Literature DB >> 15359425

An integrated comprehensive workbench for inferring genetic networks: voyagene.

Yukihiro Maki1, Yoriko Takahashi, Yuji Arikawa, Shoji Watanabe, Ken Aoshima, Yukihiro Eguchi, Takanori Ueda, Sachiyo Aburatani, Satoru Kuhara, Masahiro Okamoto.   

Abstract

We propose an integrated, comprehensive network-inferring system for genetic interactions, named VoyaGene, which can analyze experimentally observed expression profiles by using and combining the following five independent inferring models: Clustering, Threshold-Test, Bayesian, multi-level digraph and S-system models. Since VoyaGene also has effective tools for visualizing the inferred results, researchers may evaluate the combination of appropriate inferring models, and can construct a genetic network to an accuracy that is beyond the reach of a single inferring model. Through the use of VoyaGene, the present study demonstrates the effectiveness of combining different inferring models.

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Year:  2004        PMID: 15359425     DOI: 10.1142/s0219720004000727

Source DB:  PubMed          Journal:  J Bioinform Comput Biol        ISSN: 0219-7200            Impact factor:   1.122


  5 in total

1.  Validation of fractal-like kinetic models by time-resolved binding kinetics of dansylamide and carbonic anhydrase in crowded media.

Authors:  Kevin L Neff; Chetan P Offord; Ariel J Caride; Emanuel E Strehler; Franklyn G Prendergast; Zeljko Bajzer
Journal:  Biophys J       Date:  2011-05-18       Impact factor: 4.033

2.  A network biology approach evaluating the anticancer effects of bortezomib identifies SPARC as a therapeutic target in adult T-cell leukemia cells.

Authors:  Junko H Ohyashiki; Ryoko Hamamura; Chiaki Kobayashi; Yu Zhang; Kazuma Ohyashiki
Journal:  Adv Appl Bioinform Chem       Date:  2008-10-30

3.  Interactive network analysis of the plasma amino acids profile in a mouse model of hyperglycemia.

Authors:  Takayuki Tanaka; Taiga Mochida; Yukihiro Maki; Yasuko Shiraki; Hiroko Mori; Shirou Matsumoto; Kazutaka Shimbo; Toshihiko Ando; Kimitoshi Nakamura; Fumio Endo; Masahiro Okamoto
Journal:  Springerplus       Date:  2013-06-28

4.  An approach for dynamical network reconstruction of simple network motifs.

Authors:  Masahiko Nakatsui; Michihiro Araki; Akihiko Kondo
Journal:  BMC Syst Biol       Date:  2013-12-13

5.  Multi-layered network structure of amino acid (AA) metabolism characterized by each essential AA-deficient condition.

Authors:  N Shikata; Y Maki; Y Noguchi; M Mori; T Hanai; M Takahashi; M Okamoto
Journal:  Amino Acids       Date:  2006-10-13       Impact factor: 3.520

  5 in total

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