CA3131254A1 - Automated detection of boundaries in mass spectrometry data - Google Patents

Automated detection of boundaries in mass spectrometry data Download PDF

Info

Publication number
CA3131254A1
CA3131254A1 CA3131254A CA3131254A CA3131254A1 CA 3131254 A1 CA3131254 A1 CA 3131254A1 CA 3131254 A CA3131254 A CA 3131254A CA 3131254 A CA3131254 A CA 3131254A CA 3131254 A1 CA3131254 A1 CA 3131254A1
Authority
CA
Canada
Prior art keywords
model
peak
data
mass spectrometry
stop
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Pending
Application number
CA3131254A
Other languages
English (en)
French (fr)
Inventor
Daniel SERIE
Zhenqin WU
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Venn Biosciences Corp
Original Assignee
Venn Biosciences Corp
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Venn Biosciences Corp filed Critical Venn Biosciences Corp
Publication of CA3131254A1 publication Critical patent/CA3131254A1/en
Pending legal-status Critical Current

Links

Classifications

    • 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
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/08—Learning methods
    • 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
    • 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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • 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
    • G16H10/00—ICT specially adapted for the handling or processing of patient-related medical or healthcare data
    • G16H10/40—ICT specially adapted for the handling or processing of patient-related medical or healthcare data for data related to laboratory analysis, e.g. patient specimen analysis
    • 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
    • G16H50/20—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for computer-aided diagnosis, e.g. based on medical expert systems
    • 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
    • G16H50/70—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for mining of medical data, e.g. analysing previous cases of other patients

Landscapes

  • Engineering & Computer Science (AREA)
  • Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • General Health & Medical Sciences (AREA)
  • Public Health (AREA)
  • Data Mining & Analysis (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Epidemiology (AREA)
  • Theoretical Computer Science (AREA)
  • Biophysics (AREA)
  • Databases & Information Systems (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Evolutionary Computation (AREA)
  • Software Systems (AREA)
  • Artificial Intelligence (AREA)
  • Biomedical Technology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Bioethics (AREA)
  • Primary Health Care (AREA)
  • Molecular Biology (AREA)
  • Pathology (AREA)
  • Physiology (AREA)
  • Computational Linguistics (AREA)
  • Computing Systems (AREA)
  • General Engineering & Computer Science (AREA)
  • General Physics & Mathematics (AREA)
  • Mathematical Physics (AREA)
  • Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
CA3131254A 2019-03-29 2020-03-27 Automated detection of boundaries in mass spectrometry data Pending CA3131254A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201962826228P 2019-03-29 2019-03-29
US62/826,228 2019-03-29
PCT/US2020/025502 WO2020205649A1 (en) 2019-03-29 2020-03-27 Automated detection of boundaries in mass spectrometry data

Publications (1)

Publication Number Publication Date
CA3131254A1 true CA3131254A1 (en) 2020-10-08

Family

ID=70293149

Family Applications (1)

Application Number Title Priority Date Filing Date
CA3131254A Pending CA3131254A1 (en) 2019-03-29 2020-03-27 Automated detection of boundaries in mass spectrometry data

Country Status (12)

Country Link
US (3) US11869634B2 (enExample)
EP (1) EP3948874A1 (enExample)
JP (2) JP7596290B2 (enExample)
KR (1) KR20210145210A (enExample)
CN (1) CN113785362A (enExample)
AU (1) AU2020253345B2 (enExample)
BR (1) BR112021019514A2 (enExample)
CA (1) CA3131254A1 (enExample)
IL (1) IL286676A (enExample)
PH (1) PH12021552421A1 (enExample)
SG (1) SG11202110748QA (enExample)
WO (1) WO2020205649A1 (enExample)

Cited By (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113866817A (zh) * 2021-09-28 2021-12-31 中南大学 基于神经网络的中子衍射峰位预测方法、设备和介质
US12056443B1 (en) * 2023-12-13 2024-08-06 nference, inc. Apparatus and method for generating annotations for electronic records

Families Citing this family (23)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
KR20210145210A (ko) 2019-03-29 2021-12-01 벤 바이오사이언시스 코포레이션 질량 분석 데이터의 경계 자동 검출
US11644470B2 (en) * 2019-04-15 2023-05-09 Bioinformatics Solutions Inc. Systems and methods for de novo peptide sequencing using deep learning and spectrum pairs
CN114391099B (zh) * 2019-10-02 2025-12-02 株式会社岛津制作所 波形解析方法和波形解析装置
CN115244397B (zh) * 2020-03-16 2025-12-02 豪夫迈·罗氏有限公司 用于lc-ms的质量控制工具
CN112614550B (zh) * 2020-12-17 2024-03-15 华东理工大学 一种基于神经网络的分子筛x射线衍射图谱峰位置的预测方法
CN113780430B (zh) * 2021-09-14 2024-05-24 天津国科医疗科技发展有限公司 一种基于Hopfield模型的三重四极杆质谱仪谱图分类方法
EP4409035A4 (en) 2021-09-30 2026-01-07 Venn Biosciences Corp SYSTEMS AND METHODS FOR DETERMINING GLYCOPEPTIDE CONCENTRATION, DETERMINING STANDARDIZED ABUNDANCE, AND PREPARING SAMPLES FOR LC/MS
WO2023075591A1 (en) 2021-10-29 2023-05-04 Venn Biosciences Corporation Ai-driven glycoproteomics liquid biopsy in nasopharyngeal carcinoma
CN113933373B (zh) * 2021-12-16 2022-02-22 成都健数科技有限公司 一种利用质谱数据确定有机物结构的方法和系统
US12158415B2 (en) * 2022-04-12 2024-12-03 2S Water Incorporated Detection of water contamination based on spectrographic analysis
CN114755357B (zh) * 2022-04-14 2025-02-11 武汉迈特维尔生物科技有限公司 一种色谱质谱自动积分方法、系统、设备、介质
US12437981B2 (en) * 2022-05-20 2025-10-07 Sapient Bioanalytics, Llc Adjustments of mass spectrometry signals
CN115171790B (zh) * 2022-07-05 2026-06-12 西湖欧米(杭州)生物科技有限公司 质谱的数据序列在质量评估中的分析方法、装置和存储介质
CN115171805A (zh) * 2022-07-23 2022-10-11 苏州青山生物科技有限公司 用于分辨生物分子质谱成像的系统及其使用方法
US20240046469A1 (en) * 2022-08-05 2024-02-08 Shanghai United Imaging Healthcare Co., Ltd. Systems and methods for signal processing
EP4390390A1 (en) * 2022-12-19 2024-06-26 Ares Trading S.A. Method for determining peak characteristics on analytical data sets
WO2024133265A1 (en) * 2022-12-19 2024-06-27 Ares Trading S.A. Method for determining peak characteristics on analytical data sets
JP2026505709A (ja) * 2023-01-11 2026-02-18 プレドミックス ヘルス サイエンシーズ プライベート リミテッド 複数の癌の早期検出のための新規のシステム及び方法
JP2024152037A (ja) * 2023-04-13 2024-10-25 株式会社島津製作所 波形解析方法、波形解析装置、及び分析装置
WO2024261533A2 (en) * 2023-06-03 2024-12-26 Clarity Bio Systems India Pvt. Ltd. Identifying and quantifying probable principal ions in ion-mobility domain of mass spectrometry data
WO2025022464A1 (en) * 2023-07-27 2025-01-30 Clarity Bio Systems India Private Limited Identifying and quantifying list of probable principal ions in chromatographic dimension present in a material
CN119355483B (zh) * 2024-10-09 2026-03-24 电子科技大学 一种基于数据驱动的射频电路板故障诊断方法
CN119673311B (zh) * 2024-12-17 2025-09-26 华中科技大学 一种挥发性有机化合物色谱峰保留时间的预测方法及系统

Family Cites Families (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP3130139B2 (ja) * 1992-09-17 2001-01-31 株式会社日立製作所 クロマトグラム解析方法及びクロマトグラフ装置
US20060255258A1 (en) 2005-04-11 2006-11-16 Yongdong Wang Chromatographic and mass spectral date analysis
GB2466732B (en) 2007-10-30 2011-12-21 Schlumberger Holdings Chromatography data processing method and system
US20180179499A1 (en) * 2015-06-04 2018-06-28 Bioamber Inc. Biobased production of functionalized alpha-substituted acrylates and c4-dicarboxylates
US10410113B2 (en) 2016-01-14 2019-09-10 Preferred Networks, Inc. Time series data adaptation and sensor fusion systems, methods, and apparatus
CN109416926A (zh) * 2016-04-11 2019-03-01 迪森德克斯公司 质谱数据分析工作流程
CN106586814A (zh) * 2016-12-23 2017-04-26 青岛蓝天创先科技服务有限公司 一种自动卸货的散件货物吊运箱
JP6988158B2 (ja) 2017-05-11 2022-01-05 株式会社島津製作所 液体クロマトグラフ質量分析方法及び液体クロマトグラフ質量分析装置
AU2018324195B2 (en) 2017-09-01 2024-12-12 Venn Biosciences Corporation Identification and use of glycopeptides as biomarkers for diagnosis and treatment monitoring
JP2021500539A (ja) 2017-10-18 2021-01-07 ヴェン バイオサイエンシズ コーポレーション 診断及び治療モニタリングのための生体パラメータの同定及び使用
WO2019092836A1 (ja) 2017-11-09 2019-05-16 富士通株式会社 波形解析装置
MX2021004649A (es) * 2018-10-31 2021-12-10 Regeneron Pharma Método y sistema para la identificacion y cuantificacion de una proteína.
AU2020216996B2 (en) 2019-02-01 2026-05-21 Venn Biosciences Corporation Biomarkers for diagnosing ovarian cancer
KR20210145210A (ko) * 2019-03-29 2021-12-01 벤 바이오사이언시스 코포레이션 질량 분석 데이터의 경계 자동 검출

Cited By (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113866817A (zh) * 2021-09-28 2021-12-31 中南大学 基于神经网络的中子衍射峰位预测方法、设备和介质
US12056443B1 (en) * 2023-12-13 2024-08-06 nference, inc. Apparatus and method for generating annotations for electronic records

Also Published As

Publication number Publication date
US11869634B2 (en) 2024-01-09
WO2020205649A1 (en) 2020-10-08
BR112021019514A2 (pt) 2021-12-07
JP7596290B2 (ja) 2024-12-09
US20240371473A1 (en) 2024-11-07
US12094575B2 (en) 2024-09-17
WO2020205649A9 (en) 2021-05-14
JP2025041616A (ja) 2025-03-26
SG11202110748QA (en) 2021-10-28
CN113785362A (zh) 2021-12-10
US20200372973A1 (en) 2020-11-26
US20240257916A1 (en) 2024-08-01
KR20210145210A (ko) 2021-12-01
JP2022525427A (ja) 2022-05-13
IL286676A (en) 2021-12-01
US12456544B2 (en) 2025-10-28
AU2020253345B2 (en) 2025-04-24
PH12021552421A1 (en) 2022-07-11
EP3948874A1 (en) 2022-02-09
AU2020253345A1 (en) 2021-11-11

Similar Documents

Publication Publication Date Title
US12094575B2 (en) Automated detection of boundaries in mass spectrometry data
Colangelo et al. Review of software tools for design and analysis of large scale MRM proteomic datasets
JP4594154B2 (ja) 少なくとも１つの成分および生成する生成物の観点でサンプルを特性付けし、特性付けデータを提供するための２つ以上の技術に基づいた少なくとも１つのサンプルの分析；方法、システムおよび指示プログラム
CN114184599B (zh) 单细胞拉曼光谱采集数目估计方法、数据处理方法及装置
Wu et al. PB-Net: Automatic peak integration by sequential deep learning for multiple reaction monitoring
CN118731262B (zh) 用于内分泌异常检测的智能分析系统及方法
Gibb et al. Mass spectrometry analysis using MALDIquant
Flevaris et al. Machine learning framework to extract the biomarker potential of plasma IgG N-glycans towards disease risk stratification
CN121506488A (zh) 一种特发性肺动脉高压的风险评估方法、系统和设备
Plyushchenko et al. An approach for feature selection with data modelling in LC-MS metabolomics
Listgarten et al. Practical proteomic biomarker discovery: taking a step back to leap forward
Pais et al. An automated workflow for MALDI-ToF mass spectra pattern identification on large data sets: An application to detect aneuploidies from pregnancy urine
HK40065155A (en) Automated detection of boundaries in mass spectrometry data
US20230253109A1 (en) Cancer screening device and cancer screening method
US11282686B2 (en) Imaging mass spectrometer
Miecznikowski et al. Statistical analysis of chemical sensor data
Beikos et al. Minimizing Analytical Procedural Mass Spectral Features as False Positive Peaks in Untargeted Liquid Chromatography—High Resolution Mass Spectrometry Data Processing
Truntzer et al. Statistical approach for biomarker discovery using label-free LC-MS data: an overview
Cantrell et al. From Peaks to Power: Systematic Evaluation of Chromatographic Sampling Reveals Determinants of Quantification and Biological Discovery in DIA Proteomics
CN121612970A (zh) 一种用于激光剥蚀电感耦合等离子体质谱的多元素定量分析方法
Min et al. Considerations for Characterizing Protein Expression Changes with SWATH®-MS
Miller Variable Selection Strategies
Grootveld et al. Experimental design: sample collection, sample size, power calculations, essential assumptions and univariate approaches to metabolomics analysis
Liu MODELLING EARLY DETECTION OF PROSTATE CANCER
CN119619522A (zh) 用于检测稳定型冠状动脉疾病的生物标志物及其应用

Legal Events

Date Code Title Description
EEER Examination request

Effective date: 20240318

P22 Classification modified

Free format text: ST27 STATUS EVENT CODE: A-2-2-P10-P22-P110 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: CLASSIFICATION MODIFIED

Effective date: 20241011

D15 Examination report completed

Free format text: ST27 STATUS EVENT CODE: A-2-2-D10-D15-D126 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: EXAMINER'S REPORT

Effective date: 20241024

MFA Maintenance fee for application paid

Free format text: FEE DESCRIPTION TEXT: MF (APPLICATION, 5TH ANNIV.) - STANDARD

Year of fee payment: 5

U00 Fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U00-U101 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE REQUEST RECEIVED

Effective date: 20241224

U11 Full renewal or maintenance fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U11-U102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE FEE PAYMENT DETERMINED COMPLIANT

Effective date: 20241224

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U11-U102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE FEE PAYMENT PAID IN FULL

Effective date: 20241224

P11 Amendment of application requested

Free format text: ST27 STATUS EVENT CODE: A-2-2-P10-P11-P100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: AMENDMENT RECEIVED - RESPONSE TO EXAMINER'S REQUISITION

Effective date: 20250220

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: A-2-2-W10-W00-W111 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: CORRESPONDENT DETERMINED COMPLIANT

Effective date: 20250401

P11 Amendment of application requested

Free format text: ST27 STATUS EVENT CODE: A-2-2-P10-P11-P102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: AMENDMENT DETERMINED COMPLIANT

Effective date: 20250710

P13 Application amended

Free format text: ST27 STATUS EVENT CODE: A-2-2-P10-P13-X000 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: APPLICATION AMENDED

Effective date: 20250710

D15 Examination report completed

Free format text: ST27 STATUS EVENT CODE: A-2-2-D10-D15-D126 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: EXAMINER'S REPORT

Effective date: 20250917

MFA Maintenance fee for application paid

Free format text: FEE DESCRIPTION TEXT: MF (APPLICATION, 6TH ANNIV.) - STANDARD

Year of fee payment: 6

U00 Fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U00-U101 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE REQUEST RECEIVED

Effective date: 20251211

U11 Full renewal or maintenance fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U11-U102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE FEE PAYMENT PAID IN FULL

Effective date: 20251211

P11 Amendment of application requested

Free format text: ST27 STATUS EVENT CODE: A-2-2-P10-P11-P100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: AMENDMENT RECEIVED - RESPONSE TO EXAMINER'S REQUISITION

Effective date: 20260107