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Volume 13 Supplement 10

Selected articles from the 7th International Symposium on Bioinformatics Research and Applications (ISBRA'11)

Proceedings

Edited by Jianer Chen, Ion Mandoiu, Raj Sunderraman, Jianxin Wang and Alexander Zelikovsky

7th International Symposium on Bioinformatics Research and Applications (ISBRA'11). Go to conference site.

Changsha, China27-29 May 2011

  2. Identifying the location of binding sites on proteins is of fundamental importance for a wide range of applications including molecular docking, de novo drug design, structure identification and comparison of ...

    Authors: Fei Guo and Lusheng Wang
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S2
    Content type: Proceedings Published on:

  3. We contribute a novel, ball-histogram approach to DNA-binding propensity prediction of proteins. Unlike state-of-the-art methods based on constructing an ad-hoc set of features describing physicochemical properti...

    Authors: Andrea Szabóová, Ondřej Kuželka, Filip Železný and Jakub Tolar
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S3
    Content type: Proceedings Published on:

  4. Three-dimensional (3D) reconstruction in electron tomography (ET) has emerged as a leading technique to elucidate the molecular structures of complex biological specimens. Blob-based iterative methods are adva...

    Authors: Xiaohua Wan, Fa Zhang, Qi Chu and Zhiyong Liu
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S4
    Content type: Proceedings Published on:

  5. The maximum clique enumeration (MCE) problem asks that we identify all maximum cliques in a finite, simple graph. MCE is closely related to two other well-known and widely-studied problems: the maximum clique ...

    Authors: John D Eblen, Charles A Phillips, Gary L Rogers and Michael A Langston
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S5
    Content type: Proceedings Published on:

  6. Next-generation sequencing allows the analysis of an unprecedented number of viral sequence variants from infected patients, presenting a novel opportunity for understanding virus evolution, drug resistance an...

    Authors: Pavel Skums, Zoya Dimitrova, David S Campo, Gilberto Vaughan, Livia Rossi, Joseph C Forbi, Jonny Yokosawa, Alex Zelikovsky and Yury Khudyakov
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S6
    Content type: Proceedings Published on:

  7. A wealth of clustering algorithms has been applied to gene co-expression experiments. These algorithms cover a broad range of approaches, from conventional techniques such as k-means and hierarchical clustering, ...

    Authors: Jeremy J Jay, John D Eblen, Yun Zhang, Mikael Benson, Andy D Perkins, Arnold M Saxton, Brynn H Voy, Elissa J Chesler and Michael A Langston
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S7
    Content type: Proceedings Published on:

  8. Streptomycetes are filamentous soil-dwelling bacteria. They are best known as the producers of a great variety of natural products such as antibiotics, antifungals, antiparasitics, and anticancer agents and th...

    Authors: Zhan Zhou, Jianying Gu, Yong-Quan Li and Yufeng Wang
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S8
    Content type: Proceedings Published on:

  10. During their lifetime, microbes are exposed to environmental variations, each with its distinct spatio-temporal dynamics. Microbial communities display a remarkable degree of phenotypic plasticity, and highly-...

    Authors: Vadim Mozhayskiy and Ilias Tagkopoulos
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S10
    Content type: Proceedings Published on:

  11. Gene tree - species tree reconciliation problems infer the patterns and processes of gene evolution within a species tree. Gene tree parsimony approaches seek the evolutionary scenario that implies the fewest ...

    Authors: Ruchi Chaudhary, J Gordon Burleigh and Oliver Eulenstein
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S11
    Content type: Proceedings Published on:

  12. To infer a species phylogeny from unlinked genes, phylogenetic inference methods must confront the biological processes that create incongruence between gene trees and the species phylogeny. Intra-specific gen...

    Authors: Harris T Lin, J Gordon Burleigh and Oliver Eulenstein
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S12
    Content type: Proceedings Published on:

  14. Evolutionary methods are increasingly challenged by the wealth of fast growing resources of genomic sequence information. Evolutionary events, like gene duplication, loss, and deep coalescence, account more th...

    Authors: Pawel Górecki and Oliver Eulenstein
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S14
    Content type: Proceedings Published on:

  15. Analysis of gene expression data in terms of a priori-defined gene sets has recently received significant attention as this approach typically yields more compact and interpretable results than those produced ...

    Authors: Matěj Holec, Jiří Kléma, Filip Železný and Jakub Tolar
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S15
    Content type: Proceedings Published on:

  16. Biological networks provide fundamental insights into the functional characterization of genes and their products, the characterization of DNA-protein interactions, the identification of regulatory mechanisms,...

    Authors: Wen-Chieh Chang, Sudheer Vakati, Roland Krause and Oliver Eulenstein
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S16
    Content type: Proceedings Published on:

  17. Molecular predictor is a new tool for disease diagnosis, which uses gene expression to classify diagnostic category of a patient. The statistical challenge for constructing such a predictor is that there are t...

    Authors: Pingzhao Hu, Shelley B Bull and Hui Jiang
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S17
    Content type: Proceedings Published on:

  18. Stable evolutionary signal has been observed in a yeast protein-protein interaction (PPI) network. These finding suggests more connected regions of a PPI network to be potential mediators of evolutionary infor...

    Authors: Pavol Jancura, Eleftheria Mavridou, Enrique Carrillo-de Santa Pau and Elena Marchiori
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S18
    Content type: Proceedings Published on:

  19. Most computational algorithms mainly focus on detecting highly connected subgraphs in PPI networks as protein complexes but ignore their inherent organization. Furthermore, many of these algorithms are computa...

    Authors: Jieyue He, Chaojun Li, Baoliu Ye and Wei Zhong
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S19
    Content type: Proceedings Published on:

  20. Proteins that interact in vivo tend to reside within the same or "adjacent" subcellular compartments. This observation provides opportunities to reveal protein subcellular localization in the context of the pr...

    Authors: Jonathan Q Jiang and Maoying Wu
    Citation: BMC Bioinformatics 2012 13(Suppl 10):S20
    Content type: Proceedings Published on:
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