CA2954169A1 - Methods for evaluating lung cancer status - Google Patents

Methods for evaluating lung cancer status Download PDF

Info

Publication number
CA2954169A1
CA2954169A1 CA2954169A CA2954169A CA2954169A1 CA 2954169 A1 CA2954169 A1 CA 2954169A1 CA 2954169 A CA2954169 A CA 2954169A CA 2954169 A CA2954169 A CA 2954169A CA 2954169 A1 CA2954169 A1 CA 2954169A1
Authority
CA
Canada
Prior art keywords
genes
lung cancer
subject
cluster
mrna
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
CA2954169A
Other languages
English (en)
French (fr)
Inventor
Duncan H. Whitney
Michael Elashoff
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.)
Veracyte Inc
Original Assignee
Allegro Diagnostics 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 Allegro Diagnostics Corp filed Critical Allegro Diagnostics Corp
Publication of CA2954169A1 publication Critical patent/CA2954169A1/en
Pending legal-status Critical Current

Links

Classifications

    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/574Immunoassay; Biospecific binding assay; Materials therefor for cancer
    • G01N33/57407Specifically defined cancers
    • G01N33/57423Specifically defined cancers of lung
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/10Gene or protein expression profiling; Expression-ratio estimation or normalisation
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/30Microarray design
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/10Signal processing, e.g. from mass spectrometry [MS] or from PCR
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/106Pharmacogenomics, i.e. genetic variability in individual responses to drugs and drug metabolism
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/112Disease subtyping, staging or classification
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/158Expression markers
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding

Landscapes

  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Chemical & Material Sciences (AREA)
  • Genetics & Genomics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Immunology (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Pathology (AREA)
  • Analytical Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Theoretical Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Microbiology (AREA)
  • Hospice & Palliative Care (AREA)
  • Biochemistry (AREA)
  • Oncology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioethics (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Software Systems (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Databases & Information Systems (AREA)
  • Data Mining & Analysis (AREA)
  • Artificial Intelligence (AREA)
  • Hematology (AREA)
  • Biomedical Technology (AREA)
  • Urology & Nephrology (AREA)
CA2954169A 2014-07-14 2015-07-14 Methods for evaluating lung cancer status Pending CA2954169A1 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201462024456P 2014-07-14 2014-07-14
US62/024,456 2014-07-14
US201562160403P 2015-05-12 2015-05-12
US62/160,403 2015-05-12
PCT/US2015/040437 WO2016011068A1 (en) 2014-07-14 2015-07-14 Methods for evaluating lung cancer status

Publications (1)

Publication Number Publication Date
CA2954169A1 true CA2954169A1 (en) 2016-01-21

Family

ID=55078998

Family Applications (1)

Application Number Title Priority Date Filing Date
CA2954169A Pending CA2954169A1 (en) 2014-07-14 2015-07-14 Methods for evaluating lung cancer status

Country Status (8)

Country Link
US (2) US20160130656A1 (enExample)
EP (2) EP3916110A1 (enExample)
JP (2) JP6775499B2 (enExample)
KR (1) KR102461014B1 (enExample)
CN (2) CN114807368A (enExample)
AU (2) AU2015289758B2 (enExample)
CA (1) CA2954169A1 (enExample)
WO (1) WO2016011068A1 (enExample)

Families Citing this family (31)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1874962A2 (en) 2005-04-14 2008-01-09 The Trustees Of Boston University Diagnostic for lung disorders using class prediction
EP2605018A1 (en) 2006-03-09 2013-06-19 The Trustees of the Boston University Diagnostic and prognostic methods for lung disorders using gene expression profiles from nose epithelial cells
CN101990577A (zh) 2007-09-19 2011-03-23 波士顿大学理事会 鉴定肺病药物开发的新途径
US9495515B1 (en) 2009-12-09 2016-11-15 Veracyte, Inc. Algorithms for disease diagnostics
US10236078B2 (en) 2008-11-17 2019-03-19 Veracyte, Inc. Methods for processing or analyzing a sample of thyroid tissue
JP6078339B2 (ja) 2009-05-07 2017-02-08 ベラサイト インコーポレイテッド 甲状腺状態の診断のための方法および組成物
US10526655B2 (en) 2013-03-14 2020-01-07 Veracyte, Inc. Methods for evaluating COPD status
US11976329B2 (en) 2013-03-15 2024-05-07 Veracyte, Inc. Methods and systems for detecting usual interstitial pneumonia
US12297505B2 (en) 2014-07-14 2025-05-13 Veracyte, Inc. Algorithms for disease diagnostics
EP3770274A1 (en) 2014-11-05 2021-01-27 Veracyte, Inc. Systems and methods of diagnosing idiopathic pulmonary fibrosis on transbronchial biopsies using machine learning and high dimensional transcriptional data
CN109715830A (zh) * 2016-06-21 2019-05-03 威斯塔解剖学和生物学研究所 用于使用基因表达谱诊断肺癌的组合物和方法
US10927417B2 (en) 2016-07-08 2021-02-23 Trustees Of Boston University Gene expression-based biomarker for the detection and monitoring of bronchial premalignant lesions
KR102421109B1 (ko) * 2016-09-14 2022-07-14 필립모리스 프로덕츠 에스.에이. 개인의 생물학적 상태를 예측하기 위한 시스템, 방법 및 유전자 시그니처
US11244764B2 (en) 2016-12-21 2022-02-08 Cerner Innovation, Inc. Monitoring predictive models
WO2018216009A1 (en) * 2017-05-22 2018-11-29 The National Institute For Biotechnology In The Negev Ltd. Ben-Gurion University Of The Negev Biomarkers for diagnosis of lung cancer
CN110958853B (zh) * 2017-06-02 2023-08-25 威拉赛特公司 用于鉴定或监测肺病的方法和系统
WO2019126343A1 (en) 2017-12-19 2019-06-27 The Wistar Institute Of Anatomy And Biology Compositions and methods for diagnosing lung cancers using gene expression profiles
CN112399819B (zh) 2018-07-02 2024-08-23 3M创新有限公司 用于监测时间相关过程的传感系统和方法
KR102274564B1 (ko) * 2018-07-03 2021-07-07 (주) 프로큐라티오 빅데이터분석기반 암진단장치
CN108998531B (zh) * 2018-08-31 2021-10-01 昆明医科大学第一附属医院 肺癌下调长链非编码rna标志物及其应用
CN109615075B (zh) * 2018-12-14 2022-08-19 大连海事大学 一种基于多层聚类模型的居民日常行为识别方法
US20210287795A1 (en) * 2020-03-12 2021-09-16 Optellum Limited Cad device and method for assisting an estimation of lung disease from medical images
CN114277138B (zh) * 2020-03-30 2022-06-24 中国医学科学院肿瘤医院 外泌体arpc5、mboat2等在肺癌诊断中的应用
CN114410794B (zh) * 2020-03-30 2023-06-23 中国医学科学院肿瘤医院 外泌体miR-106b-3P、ARPC5在肺癌诊断中的应用
CN111863130A (zh) * 2020-04-07 2020-10-30 至本医疗科技(上海)有限公司 肿瘤免疫治疗预后标志物的筛选方法及应用
CN112034185A (zh) * 2020-09-11 2020-12-04 上海市胸科医院 Gpr110、vegfr、cd34在鉴别肺腺癌亚型中的用途
IL306044A (en) * 2021-03-29 2023-11-01 Veracyte Inc Methods and systems for identifying health disorders
US12094107B2 (en) * 2021-04-07 2024-09-17 Optellum Limited CAD device and method for analyzing medical images
CN113444796B (zh) * 2021-06-29 2023-02-07 浙江医院 与肺癌相关的生物标志物及其在诊断癌症中的应用
KR102417602B1 (ko) * 2021-11-30 2022-07-07 (주)플라스바이오 인공 지능 모델 기반 종양 관리 장치 및 방법
CN114854755B (zh) * 2022-05-30 2023-05-23 陕西师范大学 一种抑制vstm2l表达的慢病毒载体及其应用

Family Cites Families (18)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2003234623A1 (en) 2002-05-16 2003-12-02 Euro-Celtique, S.A. Use of gastrin releasing peptide (grp) and its receptor in cancer screening
WO2005000098A2 (en) 2003-06-10 2005-01-06 The Trustees Of Boston University Detection methods for disorders of the lung
WO2005047451A2 (en) 2003-11-12 2005-05-26 Trustees Of Boston University Isolation of nucleic acid from mouth epithelial cells
EP1874962A2 (en) * 2005-04-14 2008-01-09 The Trustees Of Boston University Diagnostic for lung disorders using class prediction
US9347945B2 (en) 2005-12-22 2016-05-24 Abbott Molecular Inc. Methods and marker combinations for screening for predisposition to lung cancer
EP2605018A1 (en) 2006-03-09 2013-06-19 The Trustees of the Boston University Diagnostic and prognostic methods for lung disorders using gene expression profiles from nose epithelial cells
WO2007142936A2 (en) * 2006-05-30 2007-12-13 Duke University Prediction of lung cancer tumor recurrence
KR101443214B1 (ko) * 2007-01-09 2014-09-24 삼성전자주식회사 폐암 환자 또는 폐암 치료를 받은 폐암 환자의 폐암 재발 위험을 진단하기 위한 조성물, 키트 및 마이크로어레이
WO2008140774A2 (en) * 2007-05-08 2008-11-20 Picobella Llc Methods for diagnosing and treating prostate and lung cancer
CN101990577A (zh) 2007-09-19 2011-03-23 波士顿大学理事会 鉴定肺病药物开发的新途径
WO2009121070A1 (en) 2008-03-28 2009-10-01 The Trustees Of Boston University Multifactorial methods for detecting lung disorders
GB0811413D0 (en) * 2008-06-20 2008-07-30 Kanton Basel Stadt Gene expression signatures for lung cancers
MX355020B (es) * 2010-07-09 2018-04-02 Somalogic Inc Biomarcadores de cancer de pulmon y usos de los mismos.
KR20130017525A (ko) 2011-08-11 2013-02-20 주식회사 젠닥스 대장암, 유방암, 신장암 또는 갑상선암의 조기 진단을 위한 바이오 마커 및 이의 용도
EA201490533A1 (ru) * 2011-08-29 2014-08-29 Кардиодиикс, Инк. Способы и композиции для определения статуса в отношении курения
US9753043B2 (en) * 2011-12-18 2017-09-05 20/20 Genesystems, Inc. Methods and algorithms for aiding in the detection of cancer
WO2013163568A2 (en) * 2012-04-26 2013-10-31 Allegro Diagnostics Corp. Methods for evaluating lung cancer status
US20140220006A1 (en) * 2013-02-01 2014-08-07 Meso Scale Technologies, Llc Lung cancer biomarkers

Also Published As

Publication number Publication date
CN114807368A (zh) 2022-07-29
AU2015289758A1 (en) 2017-02-02
US20210040562A1 (en) 2021-02-11
JP6775499B2 (ja) 2020-10-28
US20160130656A1 (en) 2016-05-12
AU2015289758B2 (en) 2021-09-09
KR102461014B1 (ko) 2022-10-31
JP2020182489A (ja) 2020-11-12
EP3169814B1 (en) 2022-05-04
EP3169814A4 (en) 2018-03-07
CN106795565B (zh) 2022-05-10
EP3916110A1 (en) 2021-12-01
WO2016011068A1 (en) 2016-01-21
KR20170053617A (ko) 2017-05-16
JP2017527304A (ja) 2017-09-21
AU2021218178A1 (en) 2021-09-09
CN106795565A (zh) 2017-05-31
EP3169814A1 (en) 2017-05-24

Similar Documents

Publication Publication Date Title
US20210040562A1 (en) Methods for evaluating lung cancer status
Jamshidi et al. Evaluation of cell-free DNA approaches for multi-cancer early detection
Whitney et al. Derivation of a bronchial genomic classifier for lung cancer in a prospective study of patients undergoing diagnostic bronchoscopy
CN110958853B (zh) 用于鉴定或监测肺病的方法和系统
US12297505B2 (en) Algorithms for disease diagnostics
JP2025106239A (ja) 病原体検出のための配列決定データを使用するためのシステムおよび方法
JP5405110B2 (ja) 原発不明がんの原発巣を同定するための方法および材料
CN118522390A (zh) 帮助区别良性和恶性放射线照相明显肺结节的方法和组合物
EP2841603A2 (en) Methods for evaluating lung cancer status
CN108323184A (zh) 验证生物标志物测量
WO2013049152A2 (en) Methods for evaluating lung cancer status
EP4070317A1 (en) Machine learning techniques for gene expression analysis
US20250305057A1 (en) Bladder cancer biomarkers and methods of use
US20250305051A1 (en) Systems and methods of diagnosing idiopathic pulmonary fibrosis
Gómez-Martín et al. Circulating extracellular vesicle isomiR signatures predict therapy response in patients with multiple myeloma
Berndt et al. A multivariate cell-based assay for blood-based diagnostics enhances lung cancer risk stratification
Baba et al. Urinary miRNA Profiles with Machine Learning for Noninvasive Detection and Prognosis of Urological Malignancies
WO2022212283A1 (en) Methods and systems to identify a lung disorder
WO2022120076A1 (en) Clinical classifiers and genomic classifiers and uses thereof

Legal Events

Date Code Title Description
EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716

EEER Examination request

Effective date: 20200716