2020-07-14 2023-06-20 Raytheon Company Spectrally beam-combined, fiber-based multi-wavelength receiver/transceiver
US12254673B1 (en) * 2021-01-19 2025-03-18 Given Imaging Ltd Systems and methods for classifying or selecting images based on image segmentation

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2015088930A1 (en) * 2013-12-10 2015-06-18 Merck Sharp & Dohme Corp. Immunohistochemical proximity assay for pd-1 positive cells and pd-ligand positive cells in tumor tissue

Family Cites Families (16)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7219016B2 (en) * 2001-04-20 2007-05-15 Yale University Systems and methods for automated analysis of cells and tissues
JP4309183B2 (ja) 2003-06-18 2009-08-05 Ｎｅｃインフロンティア株式会社 指紋入力装置
US7264794B2 (en) 2004-12-17 2007-09-04 The General Hospital Methods of in vivo cytometry
WO2009072098A1 (en) * 2007-12-04 2009-06-11 University College Dublin, National University Of Ireland Method and system for image analysis
EP3216874A1 (en) * 2008-09-05 2017-09-13 TOMA Biosciences, Inc. Methods for stratifying and annotating cancer drug treatment options
CN102165489B (zh) * 2008-09-16 2015-11-25 赫斯托克斯公司 生物标志物表达的可再现量化
JP5569206B2 (ja) * 2010-07-15 2014-08-13 ソニー株式会社 画像処理装置および方法
FR2964744B1 (fr) * 2010-09-10 2015-04-03 Univ Versailles St Quentin En Yvelines Test pronostic de l'evolution d'une tumeur solide par analyse d'images
CN103649713B (zh) * 2010-11-29 2017-03-01 丹麦达科有限公司 由可编程性定量检定所处理的样本的图像分析方法和体系
WO2012166824A2 (en) * 2011-05-31 2012-12-06 Oregon Health And Science University Methods and kits that identify tumors responsive to src inhibitors
AR087363A1 (es) * 2011-07-29 2014-03-19 Pf Medicament Uso del anticuerpo i-3859 para la deteccion y diagnostico de los canceres
DE102012005654B4 (de) * 2011-10-25 2021-03-04 Schott Ag Optischer Konverter für hohe Leuchtdichten
EP2773962B1 (en) * 2011-11-04 2016-09-14 Invivis SAS Assay for predictive biomarkers of anti-estrogen efficacy
US11035005B2 (en) * 2012-08-16 2021-06-15 Decipher Biosciences, Inc. Cancer diagnostics using biomarkers
US9370328B2 (en) 2012-11-29 2016-06-21 University Of Washington Through Its Center For Commercialization Methods and systems for determining tumor boundary characteristics
WO2015124777A1 (en) * 2014-02-21 2015-08-27 Ventana Medical Systems, Inc. Medical image analysis for identifying biomarker-positive tumor cells

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2015088930A1 (en) * 2013-12-10 2015-06-18 Merck Sharp & Dohme Corp. Immunohistochemical proximity assay for pd-1 positive cells and pd-ligand positive cells in tumor tissue

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
Tumeh PC, et al. PD-1 blockade induces responses by inhibiting adaptive immune resistance. Nature. 2014 Nov;515(7528):568-71 *

Also Published As

Publication number Publication date
EP3365682A1 (en) 2018-08-29
US20200300834A1 (en) 2020-09-24
CN108463727B (zh) 2021-06-18
EP3365682B1 (en) 2020-10-07
JP2019500583A (ja) 2019-01-10
JP6977130B2 (ja) 2021-12-08
JP2021012208A (ja) 2021-02-04
US11747319B2 (en) 2023-09-05
EP3365682A4 (en) 2019-04-24
ES2837015T3 (es) 2021-06-29
US20220170905A1 (en) 2022-06-02
CN108463727A (zh) 2018-08-28
AU2016342355A1 (en) 2018-05-17
US20180306768A1 (en) 2018-10-25
WO2017070582A1 (en) 2017-04-27
US11249066B2 (en) 2022-02-15
US10712331B2 (en) 2020-07-14
JP6780910B2 (ja) 2020-11-04

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