AU2021233926B2 - Systems and methods for deconvolution of expression data - Google Patents

Systems and methods for deconvolution of expression data

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Publication number
AU2021233926B2
AU2021233926B2 AU2021233926A AU2021233926A AU2021233926B2 AU 2021233926 B2 AU2021233926 B2 AU 2021233926B2 AU 2021233926 A AU2021233926 A AU 2021233926A AU 2021233926 A AU2021233926 A AU 2021233926A AU 2021233926 B2 AU2021233926 B2 AU 2021233926B2
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Prior art keywords
expression data
cells
genes
cell
cell type
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AU2021233926A
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English (en)
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AU2021233926A1 (en
Inventor
Ravshan Ataullakhanov
Alexander BAGAEV
Maksim Chelushkin
Ilya CHEREMUSHKIN
Daniiar DYIKANOV
Ekaterina Nuzhdina
Boris SHPAK
Aleksandr Zaitsev
Vladimir ZYRIN
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BostonGene Corp
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BostonGene Corp
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    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/10—Gene or protein expression profiling; Expression-ratio estimation or normalisation
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/20—Supervised data analysis
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06F—ELECTRIC DIGITAL DATA PROCESSING
    • G06F17/00—Digital computing or data processing equipment or methods, specially adapted for specific functions
    • G06F17/10—Complex mathematical operations
    • G06F17/18—Complex mathematical operations for evaluating statistical data, e.g. average values, frequency distributions, probability functions, regression analysis
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

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  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Medical Informatics (AREA)
  • Data Mining & Analysis (AREA)
  • Theoretical Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Evolutionary Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Genetics & Genomics (AREA)
  • Biophysics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Databases & Information Systems (AREA)
  • Software Systems (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Bioethics (AREA)
  • Artificial Intelligence (AREA)
  • Molecular Biology (AREA)
  • General Physics & Mathematics (AREA)
  • Mathematical Analysis (AREA)
  • Computational Mathematics (AREA)
  • Mathematical Optimization (AREA)
  • Pure & Applied Mathematics (AREA)
  • Mathematical Physics (AREA)
  • Operations Research (AREA)
  • Probability & Statistics with Applications (AREA)
  • Algebra (AREA)
  • General Engineering & Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Medical Treatment And Welfare Office Work (AREA)
AU2021233926A 2020-03-12 2021-03-12 Systems and methods for deconvolution of expression data Active AU2021233926B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US202062988700P 2020-03-12 2020-03-12
US62/988,700 2020-03-12
US202063108262P 2020-10-30 2020-10-30
US63/108,262 2020-10-30
PCT/US2021/022155 WO2021183917A1 (en) 2020-03-12 2021-03-12 Systems and methods for deconvolution of expression data

Publications (2)

Publication Number Publication Date
AU2021233926A1 AU2021233926A1 (en) 2022-09-29
AU2021233926B2 true AU2021233926B2 (en) 2025-12-18

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AU2021233926A Active AU2021233926B2 (en) 2020-03-12 2021-03-12 Systems and methods for deconvolution of expression data

Country Status (7)

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US (3) US11315658B2 (https=)
EP (2) EP4383262A3 (https=)
JP (2) JP7541585B2 (https=)
AU (1) AU2021233926B2 (https=)
CA (1) CA3175126A1 (https=)
IL (1) IL296316A (https=)
WO (1) WO2021183917A1 (https=)

Families Citing this family (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP7541585B2 (ja) 2020-03-12 2024-08-28 ボストンジーン コーポレイション 発現データのデコンボリューションのためのシステム及び方法
JP2024517745A (ja) 2021-04-29 2024-04-23 ボストンジーン コーポレイション 複合腫瘍組織における腫瘍細胞発現を推定するための機械学習技法
AU2022275923A1 (en) 2021-05-18 2023-11-23 Bostongene Corporation Techniques for single sample expression projection to an expression cohort sequenced with another protocol
CN114038505B (zh) * 2021-10-19 2024-06-14 清华大学 一种在线整合多来源单细胞数据的方法和系统
EP4423301B1 (en) 2021-10-29 2025-12-10 BostonGene Corporation Tumor microenvironment types in breast cancer
US20240177803A1 (en) 2022-11-17 2024-05-30 Bostongene Corporation Comprehensive immunoprofiling of peripheral blood
EP4673723A1 (en) 2023-03-01 2026-01-07 BostonGene Corporation Systems and methods for analyzing cytometry data
EP4695425A1 (en) 2023-04-13 2026-02-18 BostonGene Corporation Pan-cancer tumor microenvironment classification based on immune escape mechanisms and immune infiltration
CN116779043A (zh) * 2023-06-30 2023-09-19 京东方科技集团股份有限公司 细胞比例预测方法、模型生成方法、设备及介质
US20260120879A1 (en) 2023-10-31 2026-04-30 Bostongene Corporation Machine learning technique for identifying ici responders and non-responders

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2019018684A1 (en) * 2017-07-21 2019-01-24 The Board Of Trustees Of The Leland Stanford Junior University SYSTEMS AND METHODS FOR ANALYZING MIXED CELL POPULATIONS
US20190233898A1 (en) * 2015-01-22 2019-08-01 The Board Of Trustees Of The Leland Stanford Junior University Methods and Systems for Determining Proportions of Distinct Cell Subsets

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US10636512B2 (en) * 2017-07-14 2020-04-28 Cofactor Genomics, Inc. Immuno-oncology applications using next generation sequencing
JP7421475B2 (ja) * 2018-06-29 2024-01-24 株式会社Preferred Networks 学習方法、混合率予測方法及び学習装置
AU2019317440B2 (en) * 2018-08-06 2026-01-22 Tempus Ai, Inc. A multi-modal approach to predicting immune infiltration based on integrated RNA expression and imaging features
WO2020142563A1 (en) 2018-12-31 2020-07-09 Tempus Labs, Inc. Transcriptome deconvolution of metastatic tissue samples
JP7541585B2 (ja) 2020-03-12 2024-08-28 ボストンジーン コーポレイション 発現データのデコンボリューションのためのシステム及び方法

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20190233898A1 (en) * 2015-01-22 2019-08-01 The Board Of Trustees Of The Leland Stanford Junior University Methods and Systems for Determining Proportions of Distinct Cell Subsets
WO2019018684A1 (en) * 2017-07-21 2019-01-24 The Board Of Trustees Of The Leland Stanford Junior University SYSTEMS AND METHODS FOR ANALYZING MIXED CELL POPULATIONS

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
ARAN DVIR, HU ZICHENG, BUTTE ATUL J.: "xCell: digitally portraying the tissue cellular heterogeneity landscape", GENOME BIOLOGY, vol. 18, no. 1, 1 December 2017 (2017-12-01), XP055816715, DOI: 10.1186/s13059-017-1349-1 *

Also Published As

Publication number Publication date
WO2021183917A1 (en) 2021-09-16
US11315658B2 (en) 2022-04-26
JP2023518185A (ja) 2023-04-28
JP2024174879A (ja) 2024-12-17
IL296316A (en) 2022-11-01
JP7541585B2 (ja) 2024-08-28
EP4383262A3 (en) 2024-08-14
CA3175126A1 (en) 2021-09-16
EP4383262A2 (en) 2024-06-12
US20230178178A1 (en) 2023-06-08
US11587642B2 (en) 2023-02-21
WO2021183917A8 (en) 2021-12-16
EP4118657B1 (en) 2024-05-01
EP4118657A1 (en) 2023-01-18
US20210287759A1 (en) 2021-09-16
AU2021233926A1 (en) 2022-09-29
WO2021183917A9 (en) 2021-11-04
JP7818662B2 (ja) 2026-02-20
US20220230707A1 (en) 2022-07-21

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