Sequence Read Archive: Database for High-throughput sequencing best practice 2012

Transcript

1. ࣍ੈ୅γʔέϯεղੳͱެڞσʔλϕʔε 4FRVFODF
   3FBE
   "SDIJWFΛ࢖͍౗͢ /PW
   
   
   BU
   $&3* େాୡ࿠
   
   5B[SP
   0IUB ▼

2. ຊ೔ͷ಺༰ ˓
   ެڞσʔλϕʔε43"
   4FRVFODF
   3FBE
   "SDIJWFʹ͍ͭͯ ˓
   %#$-4Ͱఏڙ͍ͯ͠Δ43"ؔ࿈αʔϏε ˓
   4FRVFODF
   3FBE
   "SDIJWF
   ϕετϓϥΫςΟε ˓
   ެڞσʔλϕʔεͱ/(4ɺ՝୊ͱ͜Ε͔Β

3. ώΞϦϯά ˓
   ࣍ੈ୅γʔέϯαʔʁ ˓
   4FRVFODF
   3FBE
   "SDIJWFʁ ˓
   %#$-4
   43"ʁ

4. ެڞσʔλϕʔε43"
   4FRVFODF
   3FBE
   "SDIJWFʹ͍ͭͯ

5. ެڞσʔλϕʔε43"
   4FRVFODF
   3FBE
   "SDIJWFʹ͍ͭͯ ˓
   ೥ʹ/$#*ʹΑͬͯ/(4σʔλͷऩू͕࢝·Δ ˓
   ೥͔Β*/4%$ʹΑΔ4FRVFODF
   3FBE
   "SDIJWFͱͯ͠ӡӦ ˓
   */4%$
   *OUFSOBUJPOBM
   /VDMFPUJEF
   4FRVFODF
   %BUBCBTF
   $PMMBCPSBUJPO ˓
   ถࠃ/$#*
   Ԥभ&#*

   
   ೔ຊ%%#+ ˓
   ొ࿥ड෇ɼݕࡧ΍μ΢ϯϩʔυͳͲΛͦΕͧΕఏڙ ˓
   ొ࿥͞Εͨσʔλ͸ަ׵͞ΕɼͲ͔͜ΒͰ΋ΞΫηεՄೳ

6. Ͳ͔͜ΒͰ΋ಉ͡σʔλʹΞΫηεՄೳ Data ID : 000001 organism : mouse cell :

   nervous cell sequencer : 454 date : 2011 12 08 >Seq_Numero_1 ATGCATGCATGCATG CATGCATGCATGCAT GCATGCATGCATGCA TGCATGCATGCATGC ATGCATGCATGCATG CATGATGCATGCATG CATGCATGCATGCAT GCATGCATGCATGCA TGCATGTGCATGTGC */4%$ σʔλަ׵ ഑ྻσʔλ
   
   ϝλσʔλΛొ࿥

7. www.ncbi.nlm.nih.gov/sra

8. www.ebi.ac.uk/ena

9. trace.ddbj.nig.ac.jp/dra

10. ࢖ͬͯΈΔ ˓
    IVNBO
    CSFBTU
    DBODFSͷσʔλΛ୳ͯ͠ΈΔ

11. None
12. None
13. None
14. None
15. None
16. None

17. http://www.everystockphoto.com/photo.php?imageId=3972069

18. http://www.flickr.com/photos/mindaugasdanys/3766009204/ ࢖͍ʹ͍͘

19. ෆຬ ˓
    σʔλϕʔεͷߏ଄͕ෳࡶա͗Δ

20. σʔλ͕୳ͤͳ͍

21. ϛογϣϯ ˓
    ެڞσʔλΛ΋ͬͱ୳͠΍͘͢ɼ࢖͍΍͘͢͢Δ

22. %#$-4Ͱఏڙ͍ͯ͠Δ43"ؔ࿈αʔϏεɾπʔϧ

23. 43"ͷσʔλΛ࢖͍΍͘͢͢ΔͨΊʹ ˓
    43"ͷ֤छ౷ܭΛݩʹσʔλΛݕࡧ͢Δ ˓
    ൃද͞Εͨ࿦จΛݩʹσʔλΛݕࡧ͢Δ ˓
    ࣬ױΛΩʔϫʔυʹσʔλΛݕࡧ͢Δ ˓
    ొ࿥͞ΕͨσʔλͷγʔέϯεΫΦϦςΟΛݟΔ ˓

    
    ݕࡧ݁Ռʹؔ࿈͢ΔϝλσʔλΛޮ཰Α͘ϒϥ΢δϯά͢Δ ˓
    ֤43"ؔ࿈αʔϏεͷ"1*Λར༻͢Δ {@}

24. 43"ͷ֤छ౷ܭΛݩʹσʔλΛݕࡧ͢Δ

25. 43"ͷ֤छ౷ܭΛݩʹσʔλΛݕࡧ͢Δ ˓
    ഑ྻσʔλͱڞʹొ࿥͞ΕΔϝλσʔλ ஫ऍσʔλ Λूܭ ˓
    γʔέϯαʔͷछྨɼαϯϓϧੜ෺छɼ࣮ݧछΛϥϯΩϯάදࣔ ˓
    σʔλొ࿥਺ͷ৳ͼ཰ΛάϥϑͰදࣔ ͝རӹ

    ˓
    ޮ཰ͷΑ͍ʮߜΓࠐΈݕࡧʯ ˓
    ʮͲͷΑ͏ͳσʔλ͕ͲΕ͘Β͍͋Δͷ͔ʯ͕Ұ໨Ͱ෼͔Δ ˓
    ۀքͷτϨϯυΛՄࢹԽ

26. sra.dbcls.jp

27. “౷ܭ஋͔Β୳͢”

28. ৳ͼ཰ͷάϥϑ

29. ࣮ݧछผʹ৭෼͚

30. ൃද͞Εͨ࿦จΛݩʹσʔλΛݕࡧ͢Δ

31. ൃද͞Εͨ࿦จΛݩʹσʔλΛݕࡧ͢Δ ˓
    43"ͷσʔλʹ͸࿦จ΁ͷϦϯΫ͕෇ਵ͍ͯ͠ͳ͍΋ͷ͕ଟ͍ ˓
    ࿦จ͕ग़Δલʹొ࿥͞ΕΔσʔλ͕ଟ͍ͨΊ ˓
    จݙͷத͔Βެ։σʔλ΁ͷݴٴΛநग़͠ɼ*%Λ݁ͼ͚ͭΔ ͝རӹ ˓
    δϟʔφϧɼ࿦จൃද೔࣌ɼ࿦จλΠτϧͳͲͰιʔτͯ͠ݕࡧ

    ˓
    ࣮ݧछɼੜ෺छɼγʔέϯαͳͲͰߜࠐΈ΋Մೳ

32. sra.dbcls.jp

33. “จݙ͔Β୳͢”

34. ߜࠐΈݕࡧ ֤ϑΟʔϧυͰฒ΂ସ͑

35. ࣬ױΛΩʔϫʔυʹσʔλΛݕࡧ͢Δ

36. ࣬ױΛΩʔϫʔυʹσʔλΛݕࡧ͢Δ ˓
    /(4͸ҩֶܥ෼໺Ͱͷར༻΋ଟ͍
    ˓
    43"͸෼໺ผʹ෼͔Ε͍ͯͳ͍ͷͰݕࡧ͕ͮ͠Β͍ ˓
    จݙʹ෇ਵ͢Δ.F4)
    UFSNΛݩʹσʔλΛ࣬ױͰ੔ཧ ˓
    σʔλొ࿥਺ͷଟ͍΋ͷ΍ɼ࣬ױͷΧςΰϦΛݩʹݕࡧՄೳ ͝རӹ

    ˓
    .F4)ΩʔϫʔυΛݩʹ͍ͯ͠ΔͨΊਫ਼౓͕ߴ͍ ˓
    ෼໺Ͱͷݚڀಈ޲ΛݟΔ͜ͱ΋Ͱ͖Δ

37. sra.dbcls.jp

38. “࣬ױ͔ΒோΊΔ”

39. “ස౓ผ”

40. ొ࿥σʔλ਺ ࣬ױؔ࿈Ҩ఻ࢠDB Gendoo΁ͷϦϯΫ

41. νΣοΫͯ͠ Search

42. MeSHͷؔ࿈λʔϜ ؔ࿈౓ʹԠͯ͡දࣔ

43. “࣬ױΧςΰϦผ”

44. πϦʔද͔ࣔΒ σʔλΛݕࡧ

45. ొ࿥͞ΕͨσʔλͷγʔέϯεΫΦϦςΟΛݟΔ

46. ొ࿥͞ΕͨσʔλͷγʔέϯεΫΦϦςΟΛݟΔ ˓
    43"ͷσʔλ͸ৗʹྑ͍΋ͷͱ͸ݶΒͳ͍
    ˓
    ϛεγʔέϯε΋ొ࿥͞Εσʔλ͕ೖ͍ͬͯΔ ˓
    ৚͕݅ಉ͡σʔλͳΒਫ਼౓ͷྑ͍΋ͷΛ࢖͍͍ͨ ˓
    'BTU2$ʹΑͬͯશͯͷ43"σʔλͷΫΦϦςΟΛܭࢉ ˓

    
    IUUQXXXCJPJOGPSNBUJDTCBCSBIBNBDVLQSPKFDUTGBTURD ͝རӹ ˓
    μ΢ϯϩʔυʹҰ൩͔͔ͬͨσʔλ͕յΕ͍ͯͨͱ͍͏൵ܶΛճආ ˓
    γʔέϯεΫΦϦςΟͷൺֱΛ͢Δ͚ͩͰ΋ָ͍͠

47. g86.dbcls.jp/sra

48. SRA IDΛೖྗ

49. FastQCʹΑΔQC݁Ռ

50. APIʹΑΔΞΫηε΋Մೳ

51. ݕࡧ݁Ռʹؔ࿈͢ΔϝλσʔλΛޮ཰Α͘ϒϥ΢δϯά͢Δ

52. ݕࡧ݁Ռʹؔ࿈͢ΔϝλσʔλΛޮ཰Α͘ϒϥ΢δϯά͢Δ ˓
    େྔͷݕࡧ݁Ռͷத͔ΒͲ͏΍ͬͯཉ͍͠σʔλΛݟ͚ͭग़͔͢ʁ ˓
    αϯϓϧɼγʔέϯαʔͳͲͷ৚݅Λൺ΂Δ ˓
    ࿦จ͕ग़͍ͯΔ΋ͷΛ༏ઌ͢Δ ˓
    ৚݅Λൺֱ͢ΔͨΊʹɼؔ࿈͢Δ৘ใΛͻͱ·ͱΊʹ͍ͨ͠ ͝རӹ

    ˓
    αϯϓϧɼγʔέϯεɼϓϩδΣΫτͳͲͷ*%Ͱࠞཚ͠ͳ͍ ˓
    ࿦จͷ৘ใΛซͤͯݟΔ͜ͱͰਖ਼֬ͳ൑அ͕Ͱ͖Δ

53. g86.dbcls.jp/kusarinoko

54. All, human, mouse, Arabidopsis ͔Βબ୒ ΩʔϫʔυΛೖྗͯ͠ݕࡧ

55. ࿦จͷ৘ใ ώοτͨ͠σʔλͷϦετ

56. Study (project) Experiment Run (Sequence) / QC

57. Sample

58. ֤43"ؔ࿈αʔϏεͷ"1*Λར༻͢Δ {@}

59. ֤43"ؔ࿈αʔϏεͷ"1*Λར༻͢Δ ˓
    ϓϩάϥϜΛ࢖ͬͯ܁Γฦ͠ΞΫηε͍ͨ͠ ˓
    Ұఆͷظؒ͝ͱʹಉ͡৚݅Ͱݕࡧ͍ͨ͠ ˓
    େྔͷσʔλͷ৘ใΛݕࡧ͍ͨ͠ ͝རӹ ˓
    ೔ৗͷख͕ؒେ෯ʹݮΔ

60. ೔ৗͷख͕ؒ େ෯ʹݮΔ

61. ͝རӹ ˓
    ೔ৗͷख͕ؒେ෯ʹݮΔ

62. g86.dbcls.jp/sra

63. Sequence Quality

64. SRA IDม׵ ϝλσʔλͷऔಘ

65. Ұ෦ͷΈެ։த ˓
    ೔ৗͷखؒΛେ෯ʹݮΒ͢΂͘Ӷҙ։ൃதͰ͢

66. 4FRVFODF
    3FBE
    "SDIJWF
    ϕετϓϥΫςΟε

67. ެڞγʔέϯεσʔλΛ࢖͏खॱ ݕࡧ ϒϥ΢δϯά μ΢ϯϩʔυ νΣοΫ ղੳ ࿦จʹهࡌ͞Εͨ*%΍ΩʔϫʔυͰݕࡧ ݕࡧ݁ՌΛݸผʹݟͯཉ͍͠σʔλΛ୳͢ '51
    
    "TQFSB
    ͳͲͰσʔλΛμ΢ϯϩʔυ͢Δ μ΢ϯϩʔυͨ͠σʔλΛ֬ೝ͢Δ

    ղੳʹར༻͢Δ

68. ֤εςοϓΛޮ཰Խ
    
    ίετμ΢ϯ ݕࡧ ϒϥ΢δϯά μ΢ϯϩʔυ νΣοΫ ղੳ

69. ࣄલʹνΣοΫͯ͠μ΢ϯϩʔυͷίετ΋Լ͛Δ ݕࡧ ϒϥ΢δϯάɾνΣοΫ μ΢ϯϩʔυ ղੳ

70. ࣄલʹνΣοΫͯ͠μ΢ϯϩʔυͷίετ΋Լ͛Δ ݕࡧ ϒϥ΢δϯάɾνΣοΫ μ΢ϯϩʔυ ղੳ ౷ܭɼ࿦จɼ࣬ױɼΩʔϫʔυ౳Ͱݕࡧ ݕࡧ݁Ռ͔ΒσʔλΛ୳͠ɼΫΦϦςΟ΋֬ೝ μ΢ϯϩʔυ

71. ެڞ/(4σʔλͷೋ࣍ར༻ྫ ˓
    ࣗ෼ͷσʔλͱಉ͡৚݅ͷσʔλΛར༻ͯ͠/ΛՔ͙ ˓
    ࣗ෼ͷσʔλͱؔ࿈͢ΔσʔλΛར༻͠ൺֱղੳΛߦ͏ ˓
    ҟͳΔॲཧ۠ɼۙԑछɼ(FOPNF5SBOTDSJQUPNF&QJHFOPNFͳͲ ˓
    ղੳπʔϧͷੑೳධՁʹར༻͢Δ ˓

    
    ෳ਺ͷπʔϧͷൺֱɼ৽نπʔϧ։ൃ࣌ͷσϞσʔλͱͯ͠ ˓
    σʔλΛେྔʹूΊͯϝλղੳΛߦ͏ ˓
    ੜ෺छ΍ࡉ๔ͰԣஅతͳղੳͳͲ

72. 43"͕΋ͬͱ࢖͍΍͘͢ͳΓ·ͨ͠ ˓
    ͜ΕͰͲΜͲΜެڞσʔλΛ࢖ͬͯݚڀ͕Ͱ͖Δ

73. http://www.flickr.com/photos/mindaugasdanys/3766009204/ ·ͩ࢖͍ʹ͍͘

74. ෆຬ ˓
    ݕࡧ͕஗͍ ˓
    πʔϧ͕όϥόϥͰ࿈ܞͮ͠Β͍

75. http://www.flickr.com/photos/66986780@N00/137720685/ վྑத

76. ͠͹Β͓͘଴͍ͪͩ͘͞ ˓
    ։ൃܧଓதɼϑΟʔυόοΫ΋͓଴͍ͪͯ͠·͢

77. ެڞσʔλϕʔεͱ/(4ɺ՝୊ͱ͜Ε͔Β

78. ԿނσʔλΛҰൠެ։͢Δͷ͔ ˓
    ࠶ݱੑͷ୲อ ˓
    ࠶ղੳͷखஈΛఏڙ͠ਖ਼౰ੑΛূ໌͢Δ ˓
    ೋ࣍ར༻ͷଅਐ ˓
    
    ϦιʔεΛγΣΞ͠ɼଞͷݚڀऀʹར༻ͯ͠΋Β͏

79. ࣮৘ ˓
    ग़ͤͱݴΘΕΔ͔Βग़͢ ˓
    δϟʔφϧʹ౤ߘ͢Δࡍʹެڞ%#ͷ*%ΛٻΊΒΕΔ ˓
    άϥϯτͷن໿্શͯͷσʔλΛެ։͠ͳ͚Ε͹ͳΒͳ͍৔߹΋

80. http://www.flickr.com/photos/74521133@N00/232362142/ ग़͞ͳ͖Ό͍͚ͳ͍

81. ͝རӹ͕ͳ͍ ˓
    σʔλͷެ։ʹ͸ίετ͕͔͔Δ ˓
    ଞਓ͕࢖͍΍͍͢Α͏ʹ៉ྷʹ੔ཧ͢Δͷ͸େม ˓
    /(4σʔλ͸αΠζ͕େ͖͍ͷͰΞοϓϩʔυ͢Δͷ΋Ұۤ࿑ ˓
    σʔλΛग़ͨ͠ਓ΁ͷϦεϖΫτ ˓

    
    ࿦จൃදલͷσʔλΛୈࡾऀ͕ղੳͯ͠࿦จʹʁ ˓
    ݱঢ়Ͱ͸σʔλΛग़͚ͩ͢Ͱ͸ۀ੷ʹͳΒͳ͍

82. ΞʔΧΠϒ͸Ͳ͏͋Δ΂͖͔ ˓
    σʔλެ։ͷෑډΛԼ͛Δ ˓
    σʔλΛެ։͢ΔͨΊͷํ๏Λඪ४Խ͢Δ ˓
    NJOJNVN
    JOGPSNBUJPOͳͲ ˓
    ΑΓ؆୯ʹσʔλΛొ࿥͢ΔͨΊͷ࢓૊Έ ˓

    
    σʔλར༻Λଅਐ͢Δ ˓
    ެ։σʔλΛΑΓ࢖͍΍͘͢੔ཧ͢Δ ˓
    ެ։σʔλΛ༗ޮར༻͢ΔͨΊͷํ๏࿦ ˓
    σʔλΛग़͢ਓʹ͝རӹΛ ˓
    ެ։σʔλʹ%0*ΛৼͬͯҾ༻ΛՄೳʹ͢Δ౳

83. Ͳ͏͢Δ ˓
    Ͳ͏͢Ε͹ʁ

84. http://www.flickr.com/photos/mindaugasdanys/3766009204/ ͕Μ͹Γ·͢

85. ͝ਗ਼੅͋Γ͕ͱ͏͍͟͝·ͨ͠