WO2008102825A1 - 遺伝子発現パターンから遺伝子を分類する方法 - Google Patents

遺伝子発現パターンから遺伝子を分類する方法 Download PDF

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Publication number
WO2008102825A1
WO2008102825A1 PCT/JP2008/052900 JP2008052900W WO2008102825A1 WO 2008102825 A1 WO2008102825 A1 WO 2008102825A1 JP 2008052900 W JP2008052900 W JP 2008052900W WO 2008102825 A1 WO2008102825 A1 WO 2008102825A1
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Prior art keywords
rates
genes
synthesis rates
transcription products
apparent
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PCT/JP2008/052900
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English (en)
French (fr)
Inventor
Yoichi Nakayama
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Articell Systems Corporation
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Priority to JP2009500221A priority Critical patent/JPWO2008102825A1/ja
Publication of WO2008102825A1 publication Critical patent/WO2008102825A1/ja

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING 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
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • 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
    • 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
    • G16B40/30—Unsupervised 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

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  • Engineering & Computer Science (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Medical Informatics (AREA)
  • Biophysics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biotechnology (AREA)
  • Chemical & Material Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Data Mining & Analysis (AREA)
  • Evolutionary Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Databases & Information Systems (AREA)
  • Software Systems (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Bioethics (AREA)
  • Molecular Biology (AREA)
  • Organic Chemistry (AREA)
  • Artificial Intelligence (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Physiology (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)

Abstract

本発明は、遺伝子の情報・データを解析し、合理的に分類する方法を提供することを課題とする。本発明の課題は、遺伝子の転写産物の分解速度および見かけ上の合成速度を算出し、該見かけ上の合成速度と該分解速度とから、該遺伝子の転写産物の正味の合成速度を算出するに、クラスター解析を応用することによって解決された。複数の遺伝子を分類する方法であって、Ａ）該遺伝子の転写産物の分解速度および見かけ上の合成速度を算出し、該見かけ上の合成速度と該分解速度とから、該遺伝子の転写産物の正味の合成速度を算出する工程；Ｂ）該正味の合成速度の波形をクラスター化する工程；およびＣ）該クラスター化から、同じクラスターに属する遺伝子同士を、少なくとも１つの同じ性質を有する遺伝子である、と分類する工程、を包含する、方法が提供される。
PCT/JP2008/052900 2007-02-20 2008-02-20 遺伝子発現パターンから遺伝子を分類する方法 WO2008102825A1 (ja)

Priority Applications (1)

Application Number Priority Date Filing Date Title
JP2009500221A JPWO2008102825A1 (ja) 2007-02-20 2008-02-20 遺伝子発現パターンから遺伝子を分類する方法

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
JP2007040089 2007-02-20
JP2007-040089 2007-02-20

Publications (1)

Publication Number Publication Date
WO2008102825A1 true WO2008102825A1 (ja) 2008-08-28

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PCT/JP2008/052900 WO2008102825A1 (ja) 2007-02-20 2008-02-20 遺伝子発現パターンから遺伝子を分類する方法

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JP (1) JPWO2008102825A1 (ja)
WO (1) WO2008102825A1 (ja)

Cited By (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2014050160A1 (ja) * 2012-09-26 2014-04-03 独立行政法人科学技術振興機構 動的ネットワークバイオマーカーの検出装置、検出方法及び検出プログラム
WO2014065155A1 (ja) * 2012-10-23 2014-05-01 独立行政法人科学技術振興機構 ネットワークエントロピーに基づく生体の状態遷移の予兆の検出を支援する検出装置、検出方法及び検出プログラム
JPWO2014076795A1 (ja) * 2012-11-15 2016-09-08 株式会社島津製作所 光生体計測装置
JP2016201123A (ja) * 2016-07-07 2016-12-01 国立研究開発法人科学技術振興機構 動的ネットワークバイオマーカーの検出装置、検出方法及び検出プログラム
JP2020064642A (ja) * 2017-08-10 2020-04-23 国立研究開発法人科学技術振興機構 検出装置、記録媒体、検出方法及び検出プログラム
WO2022101983A1 (ja) 2020-11-10 2022-05-19 株式会社パーキンエルマージャパン 検体の分類方法

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2006260073A (ja) * 2005-03-16 2006-09-28 Fujitsu Ltd 遺伝子関係抽出プログラム、遺伝子関係抽出方法および遺伝子関係抽出装置

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2006260073A (ja) * 2005-03-16 2006-09-28 Fujitsu Ltd 遺伝子関係抽出プログラム、遺伝子関係抽出方法および遺伝子関係抽出装置

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
BHASI K.: "SPLINDID: a semi-parametric model-based method for obtaining transcription rates and gene regulation parameters from genomic and proteomic expression profiles", BIOINFORMATICS, vol. 21, no. 20, 15 October 2005 (2005-10-15), pages 3873 - 3879 *
CHEN H.C.: "Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle", BIOINFORMATICS, vol. 20, no. 12, 12 August 2004 (2004-08-12), pages 1914 - 1927 *
WANG Y.: "Precision and functional specificity in mRNA decay", PROC. NATL. ACAD. SCI. USA, vol. 99, no. 9, 30 April 2002 (2002-04-30), pages 5860 - 5865 *
YUGI K. ET AL.: "A microarray data-based semi-kinetic method for predicting quantitative dynamics of genetic networks", BMC BIOINFORMATICS, vol. 6, no. 299, 13 December 2005 (2005-12-13), pages 1 - 9, XP021000907 *

Cited By (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2014050160A1 (ja) * 2012-09-26 2014-04-03 独立行政法人科学技術振興機構 動的ネットワークバイオマーカーの検出装置、検出方法及び検出プログラム
JP2014064515A (ja) * 2012-09-26 2014-04-17 Japan Science & Technology Agency 動的ネットワークバイオマーカーの検出装置、検出方法及び検出プログラム
WO2014065155A1 (ja) * 2012-10-23 2014-05-01 独立行政法人科学技術振興機構 ネットワークエントロピーに基づく生体の状態遷移の予兆の検出を支援する検出装置、検出方法及び検出プログラム
JP2014083194A (ja) * 2012-10-23 2014-05-12 Japan Science & Technology Agency ネットワークエントロピーに基づく生体の状態遷移の予兆の検出を支援する検出装置、検出方法及び検出プログラム
CN105009130A (zh) * 2012-10-23 2015-10-28 独立行政法人科学技术振兴机构 基于网络熵的对生物体状态迁移的预兆检测予以辅助的检测装置、检测方法以及检测程序
JPWO2014076795A1 (ja) * 2012-11-15 2016-09-08 株式会社島津製作所 光生体計測装置
JP2016201123A (ja) * 2016-07-07 2016-12-01 国立研究開発法人科学技術振興機構 動的ネットワークバイオマーカーの検出装置、検出方法及び検出プログラム
JP2020064642A (ja) * 2017-08-10 2020-04-23 国立研究開発法人科学技術振興機構 検出装置、記録媒体、検出方法及び検出プログラム
WO2022101983A1 (ja) 2020-11-10 2022-05-19 株式会社パーキンエルマージャパン 検体の分類方法

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JPWO2008102825A1 (ja) 2010-05-27

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