Statistical Genetics for Genome Cohort Study

• Project/Area Number: 25460403
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Human genetics
• Research Institution: Tohoku University
• Principal Investigator: TAMIYA Gen 東北大学, 東北メディカル・メガバンク機構, 教授 (10317745)
• Co-Investigator(Kenkyū-buntansha): UEKI Masao 久留米大学, バイオ統計センター, 講師 (10515860) ; NAKAMURA Tomohiro 東北大学, 東北メディカル・メガバンク機構, 助教 (30537923)
• Project Period (FY): 2013-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000); Fiscal Year 2015: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2014: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2013: ¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000)
• Keywords: 遺伝統計学 / 人類遺伝学 / コホート研究 / 高次元変数選択法 / 遺伝子×環境相互作用

Outline of Final Research Achievements

For rapid and flexibility extraction of genetic and environmental frisk actors from large-scale prospective genomic cohort data, we propose a new genetic statistical method utilizing a framework of the high-dimensional variable selection under p >> n condition of the high-dimensional and small-sample size data from such genomic cohort study; at first we extended Sure Independence Screening, which combines ranking (marginal regression) and variable selection (penalized regression), to gene × environment interaction data. Finally, we improved our software program by reflecting these findings.

Research Products

• [Journal Article] Prospect of the future housing and the risk of psychological distress at one year after an earthquake disaster. (2016)
  • Author(s): Nakaya N, Nakamura T, Tsuchiya N, Narita A, Tsuji I, Hozawa A, Tomita H.
  • Journal Title: Psychiatry Clin Neurosci. Volume: 70 Issue: 4 Pages: 182-189
  • DOI: 10.1111/pcn.12377
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Analysis of the genes responsible for steroid-resistant nephrotic syndrome and/or focal segmental glomerulosclerosis in Japanese patients by whole exome sequencing analysis (2015)
  • Author(s): Ogino D, Hashimoto T,Hattori M, Sugawara N, Akioka Y, Tamiya G, Makino S, Toyota K, Mitsui T, Hayasaka K
  • Journal Title: J Hum Genet Volume: 61 Issue: 2 Pages: 137-141
  • DOI: 10.1038/jhg.2015.122
  • Peer Reviewed
• [Journal Article] Waardenburg syndrome type IIE in a Japanese patient caused by a novel missense mutation in the SOX10 gene (2015)
  • Author(s): Okamura K, Oiso N, Tamiya G, Makino S, Tsujioka D, Abe Y, Kawaguchi M, Hozumi Y, Shimomura Y, Suzuki T
  • Journal Title: J Dermatol Volume: 42 Issue: 12 Pages: 1211-1212
  • DOI: 10.1111/1346-8138.13095
  • Peer Reviewed
• [Journal Article] Immunohistopathological analysis of frizzled-4-positive immature (2015)
  • Author(s): Okamura K, Ohe R, Abe Y, Ueki M, Hozumi Y, Tamiya G, Matsunaga K,
  • Journal Title: Journal of Dermatological Science Volume: 80 Issue: 2 Pages: 156-158
  • DOI: 10.1016/j.jdermsci.2015.07.015
  • Peer Reviewed
• [Journal Article] The Association Between Medical Treatment of Physical Diseases and Psychological Distress After the Great East Japan Earthquake: The Shichigahama Health Promotion Project. (2015)
  • Author(s): Nakaya N, Nakamura T, Tsuchiya N, Tsuji I, Hozawa A, Tomita H.
  • Journal Title: Disaster Med Public Health Prep. Volume: 9(4) Issue: 4 Pages: 374-381
  • DOI: 10.1017/dmp.2015.52
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] A Sequential Multiple Comparison Procedure for Detecting a Lowest Dose Having Interaction in Dose Response Test , Journal of the Japanese Society of Computational Statistics. (2015)
  • Author(s): Tomohiro Nakamura and Hideyuki Douke
  • Journal Title: Journal of the Japanese Society of Computational Statistics Volume: 28 Issue: 1 Pages: 1-14
  • DOI: 10.5183/jjscs.1406001_212
  • NAID: 130005434005
  • Peer Reviewed
• [Journal Article] Unemployment risk among individuals undergoing medical treatment for chronic diseases. (2015)
  • Author(s): Nakaya N, Nakamura T, Tsuchiya N, Tsuji I, Hozawa A, Tomita H.
  • Journal Title: Occup Med (Lond) Volume: 66 Issue: 2 Pages: 143-149
  • DOI: 10.1093/occmed/kqv159
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Public attitudes toward an epidemiological study with genomic analysisin the Great East Japan disaster area. (2015)
  • Author(s): Ishikuro M, Nakaya N, Obara T, Sato Y, Metoki H, Kikuya M, Tsuchiya N, Nakamura T, Nagami F, Kuriyama S, Hozawa A, the ToMMo Study Group.
  • Journal Title: Prehosp Disaster Med Volume: 28 Issue: 3 Pages: 1-5
  • DOI: 10.1017/s1049023x16000182
  • Peer Reviewed / Open Access
• [Journal Article] Sparse predictive modeling for bank telemarketing success using smooth-threshold estimating equations (2015)
  • Author(s): Kawasaki Y, Ueki M
  • Journal Title: Journal of the Japanese Society of Computational Statistics Volume: 28 Pages: 53-56
  • NAID: 130005434011
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Positive selection with diversity in oculocutaneous albinisms type 2 gene (OCA2) among Japanese. (2015)
  • Author(s): Shimanuki M, Abe Y, Tamiya G, Ueki M, Hozumi Y, Suzuki T.
  • Journal Title: Pigment Cell Melanoma Res Volume: 28 Issue: 2 Pages: 233-5
  • DOI: 10.1111/pcmr.12337
  • Peer Reviewed
• [Journal Article] Association of neonatal hyperbilirubinemia in breast-fed infants with UGT1A1 or SLCOs polymorphisms. (2015)
  • Author(s): Sato H, Uchida T, Toyota K, Nakamura T, Tamiya G, Kanno M, Hashimoto T, Watanabe M, Aoki K, Hayasaka K.
  • Journal Title: J Hum Genet Volume: 60 Issue: 1 Pages: 35-40
  • DOI: 10.1038/jhg.2014.98
  • Peer Reviewed / Open Access
• [Journal Article] Whole-exome sequencing confirmation of a novel heterozygous mutation in RUNX1 in a pregnant woman with platelet disorder. (2015)
  • Author(s): Obata M, Tsutsumi S, Makino S, Takahashi K, Watanabe N, Yoshida T, Tamiya G, Kurachi H.
  • Journal Title: Platelets Volume: 26 Issue: 4 Pages: 364-369
  • DOI: 10.3109/09537104.2014.912750
  • Peer Reviewed
• [Journal Article] A mutation of COX6A1 causes a recessive axonal or mixed form of Charcot-Marie-Tooth disease. (2014)
  • Author(s): Tamiya G, Makino S, Hayashi M, Abe A, Numakura C, Ueki M, Tanaka A, Ito C, Toshimori K, Ogawa N, Terashima T, Maegawa H, Yanagisawa D, Tooyama I, Tada M, Onodera O, Hayasaka K.
  • Journal Title: Am J Hum Genet. Volume: 95 Issue: 3 Pages: 294-300
  • DOI: 10.1016/j.ajhg.2014.07.013
  • Peer Reviewed / Open Access
• [Journal Article] Likelihood ratio-based integrated personal risk assessment of type 2 diabetes (2014)
  • Author(s): Sato N, Htun NC, Daimon M, Tamiya G, Kato T, Kubota I, Ueno Y, Yamashita H, Fukao A, Kayama T, Muramatsu M.
  • Journal Title: Endocrine Journal Volume: 61 Issue: 10 Pages: 967-988
  • DOI: 10.1507/endocrj.EJ14-0271
  • NAID: 130004704360
  • ISSN: 0918-8959, 1348-4540
  • Peer Reviewed / Open Access
• [Journal Article] On the choice of degrees of freedom for testing gene-gene interactions (2014)
  • Author(s): Ueki, M.
  • Journal Title: Statistics in Medicine Volume: 33 Issue: 28 Pages: 4934-4948
  • DOI: 10.1002/sim.6264
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Divergence of East Asians and Europeans estimated using maleand female-specific genetic markers (2014)
  • Author(s): Tateno Y, Komiyama T, Katoh T, Munkhbat B, Oka A, Haida Y, Kobayashi H, Tamiya G, Inoko H
  • Journal Title: Genome Biol Evol Volume: 6(3) Issue: 3 Pages: 466-73
  • DOI: 10.1093/gbe/evu027
  • Peer Reviewed
• [Journal Article] A pollen coat-inducible autoinhibited Ca^<2+>-ATPase expressed in stigmatic papilla cells is required for compatible pollination in the Brassicaceae (2014)
  • Author(s): Iwano, M., Igarashi, M., Tarutani, Y., Kaothien-Nakayama, P., Nakayama, H., Moriyama, H., Yakabe, R., Entani, T., Shimosato-Asano, H., Ueki, M., Tamiya, G., and Takayama, S
  • Journal Title: Plant Cell Volume: 26 (2) Issue: 2 Pages: 636-649
  • DOI: 10.1105/tpc.113.121350
  • Peer Reviewed
• [Journal Article] Pleiotropic effect of common variants at ABO glycosyltranferase locus in 9q32 on plasma levels of pancreatic lipase and angiotensin converting enzyme (2014)
  • Author(s): Yamagata University Genomic Cohort Consortium (YUGCC)
  • Journal Title: PLOS ONE Volume: 9 Issue: 2 Pages: e55903-e55903
  • DOI: 10.1371/journal.pone.0055903
  • Peer Reviewed
• [Journal Article] Variants in melanogenesis-related genes associate with skin cancer risk among Japanese populations. (2014)
  • Author(s): Yoshizawa J, Abe Y, Oiso N, Fukai K, Hozumi Y, Nakamura T, Narita T, Motokawa T, Wakamatsu K, Ito S, Kawada A, Tamiya G, Suzuki T
  • Journal Title: J Dermatol Volume: 41 Issue: 4 Pages: 296-302
  • DOI: 10.1111/1346-8138.12432
  • Peer Reviewed
• [Journal Article] Glutamate receptors and the regulation of steroidogenesis in the human adrenal gland: the metabotropic pathway. (2014)
  • Author(s): Felizola SJ, Nakamura Y, Satoh F, Morimoto R, Kikuchi K, Nakamura T, Hozawa A, Wang L, Onodera Y, Ise K, McNamara KM, Midorikawa S, Suzuki S, Sasano H.
  • Journal Title: Mol Cell Endocrinol Volume: 382 Issue: 1 Pages: 170-177
  • DOI: 10.1016/j.mce.2013.09.025
  • Peer Reviewed
• [Journal Article] Case of a Mongolian child with extensive Mongolian spots in Mucopolysaccharidosis type VI: Identification of a novel mutation in the arylsulfatase B gene. (2013)
  • Author(s): Okamura K, Munkhbat B, Bachimeg B, Tamiya G, Hozumi Y, Suzuki T.
  • Journal Title: J Dermatol Volume: 40 Issue: 9 Pages: 758-759
  • DOI: 10.1111/1346-8138.12237
  • Peer Reviewed
• [Journal Article] Comparison of caregiver strain in Parkinson's disease between Yamagata, Japan, and Maryland, The United States. (2013)
  • Author(s): Tanji H, Koyama S, Wada M, Kawanami T, Kurita K, Tamiya G, Saito N, Suzuki K, Kato T, Anderson KE, Gruber-Baldini AL, Fishman PS, Reich SG, Weiner WJ, Shulman LM.
  • Journal Title: Parkinsonism Relat Disord Volume: 19 Issue: 6 Pages: 628-633
  • DOI: 10.1016/j.parkreldis.2013.02.014
  • Peer Reviewed
• [Journal Article] The confounding effect of cryptic relatedness for environmental risks of systolic blood pressure on cohort studies. (2013)
  • Author(s): Shibata K, Hozawa A, Tamiya G, Ueki M, Nakamura T, et al.
  • Journal Title: Mol Genet Genomic Med Volume: 1 Issue: 1 Pages: 45-53
  • DOI: 10.1002/mgg3.4
  • Peer Reviewed
• [Journal Article] A founder haplotype of APOE-Sendai mutation associated with lipoprotein glomerulopathy. (2013)
  • Author(s): Toyota K, Hashimoto T, Ogino D, Matsunaga A, Ito M, Masakane I, Degawa N, Sato H, Shirai S, Umetsu K, Tamiya G, Saito T, Hayasaka K.
  • Journal Title: J Hum Genet Volume: 58 Pages: 254-258
  • NAID: 10031177219
  • Peer Reviewed
• [Presentation] 回帰直線モデルでの変化点を検出するための逐次検定法の開発について (2016)
  • Author(s): 中村智洋
  • Organizer: 第15回西東京統計研究会
  • Place of Presentation: 駐健保会館（東京都港区）
  • Year and Date: 2016-03-09
• [Presentation] 超高次元スパース回帰法によるゲノムデータ解析 (2016)
  • Author(s): 植木優夫, 嶋村海人, 川野秀一, 小西貞則, 田宮元
  • Organizer: 岡山大学IPSR × 九州大学IMI × 理研CSRS シンポジウム
  • Place of Presentation: 理化学研究所 横浜キャンパス (神奈川県横浜市)
  • Year and Date: 2016-02-23
  • Invited
• [Presentation] ヒトゲノムデータから見た統計科学 (2016)
  • Author(s): 植木優夫
  • Organizer: 遺伝学と統計学における数理とモデリング
  • Place of Presentation: 政策研究大学院大学 (東京都港区)
  • Year and Date: 2016-01-25
  • Invited
• [Presentation] 東日本大震災後の宮城県におけるメタボリック症候群の規定要因：地域住民コホート調査 (2016)
  • Author(s): 中村智洋
  • Organizer: 第26回日本疫学会学術総会
  • Place of Presentation: 米子コンベンションセンター（鳥取県米子市）
  • Year and Date: 2016-01-21
• [Presentation] Multivariate smooth-threshold genetic prediction with unbiased model selection (2015)
  • Author(s): Ueki M, Tamiya G
  • Organizer: East Asia Regional Biometric Conference 2015
  • Place of Presentation: Conference Hall, Kyushu University Station-I for Collaborative Research (福岡県福岡市)
  • Year and Date: 2015-12-20
  • Int'l Joint Research / Invited
• [Presentation] Smooth-threshold multivariate genetic prediction with unbiased model selection (2015)
  • Author(s): Ueki M, Tamiya G
  • Organizer: 広島統計談話会
  • Place of Presentation: 放射線影響研究所 (広島県広島市)
  • Year and Date: 2015-12-04
  • Invited
• [Presentation] 回帰直線モデルでの変化点を検出するための逐次検定法の開発 (2015)
  • Author(s): 中村智洋
  • Organizer: 日本計算機統計学会第29回シンポジウム
  • Place of Presentation: まなぼっと幣舞（北海道釧路市）
  • Year and Date: 2015-11-27
• [Presentation] 東日本大震災後の睡眠薬服用開始に関連する規定要因の検討 (2015)
  • Author(s): 中村智洋
  • Organizer: 第74回日本公衆衛生学会総会
  • Place of Presentation: 長崎新聞文化ホール（長崎県長崎市）
  • Year and Date: 2015-11-04
• [Presentation] 円滑閾値型推定方程式による遺伝的予測 (2015)
  • Author(s): 植木優夫, 田宮元
  • Organizer: 科研費シンポジウム: 生命科学データ解析の方法論と健康科学への応用
  • Place of Presentation: 東京大学 医科学研究所(東京都港区)
  • Year and Date: 2015-10-16
• [Presentation] 円滑閾値型推定方程式による遺伝的予測 (2015)
  • Author(s): 植木優夫, 田宮元
  • Organizer: 2015年度 統計関連学会連合大会
  • Place of Presentation: 岡山大学 津島キャンパス(岡山県岡山市)
  • Year and Date: 2015-09-06
• [Presentation] Comoarison of renal function in coastal and inland area: The Tohoku Medical Megabank Community-based Cohort Study (2015)
  • Author(s): 中村智洋
  • Organizer: 第25回日本疫学会学術総会
  • Place of Presentation: ウインクあいち（愛知県名古屋市）
  • Year and Date: 2015-01-21 – 2015-01-23
• [Presentation] Choosing multiple good regression models under multicollinearity (2014)
  • Author(s): Ueki M.
  • Organizer: CSA-KSS-JSS joint International Session
  • Place of Presentation: 国立交通大学光復キャンパス（台湾・新竹市）
  • Year and Date: 2014-12-05 – 2014-12-07
• [Presentation] 東日本大震災での笑いの規定要因と精神的健康度の推測：七ヶ浜健康増進プロジェクト (2014)
  • Author(s): 中村智洋
  • Organizer: 第73回日本公衆衛生学会総会
  • Place of Presentation: 栃木県総合文化センター（栃木県宇都宮市）
  • Year and Date: 2014-11-05 – 2014-11-07
• [Presentation] Ultrahigh-dimensional variable selection for genome-wide SNP-SNP interaction analysis (2014)
  • Author(s): Ueki M.
  • Organizer: The 3rd Institute of Mathematical Statistics Asia Pacific Rim Meeting
  • Place of Presentation: ハワード インターナショナル ハウス（台湾・台北市）
  • Year and Date: 2014-07-03
  • Invited
• [Presentation] 用量反応試験における交互作用検出のための逐次型多重比較法について (2014)
  • Author(s): 中村智洋、道家暎幸
  • Organizer: 日本計算機統計学会 第28回大会
  • Place of Presentation: 中央大学後楽園キャンパス（東京都文京区）
  • Year and Date: 2014-05-17 – 2014-05-18
• [Presentation] 慢性疾患既往歴と心理的苦痛の関連 (2014)
  • Author(s): 中谷 直樹, 中村 智洋, 辻 一郎, 寶澤 篤, 富田 博秋
  • Organizer: 第24回日本疫学会学術総会
  • Place of Presentation: 仙台市
• [Presentation] 東日本大震災による喫煙・飲酒の行動変化と規定要因の検討 (2014)
  • Author(s): 中村 智洋, 中谷 直樹, 辻 一郎, 寶澤 篤, 富田 博秋
  • Organizer: 第24回日本疫学会学術総会
  • Place of Presentation: 仙台市
• [Presentation] ゲノム疫学研究のビッグデータ解析におけるp>>n問題とその対応 (2014)
  • Author(s): 田宮 元
  • Organizer: 第24回日本疫学会学術総会
  • Place of Presentation: 仙台市
  • Invited
• [Presentation] 慢性疾患治療患者における心理的苦痛に関する研究 (2013)
  • Author(s): 中谷 直樹, 中村 智洋, 辻 一郎, 寶澤 篤, 富田 博秋
  • Organizer: 第72回日本公衆衛生学会総会
  • Place of Presentation: 津市
• [Presentation] 東日本大震災における喫煙・飲酒の行動変化と規定要因 (2013)
  • Author(s): 中村 智洋, 中谷 直樹, 辻 一郎, 寶澤 篤, 富田 博秋
  • Organizer: 第72回日本公衆衛生学会総会
  • Place of Presentation: 津市
• [Presentation] 順序仮説に関する逐次型多重比較法の研究 (2013)
  • Author(s): 中村 智洋, 山本 義郎, 道家 暎幸
  • Organizer: 日本計算機統計学会第27回シンポジウム
  • Place of Presentation: 熊本市
• [Presentation] Multiple choice from competing regression models under multicollinearity based on standardized update (2013)
  • Author(s): Kawasaki Y, Ueki M
  • Organizer: Joint Statistical Meeting 2013
  • Place of Presentation: カナダ、モントリオール
• [Presentation] Variable selection method for genome-wide SNP-SNP interaction analysis (2013)
  • Author(s): Ueki M
  • Organizer: 2nd International Symposium on Statistical Genetics (ISSG)
  • Place of Presentation: 韓国、ソウル
  • Invited
• [Presentation] Variable selection method for whole-genome gene-gene interaction analysis (2013)
  • Author(s): Ueki M, Tamiya G
  • Organizer: Joint Meeting of the IASC Satellite Conference for the 59th ISI WSC and the 8th Conference of the Asian Regional Section(ARS) of the IASC
  • Place of Presentation: 韓国、ソウル
  • Invited
• [Presentation] ゲノムワイドSNP-SNP相互作用解析 (2013)
  • Author(s): 植木優夫
  • Organizer: 2013年度統計関連学会連合大会
  • Place of Presentation: 豊中市
• [Book] ゲノム医学のための遺伝統計学 (2015)
  • Author(s): 田宮 元、植木 優夫、小森 理
  • Total Pages: 250
  • Publisher: 共立出版
• [Remarks] ゲノム情報解析ユニット
  • URL: http://www.genetix-h.com/~AMERI/index.html
• [Remarks] ゲノム情報解析ユニット
  • URL: http://www.genetix-h.com/~AMERI/