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Results: 1 to 20 of 366

1.

Efficient enumeration of monocyclic chemical graphs with given path frequencies.

Suzuki M, Nagamochi H, Akutsu T.

J Cheminform. 2014 May 30;6:31. doi: 10.1186/1758-2946-6-31. eCollection 2014.

PMID:
24955135
[PubMed]
Free PMC Article
2.

Network completion for static gene expression data.

Nakajima N, Akutsu T.

Adv Bioinformatics. 2014;2014:382452. doi: 10.1155/2014/382452. Epub 2014 Mar 26.

PMID:
24826192
[PubMed]
Free PMC Article
3.

The template effect of solvents on high yield synthesis, co-cyclization of pillar[6]arenes and interconversion between pillar[5]- and pillar[6]arenes.

Ogoshi T, Ueshima N, Akutsu T, Yamafuji D, Furuta T, Sakakibara F, Yamagishi TA.

Chem Commun (Camb). 2014 Jun 1;50(43):5774-7. doi: 10.1039/c4cc01968g. Epub 2014 Apr 22.

PMID:
24752204
[PubMed - in process]
4.

Exact and heuristic methods for network completion for time-varying genetic networks.

Nakajima N, Akutsu T.

Biomed Res Int. 2014;2014:684014. doi: 10.1155/2014/684014. Epub 2014 Mar 9.

PMID:
24738067
[PubMed - in process]
Free PMC Article
5.

Integer programming-based method for designing synthetic metabolic networks by Minimum Reaction Insertion in a Boolean model.

Lu W, Tamura T, Song J, Akutsu T.

PLoS One. 2014 Mar 20;9(3):e92637. doi: 10.1371/journal.pone.0092637. eCollection 2014.

PMID:
24651476
[PubMed - in process]
Free PMC Article
6.

Feature weight estimation for gene selection: a local hyperlinear learning approach.

Cai H, Ruan P, Ng M, Akutsu T.

BMC Bioinformatics. 2014 Mar 14;15:70. doi: 10.1186/1471-2105-15-70.

PMID:
24625071
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

On control of singleton attractors in multiple Boolean networks: integer programming-based method.

Qiu Y, Tamura T, Ching WK, Akutsu T.

BMC Syst Biol. 2014;8 Suppl 1:S7. doi: 10.1186/1752-0509-8-S1-S7. Epub 2014 Jan 24.

PMID:
24565276
[PubMed - in process]
Free PMC Article
8.

Prediction of protein-RNA residue-base contacts using two-dimensional conditional random field with the lasso.

Hayashida M, Kamada M, Song J, Akutsu T.

BMC Syst Biol. 2013;7 Suppl 2:S15. doi: 10.1186/1752-0509-7-S2-S15. Epub 2013 Dec 17.

PMID:
24564966
[PubMed - in process]
Free PMC Article
9.

Prediction of heterotrimeric protein complexes by two-phase learning using neighboring kernels.

Ruan P, Hayashida M, Maruyama O, Akutsu T.

BMC Bioinformatics. 2014;15 Suppl 2:S6. doi: 10.1186/1471-2105-15-S2-S6. Epub 2014 Jan 24.

PMID:
24564744
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Proteome compression via protein domain compositions.

Hayashida M, Ruan P, Akutsu T.

Methods. 2014 Jun 1;67(3):380-5. doi: 10.1016/j.ymeth.2014.01.012. Epub 2014 Jan 29.

PMID:
24486717
[PubMed - in process]
11.

Breadth-first search approach to enumeration of tree-like chemical compounds.

Zhao Y, Hayashida M, Jindalertudomdee J, Nagamochi H, Akutsu T.

J Bioinform Comput Biol. 2013 Dec;11(6):1343007. doi: 10.1142/S0219720013430075. Epub 2013 Nov 21.

PMID:
24372036
[PubMed - in process]
12.

Evaluation of a co-extraction method for real-time PCR-based body fluid identification and DNA typing.

Watanabe K, Iwashima Y, Akutsu T, Sekiguchi K, Sakurada K.

Leg Med (Tokyo). 2014 Jan;16(1):56-9. doi: 10.1016/j.legalmed.2013.11.002. Epub 2013 Nov 19.

PMID:
24296038
[PubMed - in process]
13.

Distinct effects of alcohol consumption and smoking on genetic alterations in head and neck carcinoma.

Urashima M, Hama T, Suda T, Suzuki Y, Ikegami M, Sakanashi C, Akutsu T, Amagaya S, Horiuchi K, Imai Y, Mezawa H, Noya M, Nakashima A, Mafune A, Kato T, Kojima H.

PLoS One. 2013 Nov 20;8(11):e80828. doi: 10.1371/journal.pone.0080828. eCollection 2013.

PMID:
24278325
[PubMed - in process]
Free PMC Article
14.

Cascleave 2.0, a new approach for predicting caspase and granzyme cleavage targets.

Wang M, Zhao XM, Tan H, Akutsu T, Whisstock JC, Song J.

Bioinformatics. 2014 Jan 1;30(1):71-80. doi: 10.1093/bioinformatics/btt603. Epub 2013 Oct 21.

PMID:
24149049
[PubMed - indexed for MEDLINE]
15.

An improved satisfiability algorithm for nested canalyzing functions and its application to determining a singleton attractor of a Boolean network.

Melkman AA, Akutsu T.

J Comput Biol. 2013 Dec;20(12):958-69. doi: 10.1089/cmb.2013.0060. Epub 2013 Sep 28.

PMID:
24073923
[PubMed - indexed for MEDLINE]
16.

Achiral guest-induced chiroptical changes of a planar-chiral pillar[5]arene containing one π-conjugated unit.

Ogoshi T, Yamafuji D, Akutsu T, Naito M, Yamagishi TA.

Chem Commun (Camb). 2013 Oct 9;49(78):8782-4. doi: 10.1039/c3cc44672g.

PMID:
23963173
[PubMed]
17.

A trial of the utilization of stable isotope analysis for the estimation of the geographic origins of unidentified cadavers.

McLean SJ, Ikegaya H, Saukko PJ, Zheng HY, Akutsu T, Miyamori D, Ishikawa N, Sakurada K.

Forensic Sci Int. 2013 Oct 10;232(1-3):237.e1-5. doi: 10.1016/j.forsciint.2013.07.019. Epub 2013 Aug 2.

PMID:
23958556
[PubMed - indexed for MEDLINE]
18.

Flux balance impact degree: a new definition of impact degree to properly treat reversible reactions in metabolic networks.

Zhao Y, Tamura T, Akutsu T, Vert JP.

Bioinformatics. 2013 Sep 1;29(17):2178-85. doi: 10.1093/bioinformatics/btt364. Epub 2013 Jul 4.

PMID:
23828783
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Finding optimal control policy in probabilistic Boolean Networks with hard constraints by using integer programming and dynamic programming.

Chen X, Akutsu T, Tamura T, Ching WK.

Int J Data Min Bioinform. 2013;7(3):322-43.

PMID:
23819262
[PubMed - indexed for MEDLINE]
20.

Solvent- and achiral-guest-triggered chiral inversion in a planar chiral pseudo[1]catenane.

Ogoshi T, Akutsu T, Yamafuji D, Aoki T, Yamagishi TA.

Angew Chem Int Ed Engl. 2013 Jul 29;52(31):8111-5. doi: 10.1002/anie.201302675. Epub 2013 Jun 21. No abstract available.

PMID:
23794392
[PubMed]

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