??????????III (14) ????????? - PowerPoint PPT Presentation

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??????????III (14) ?????????

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Title: Author: Tatsuya Akutsu Last modified by: Tatsuya Akutsu Created Date: 7/10/2004 9:42:13 AM Document presentation format – PowerPoint PPT presentation

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Title: ??????????III (14) ?????????


1
??????????III(14) ?????????
  • ??? ??
  • ???? ?????
  • ????????????????

2
????
  • ?1? ????????
  • ?2? ????????
  • ?3? ???????????????????
  • ?4? ??????????
  • ?5? ?????????
  • ?6? ????
  • ?7? ???????
  • ?8? ?????????
  • ?9? ??????????
  • ?10? ????
  • ?11? RNA??????
  • ?12? ???????????????
  • ?13? ????????????????k?
  • ?14? ?????????
  • ?15? ???

3
Color Coding
Alon et al. J. ACM 1995
4
k-Path??
  • ?? ????? G(V,E)??? k
  • ?? G ???? k ???(???????????)
  • ??(????)
  • NP?? ? kn(V)?????????????
  • ????????? ??? v ????????????????????????????
  • ? O(nk) ????????
  • ????
  • V ? k ??????? (??? k ???????)
  • ????????????????????????
  • (?????????? ? ???????(??)??????)

5
???????????
  • ??????? v ????? k ?????????
  • ???? v ?????????????????
  • ?????????????????
  • P(u,C) C ????????1??? v ?? u ???????? 1?
  • ??????? 0 (C ? 1,2,,k?????)
  • ??? P(v,f(v))?1, ????? 0 (f(v) ? v ??)
  • ??? (C1 ?? Ck-1 ????????) u,w?E

6
??????
  • P(u,C) C ????????1??? v ?? u ???????? 1?
  • ??????? 0 (C ? 1,2,,k?????)
  • ??? P(v,f(v))?1, ????? 0 (f(v) ? v ??)
  • ??? (C1 ?? Ck-1 ????????)

?? ????????????? O(2k poly(n)) ?? C ?????????
2k ?????2kn ?? P(u,C) ????????? ?????? v ???????
n ???????
7
?????
  • ?? P ???? G ? k-????????? k ??????????????????P
    ??????????????? e-k??

?? P ????????????? kk ????????????????? k!
????????????? Stirling ?????
?? ????????? ek ?????????(???????)?????1????????
1/2 ??
?? ?????????????????
?????????????????????????
8
???????????(????)
  • ???? ???????????

k-????????? F ? V1,2,,n ?? 1,2,,k ???? f
??(??)????V ???? k ????????????????1?1?????? f?F
???????F ? k-??????????????
?? ??? n,k ????2O(k)log2n ???????? k-??????????
2O(k)nlog2n ???????
? ???????????????????????? f ? ????????
? k-Path??? 2O(k)poly(n) ??????
9
Color Coding ???
  • Color Coding ????????????????(??????????)?????
  • ? ????????????????
  • ?????????? Alon et al. Bioinformatics , 2008
  • ??????????? Huffner et al. Bioinformatics 2007


  • Algorithmica 2008
  • ?????????? Dao et al. Bioinformatics 2011
  • ?????????????? Shlomi et al. BMC
    Bioinformaics 2006

10
??????
Nakano Inf. Proc. Lett. 2002
11
????????
  • ??????????????????????
  • ?????????????????????
  • ???????????????????????
  • 1870??????(?????????)
  • ??????????family tree ???????????
  • ???????????????????????????1??????????????????????
    ???????
  • ?????????????????
  • ???1?1??????????????

12
?????????
  • ?? ??? n
  • ?? ???? n ??????????
  • (????????????????????????)

? n4
????????????????(??)????????
13
Family Tree
  • ???(reverse search)???????
  • ???????(????????????)???
  • ? ???????????
  • ????????????????
  • ????????????????????????
  • ?????????????????????
  • ?????????????????????????????(????????)??????????
    ?

14
Family Tree??(n5)
15
????????
  • ????? Family Tree ????????? n ????????????
  • r(T) ? T ??
  • T(v,) ? T ??? v ??????????????? ?
  • e ???(??????????)

?? ??? n ????????1????????????? ??
?????????(??)????????????? EnumTree???1????????(T
????????????)? Family Tree ?????????????? ????Fami
ly Tree ????(?????)?????????????
16
????????
  • ?????????????????????
  • ??Family Tree??????????(???????)??????????????????
  • ???????????????????????
  • (?????)???? Nakano, Uno Proc. WG 2005
  • ???????????? Zhuang, Nagamochi Proc. ISAAC
    2010
  • ??????? Wang, Nagamochi KUAMP Tech. Rep.
    2010-007
  • ?????? Makino, Uno Proc. SWAT 2004, Tomita et
    al. Theoret. Comp. Sci. 2006
  • ?????? Arimura, Uno Proc. ISAAC 2005
  • (????????)????
  • Imada et al. J. Chem.
    Inf. Model., 2011

17
???
  • Color Coding
  • ????(k-path)?????????????????
  • ?????
  • ???????1????????????
  • ?????? Family Tree ???
  • ??
  • k-path ???????????????????????????????? Fomin
    J. Comput. Syst. Sci. 2012
  • ??k??????????????
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