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12 result(s) for 'author#Daron M Standley' within BMC

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  1. Macrophages represent the front lines of our immune system; they recognize and engulf pathogens or foreign particles thus initiating the immune response. Imaging macrophages presents unique challenges, as most...

    Authors: Robert J Milewski, Yutaro Kumagai, Katsumasa Fujita, Daron M Standley and Nicholas I Smith
    Citation: Immunome Research 2010 6:11
  2. Web services have become a key technology for bioinformatics, since life science databases are globally decentralized and the exponential increase in the amount of available data demands for efficient systems ...

    Authors: Toshiaki Katayama, Kazuharu Arakawa, Mitsuteru Nakao, Keiichiro Ono, Kiyoko F Aoki-Kinoshita, Yasunori Yamamoto, Atsuko Yamaguchi, Shuichi Kawashima, Hong-Woo Chun, Jan Aerts, Bruno Aranda, Lord Hendrix Barboza, Raoul JP Bonnal, Richard Bruskiewich, Jan C Bryne, José M Fernández…
    Citation: Journal of Biomedical Semantics 2010 1:8
  3. Many viruses contain genes that originate from their hosts. Some of these acquired genes give viruses the ability to interfere with host immune responses by various mechanisms. Genes of host origin that appear...

    Authors: Akira R Kinjo, Yutaro Kumagai, Huy Dinh, Osamu Takeuchi and Daron M Standley
    Citation: BMC Genomics 2011 12(Suppl 3):S21

    This article is part of a Supplement: Volume 12 Supplement 3

  4. Accurate prediction of antigenic epitopes is important for immunologic research and medical applications, but it is still an open problem in bioinformatics. The case for discontinuous epitopes is even worse - ...

    Authors: Shide Liang, Dandan Zheng, Daron M Standley, Bo Yao, Martin Zacharias and Chi Zhang
    Citation: BMC Bioinformatics 2010 11:381
  5. We introduce GASH, a new, publicly accessible program for structural alignment and superposition. Alignments are scored by the Number of Equivalent Residues (NER), a quantitative measure of structural similarity ...

    Authors: Daron M Standley, Hiroyuki Toh and Haruki Nakamura
    Citation: BMC Bioinformatics 2005 6:221
  6. Regulation of gene expression, protein synthesis, replication and assembly of many viruses involve RNA–protein interactions. Although some successful computational tools have been reported to recognize RNA bin...

    Authors: Michael Fernandez, Yutaro Kumagai, Daron M Standley, Akinori Sarai, Kenji Mizuguchi and Shandar Ahmad
    Citation: BMC Bioinformatics 2011 12(Suppl 13):S5

    This article is part of a Supplement: Volume 12 Supplement 13

  7. Construction of a reliable network remains the bottleneck for network-based protein function prediction. We built an artificial network model called protein overlap network (PON) for the entire genome of yeast...

    Authors: Shide Liang, Dandan Zheng, Daron M Standley, Huarong Guo and Chi Zhang
    Citation: BMC Systems Biology 2013 7:61
  8. Identification of cis- and trans-acting factors regulating gene expression remains an important problem in biology. Bioinformatics analyses of regulatory regions are hampered by several difficulties. One is that ...

    Authors: Alexis Vandenbon, Yutaro Kumagai, Shunsuke Teraguchi, Karlou Mar Amada, Shizuo Akira and Daron M Standley
    Citation: BMC Bioinformatics 2013 14:26
  9. In order to characterize mammalian intrinsically disordered domains (IDDs) we examined the patterns in their amino acid abundance as well as overrepresented local sequence motifs. We considered IDDs from mouse...

    Authors: Shunsuke Teraguchi, Ashwini Patil and Daron M Standley
    Citation: BMC Bioinformatics 2010 11(Suppl 7):S7

    This article is part of a Supplement: Volume 11 Supplement 7

  10. Recent studies have underscored the role of enhancers in defining cell type-specific transcriptomes. Cell type-specific enhancers are bound by combinations of shared and cell type-specific transcription factor...

    Authors: Alexis Vandenbon, Shunsuke Teraguchi, Osamu Takeuchi, Yutaka Suzuki and Daron M Standley
    Citation: BMC Genomics 2014 15(Suppl 10):S4

    This article is part of a Supplement: Volume 15 Supplement 10

  11. Multiple transcription factors (TFs) are involved in the generation of gene expression patterns, such as tissue-specific gene expression and pleiotropic immune responses. However, how combinations of TFs orche...

    Authors: Alexis Vandenbon, Yutaro Kumagai, Shizuo Akira and Daron M Standley
    Citation: BMC Genomics 2012 13(Suppl 7):S11

    This article is part of a Supplement: Volume 13 Supplement 7