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High-throughput sequencing method of the KIR haplotype for clinical applications

Research Project

Project/Area Number 26430195
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Medical genome science
Research InstitutionKanazawa University

Principal Investigator

Hosomichi Kazuyoshi  金沢大学, 医学系, 准教授 (50420948)

Co-Investigator(Kenkyū-buntansha) 井ノ上 逸朗  国立遺伝学研究所, 総合遺伝研究系, 教授 (00192500)
椎名 隆  東海大学, 医学部, 准教授 (00317744)
Research Collaborator YABE Toshio  日本赤十字社, 関東甲信越ブロック血液センター, 検査開発二係長
Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2016: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2014: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
KeywordsNGS / KIR / HLA / 造血幹細胞移植 / 同種造血幹細胞移植 / 次世代シーケンサー / キラー細胞免疫グロブリン様受容体 / 組織適合性抗原
Outline of Final Research Achievements

Killer-cell immunoglobulin-like receptors (KIRs) expressing on natural killer (NK) cells are ligands of human leukocyte antigen (HLA) class I molecules. The number of KIR genes is different among KIR haplotypes, therefore each individual has a different number of inhibitory and activating KIR genes. Here, we established high-throughput sequencing method to identify the haplotype structure of HLA and KIR genes. The method for KIR and HLA typing was based on sequence capture method with custom oligo probes and MiSeq. Sequence reads from seventeen KIR genes could be aligned. The alignment result of KIR genes has distinct depth indicating copy number variation (CNV). The single nucleotide variants were used to estimate KIR allele sequence. Combination of CNV and SNVs as KIR allele could be available to estimate KIR haplotype structure.

Report

(4 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • 2014 Research-status Report
  • Research Products

    (24 results)

All 2017 2016 2015

All Journal Article (9 results) (of which Int'l Joint Research: 5 results,  Peer Reviewed: 9 results,  Open Access: 8 results) Presentation (14 results) (of which Int'l Joint Research: 2 results,  Invited: 5 results) Patent(Industrial Property Rights) (1 results)

  • [Journal Article] Identification of an HLA class I allele closely involved in the auto-antigen presentation in acquired aplastic anemia2017

    • Author(s)
      Zaimoku Y, Takamatsu H, Hosomichi K, Ozawa T, Nakagawa N, Imi T, Maruyama H, Katagiri T, Kishi H, Tajima A, Muraguchi A, Kashiwase K, Nakao S
    • Journal Title

      Blood

      Volume: 印刷中 Issue: 21 Pages: 2908-2916

    • DOI

      10.1182/blood-2016-11-752378

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Comprehensive genetic exploration of selective tooth agenesis of mandibular incisors by exome sequencing2017

    • Author(s)
      Yamaguchi T, Hosomichi K, Yano K, Kim Y, Nakaoka H, Kimura R, Otsuka H, Nonaka N, Haga S, Takahashi M, Shirota T, Kikkawa Y, Yamada A, Kamijo R, Park SB, Nakamura M, Maki K, Inoue I
    • Journal Title

      Hum Genome Variation

      Volume: 印刷中 Issue: 1 Pages: 17005-17005

    • DOI

      10.1038/hgv.2017.5

    • NAID

      120006891152

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Rapid and cost-effective high-throughput sequencing for identification of germline mutations of BRCA1 and BRCA22017

    • Author(s)
      Ahmadloo S, Nakaoka H, Hayano T, Hosomichi K, You H, Utsuno E, Sangai T, Nishimura M, Matsushita K, Hata A, Nomura F, Inoue I
    • Journal Title

      J Hum Genetics

      Volume: 印刷中 Issue: 5 Pages: 561-567

    • DOI

      10.1038/jhg.2017.5

    • NAID

      40021210379

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Whole-exome sequencing analysis of supernumerary teeth occurrence in Japanese individuals2017

    • Author(s)
      Takahashi M, Hosomichi K, Yamaguchi T, Yano K, Funatsu T, Adel M, Haga S, Maki K, Tajima A
    • Journal Title

      Hum Genome Variation

      Volume: 印刷中 Issue: 1 Pages: 16046-16046

    • DOI

      10.1038/hgv.2016.46

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structure and evolution of the filaggrin gene repeated region in primates2017

    • Author(s)
      Romero V, Hosomichi K, Nakaoka H, Shibata H, Inoue I
    • Journal Title

      BMC Evol Biol.

      Volume: 印刷中 Issue: 1 Pages: 10-10

    • DOI

      10.1186/s12862-016-0851-5

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Germline Variants of Prostate Cancer in Japanese Families2017

    • Author(s)
      Hayano T, Matsui H, Nakaoka H, Ohtake N, Hosomichi K, Suzuki K, Inoue I
    • Journal Title

      PLoS One

      Volume: 印刷中 Issue: 10 Pages: e0164233-e0164233

    • DOI

      10.1371/journal.pone.0164233

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Comprehensive microbiome analysis of tonsillar crypts in IgA nephropathy.2017

    • Author(s)
      Watanabe H, Goto S, Mori H, Higashi K, Hosomichi K, Aizawa N, Takahashi N, Tsuchida M, Suzuki Y, Yamada T, Horii A, Inoue I, Kurokawa K, Narita I.
    • Journal Title

      Nephrol Dial Transplant.

      Volume: 印刷中

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A partial nuclear genome of the Jomons who lived 3000 years ago in Fukushima, Japan.2017

    • Author(s)
      Kanzawa-Kiriyama H, Kryukov K, Jinam TA, Hosomichi K, Saso A, Suwa G, Ueda S, Yoneda M, Tajima A, Shinoda KI, Inoue I, Saitou N. A partial nuclear genome of the Jomons who lived 3000 years ago in Fukushima, Japan
    • Journal Title

      J Hum Genetics

      Volume: 印刷中 Issue: 2 Pages: 213-221

    • DOI

      10.1038/jhg.2016.110

    • NAID

      40021064864

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Comprehensive genetic testing approach for major inherited kidney diseases, using next-generation sequencing with a custom panel2017

    • Author(s)
      Mori T, Hosomichi K, Chiga M, Mandai S, Nakaoka H, Sohara E, Okado T, Rai T, Sasaki S, Inoue I, Uchida S.
    • Journal Title

      Clin Exp Nephrol.

      Volume: 印刷中 Issue: 1 Pages: 63-75

    • DOI

      10.1007/s10157-016-1252-1

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] New NGS HLA Typing By Targeted Enrichment Procedure -Capture Method-2016

    • Author(s)
      Hidetoshi Inoko, Yuko Okudaira, Anri Masuya, Astushi Tajima, Kazuyoshi Hosomichi.
    • Organizer
      American Society for Histocompatibility and Immunogenetics 42nd Annual Meeting
    • Place of Presentation
      Hyatt Regency St. Louis at the Arch (St. Louis, Missouri)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] HLA遺伝子群の網羅的タイピング法の臨床検査に向けた自動化システム開発2016

    • Author(s)
      細道一善, 副田憲司, 江畑明彦, 藤村興輝, 尾畑浩司, 猪子英俊, 田嶋敦
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] PCRを用いないHLAのDNAタイピング開発 ―NGSキャプチャー法―2016

    • Author(s)
      猪子英俊, 桝屋安里, 奥平裕子, 朝治桜子, 田嶋敦, 細道一善
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 日本在来牛と黒毛和種のウシ MHC 領域のリシークエンスによる比較解析2016

    • Author(s)
      竹嶋伸之輔, 細道一善, 万年英之, 国枝哲夫, 印牧美佐夫, 下桐猛, 間陽子
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 臍帯血を用いた次世代シークエンシングによる HLA 遺伝子の RNA 発現解析2016

    • Author(s)
      椎名隆, Yamamoto Fiona, 鈴木進悟, 森島聡子, 細道一善, 伊藤さやか, 重成敦子, 加藤俊一, 森島泰雄
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] A pipeline for HLA typing from targeted Next Generation's Sequencing (NGS) data2016

    • Author(s)
      Waleed H. Omer, 中岡博史, 細道一善, 井ノ上逸朗
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 日本人集団には 0.9% の頻度で HLA-C*08:22が存在する2016

    • Author(s)
      奥平裕子, 鈴木進悟, 桝屋安里, 朝治桜子, 安藤麻子, 光永滋樹, 細道一善, 猪子英俊
    • Organizer
      第25回日本組織適合性学会大会
    • Place of Presentation
      北海道大学 (北海道札幌市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] HLA個別化医療の実現に向けて2016

    • Author(s)
      細道一善
    • Organizer
      日本遺伝学会第88回大会シンポジウム
    • Place of Presentation
      日本大学国際関係学部 (静岡県三島市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] HLA-based precision medicine can be a clinical reality2016

    • Author(s)
      Kazuyoshi Hosomichi
    • Organizer
      医学セミナー・第 13 回分子遺伝疫学セミナー
    • Place of Presentation
      筑波大学 (茨城県つくば市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] ゲノム解析技術の革新と医学・医療へのインパクト2016

    • Author(s)
      細道一善
    • Organizer
      第28回中央血液研究所学術講演会
    • Place of Presentation
      日本赤十字社中央血液研究所 (東京都江東区)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 新世代ゲノム解析技術とゲノム医科学のイノベーション2016

    • Author(s)
      細道一善
    • Organizer
      京滋血液研究会
    • Place of Presentation
      HLA研究所 (京都府京都市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 同種造血幹細胞移植成績向上を目指した KIR ハプロタイプ解析手法の確立2015

    • Author(s)
      細道一善、屋部登志雄、椎名隆、田嶋敦、井ノ上逸朗
    • Organizer
      第60回日本人類遺伝学会
    • Place of Presentation
      京王プラザホテル(東京)
    • Year and Date
      2015-11-19
    • Related Report
      2015 Research-status Report
  • [Presentation] 同種造血幹細胞移植成績向上を目指した KIR ハプロタイプ解析手法の確立2015

    • Author(s)
      細道一善、屋部登志雄、椎名隆、田嶋敦、井ノ上逸朗
    • Organizer
      第24回日本組織適合性学会大会
    • Place of Presentation
      ホテルレイクビュー水戸(茨城)
    • Year and Date
      2015-09-10
    • Related Report
      2015 Research-status Report
  • [Presentation] The impact of NGS on HLA research.2015

    • Author(s)
      Kazuyoshi Hosomichi
    • Organizer
      YARSI GENOMIC MEDICINE CONFERENCE 2015
    • Place of Presentation
      Universitas YARSI (Jakarta, Indonesia)
    • Year and Date
      2015-05-06
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research / Invited
  • [Patent(Industrial Property Rights)] PCRを用いないキャプチャー法によるHLA遺伝子タイピング用プロー ブセット及びそれを用いたタイピング方法2016

    • Inventor(s)
      細道一善、猪子英俊、田嶋敦、井ノ上逸朗
    • Industrial Property Rights Holder
      細道一善、猪子英俊、田嶋敦、井ノ上逸朗
    • Industrial Property Rights Type
      特許
    • Filing Date
      2016-02-03
    • Related Report
      2015 Research-status Report

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Published: 2014-04-04   Modified: 2018-03-22  

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