テンソル分解による糖尿病の組織特異的遺伝子発現の統合解析を用いた関連疾患の予測

Presentation at SIGBIO-81
https://www.ipsj.or.jp/kenkyukai/event/bio81.html

Transcript

1. ςϯιϧ෼ղʹΑΔ౶೘පͷ ૊৫ಛҟతҨ఻ࢠൃݱͷ ౷߹ղੳΛ༻͍ͨؔ࿈࣬ױͷ༧ଌ (Taguchi et al., Genes 2022, 13(6), 1097) Y.-H. Taguchi, Turki Turki தԝେֶ ཧ޻ֶ෦ ෺ཧֶՊ Ωϯάα΢υେֶ ίϯϐϡʔλՊֶՊ 2025 ೥݄̏̒೔ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 1 / 18
2. εϥΠυ֓ཁ 1 ݚڀഎܠͱ໨త 2 ςϯιϧ෼ղͷجૅ 3 HOSVD ղੳख๏ͱσʔλ 4 ݁Ռͷ֓ཁ 5 ߟ࡯ͱԠ༻Մೳੑ 6 ݁࿦ͱࠓޙͷల๬ 7 ࢀߟจݙ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 2 / 18
3. ݚڀഎܠʢ1/2ʣ ౶೘ප͸ੈքతʹਂࠁͳ݈߁՝୊Ͱ͋Γɺਆܦม ੑ࣬ױ΍ඇΞϧίʔϧੑࢷ๱؊ɺ৺݂؅ো֐ͳͲ ଟ༷ͳ߹ซ঱ʢ༨පʣͱͷؔ࿈͕ࢦఠ͞Ε͍ͯΔɻ ͜͏ͨ͠༨පΛแׅతʹ೺Ѳɾ༧ଌ͢Δ͜ͱ͸ɺ ༧๷ҩֶ΍ݸผԽҩྍͷ؍఺͔Βॏཁɻ Ҩ఻ࢠൃݱσʔλΛ༻͍ͨղੳ͕ɺ࣬ױͷ෼ࢠج ൫Λղ໌͢Δ༗ྗͳखஈͱͯ͠஫໨͞Ε͍ͯΔɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 3 / 18
4. ݚڀഎܠʢ2/2ʣ ैདྷ͸୯Ұ૊৫Ͱͷࠩ෼ղੳʢt ݕఆ, SAM, limma ౳ʣ͕ओྲྀ͕ͩɺશ਎ੑ࣬ױͷશମ૾Λे ෼ʹ͸ଊ͖͑Εͳ͍Մೳੑ͕͋Δɻ ຊݚڀͰ͸ɺςϯιϧ෼ղ (TD) Λ༻͍ͯϚϧν ૊৫Ҩ఻ࢠൃݱσʔλΛಉ࣌ʹղੳ͠ɺ౶೘පʹ ෇ਵ͢Δ࣬ױʢ༨පʣΛਪఆ͢Δɻ ໨తɿ୯Ұ૊৫ղੳͱൺֱ͠ͳ͕Βɺ౷߹ղੳͷ ϝϦοτΛݕূ͢Δͱͱ΋ʹɺ৽ͨͳ࣬ױؔ࿈৘ ใΛൃ۷͢Δɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 4 / 18
5. ςϯιϧ෼ղʢTDʣͱ͸ ςϯιϧɿଟ࣍ݩ഑ྻɻҨ఻ࢠ ʷ ૊৫ ʷ ࣌ؒ ʷ ॲஔ ʜͳͲɺ3 ࣍ݩΛ௒͑Δσʔλߏ଄ɻ HOSVD (Higher-Order SVD)ɿߴ࣍ݩͷಛҟ஋ ෼ղʹΑΓɺίΞςϯιϧͱ֤Ϟʔυͷಛҟ஋ϕ Ϋτϧ΁෼ղ͢Δɻ ڭࢣͳ͠ख๏Ͱ͋Γɺෳ਺৚݅ɾ૊৫Λಉ࣌ʹ ѻͬͯ΋৘ใΛଛͳΘͣɺજࡏతͳมಈཁҼΛந ग़Մೳɻ ϙΠϯτ ୯Ұ૊৫͝ͱͷղੳͰ͸ݟ͑ͮΒ͍ʮԣஅతͳಛ௃ʯ Λଊ͑ΒΕΔͷ͕ڧΈɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 5 / 18
6. HOSVDղੳϑϩʔʢ֓೦ਤʣ ʢ࿦จຊฤ Figure 1 ͳͲͷղੳύΠϓϥΠϯΛ૝ఆʣ 1) Ϛϧν૊৫σʔλΛߴ࣍ݩςϯιϧͱͯ͠ߏங 2) HOSVD Ͱ෼ղ ˠ ಛҟ஋ϕΫτϧ͔ΒมಈྔେͷҨ఻ࢠ Λબ୒ 3) બ୒Ҩ఻ࢠΛΤϯϦονϝϯτղੳ͠ɺؔ࿈࣬ױɾܦ࿏ Λ୳ࡧ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 6 / 18
7. σʔλͱղੳͷྲྀΕ Ϟσϧಈ෺ɿϥοτʢ౶೘පϞσϧ vs. ରরʣ3 ૊৫ʢ؊ଁɺے೑ɺࢷ๱ʣʷ ෳ਺ि ʷ 2 ܥ౷ ˠ 6 ࣍ݩԽ ςϯιϧߏஙɿҨ఻ࢠ (∼ 31k) ʷ ि ʷ ݸମ ʷ ॲஔ (౶೘ප/ରর) ʷ ܥ౷ ʷ ૊৫ HOSVD Λద༻͠ɺओཁมಈ੒෼Λநग़ มಈྔ͕େ͖͍Ҩ఻ࢠʢ໿ 2542 ϓϩʔϒʣΛબ୒ ˠ Enrichr ౳Ͱػೳ෋ूղੳ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 7 / 18
8. HOSVDͷ݁ՌʢҰྫɿfigure3.jpgʣ ಛҟ஋ϕΫτϧͷՄࢹԽʹΑΓɺͲͷϞʔυʢ࣍ݩʣʹେ͖ ͳมಈ͕͋Δ͔೺Ѳ͠΍͍͢ɻ ૊৫ԣஅతͳओཁ࣠ΛಛఆͰ͖Δͷ͕ TD ͷڧΈɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 8 / 18
9. ݁Ռʢ1/4ʣ ɿղੳख๏ൺֱ ղੳख๏ ༗ҙҨ఻ࢠ਺ ے೑༝དྷ උߟ ఏҊ (TD) ∼2542 ଟ਺ ౷߹ղੳ SAM (૊৫ผ) ਺ඦఔ౓ গ਺ ૊৫୯ಠ limma (૊৫ผ) ਺ेఔ౓ 2 ΄Ͳ ૊৫୯ಠ ComBat + ղੳ ਺ඦఔ౓ গ਺ όονิਖ਼ TD ͸ैདྷख๏ΑΓ޿ൣғͳҨ఻ࢠΛݕग़͠ɺے೑ͰͷมಈΛଊ͑΍ ͍͢ɻ ౷߹ղੳͳΒͰ͸ͷ༏Ґੑ͕ࣔࠦ͞ΕΔɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 9 / 18
10. ݁Ռʢ2/4ʣ ɿϕϯਤʹΑΔॏෳൺֱ ʢ࿦จதϕϯਤྫɿ૊৫ผղੳ DEGs ͱ TD બ୒Ҩ఻ࢠͷൺֱʣ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 10 / 18
11. ݁Ռʢ3/4ʣ ɿؔ࿈࣬ױͷΤϯϦονϝ ϯτ Taguchi et al., Genes 2022, 13(6), 1097, Figure 2 (ྫ) Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 11 / 18
12. ݁Ռʢ4/4ʣ ɿؔ࿈࣬ױͷΤϯϦονϝ ϯτ நग़ͨ͠Ҩ఻ࢠ܈ͷΤϯϦονϝϯτղੳͰɺ౶೘පੑ৺ ے঱ͷ΄͔ɺϓϦΦϯප, ύʔΩϯιϯප, ΞϧπϋΠϚʔ ප౳্͕Ґώοτɻ ౶೘පͱਆܦมੑ࣬ױͷؔ࿈ੑΛ෼ࢠϨϕϧͰࣔࠦ͠ɺے ೑૊৫ͷҨ఻ࢠมಈ͕ؔ༩͍ͯ͠ΔՄೳੑ͕ු্ɻ ैདྷͷ୯Ұ૊৫ղੳͰ͸ಘΒΕͳ͍༨පͷख͕͔ΓΛಘΒ ΕΔ఺͕ TD ͷڧΈɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 12 / 18
13. ߟ࡯ɿ౶೘පͱਆܦมੑ࣬ױͷؔ࿈ ౶೘ප͸ΞϧπϋΠϚʔප΍ύʔΩϯιϯපͳͲ ਆܦมੑ࣬ױͷϦεΫҼࢠͱ͞ΕɺઌߦݚڀͰ΋ ୅ँɾԌ঱ɾϛτίϯυϦΞػೳͷؔ࿈͕ࣔࠦ͞ Ε͍ͯΔɻ ຊݚڀͷ TD ղੳͰநग़͞ΕͨҨ఻ࢠ܈͸ɺ͜͏ ͨ͠୅ँܦ࿏΍ਆܦػೳʹ͔͔ΘΔ෼ࢠΛଟ͘ ؚΉɻ ౷߹ղੳͳΒͰ͸ͷ޿ҬతͳҨ఻ࢠબൈ͕ɺ෼ࢠ ج൫ͷڞ௨ੑΛ۩ମతʹࣔͨ͠ҙٛ͸େ͖͍ɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 13 / 18
14. Ԡ༻Մೳੑ ຊΞϓϩʔν͸౶೘පҎ֎ʹ΋ɺෳ਺࣬ױؒͷະ ஌ͷؔ࿈ੑΛൃ۷͢Δͷʹ༗ޮɻ େن໛ͳϚϧνΦϛΫεʢήϊϜ, τϥϯεΫϦ ϓτʔϜ, ϝλϘϩʔϜ ౳ʣʹର֦ͯ͠ுͰ͖ɺ ૑ༀඪత୳ࡧ΍ϦεΫ༧ଌʹԠ༻Մೳɻ γϯάϧηϧղੳ΍࣌ܥྻղੳͱ૊Έ߹ΘͤΔ͜ ͱͰɺΑΓৄࡉͳපଶਐߦͷ෼ࢠϝΧχζϜ͕໌ Β͔ʹͳΔ༨஍͕͋Δɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 14 / 18
15. ݁࿦ Ϛϧν૊৫ͷҨ఻ࢠൃݱΛςϯιϧ෼ղͰ౷߹ղ ੳ͢Δ͜ͱͰɺ౶೘පͷ༨පʢਆܦมੑ࣬ױͳ ͲʣΛ໢ཏతʹਪఆͰ͖ΔՄೳੑΛࣔͨ͠ɻ ैདྷख๏Ͱ͸ݟಀ͞ΕΔے೑૊৫ͷҨ఻ࢠมಈ ͕ɺਆܦมੑܦ࿏ͷΤϯϦονϝϯτʹد༩ɻ ౷߹ղੳ͸୯ҰղੳΑΓ΋޿͍ࢹ໺Ͱ࣬ױؔ࿈෼ ࢠΛநग़͠ɺ෼ࢠج൫ͷڞ௨ੑΛղ໌͢Δ্Ͱ༗ ྗͳख๏ͱͳΔɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 15 / 18
16. ࠓޙͷల๬ ຊख๏ͷྟচԠ༻ɿώτױऀ༝དྷϚϧνΦϛΫε σʔλΛ౷߹͠ɺ༨පϦεΫධՁ΍ݸผԽ࣏ྍઓ ུ΁ܨ͛Δɻ ଞ࣬ױͷ૊Έ߹Θͤʢ͕Μʴ໔Ӹ࣬ױͳͲʣͰͷ ૬ޓؔ࿈ղੳʹ΋ల։Մೳɻ ࣌ܥྻ΍γϯάϧηϧϨϕϧͰͷղੳɺػցֶश ͱͷ࿈ܞͳͲɺଟ֯తΞϓϩʔνʹΑΓਫ਼៛Խ͕ ظ଴͞ΕΔɻ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 16 / 18
17. ࢀߟจݙ I Taguchi, Y.-H.; Turki, T. Genes 2022, 13(6), 1097. https://www.mdpi.com/2073-4425/13/6/1097 Taguchi, Y.-H.; Turki, T. (Supplementary Materials), https://www.mdpi.com/article/10.3390/genes13061097/s1 Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 17 / 18
18. ͝ਗ਼ௌ͋Γ͕ͱ͏͍͟͝·ͨ͠ ࣭͝໰͸͍͟͝·͔͢ʁ Taguchi & Turki (MDPI) SIGBIO81 2025 ೥݄̏̒೔ 18 / 18