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Volume 13 Supplement 17

Eleventh International Conference on Bioinformatics (InCoB2012): Bioinformatics

Proceedings

Edited by Shoba Ranganathan, Christian Schönbach, Sissades Tongsima, Jonathan Chan and Tin Wee Tan

The articles in this supplement were supported by funding agencies as detailed in the Acknowledgement section of each article

Asia Pacific Bioinformatics Network (APBioNet) Eleventh International Conference on Bioinformatics (InCoB2012). Go to conference site.

Bangkok, Thailand3-5 October 2012

  1. Ten years ago when Asia-Pacific Bioinformatics Network held the first International Conference on Bioinformatics (InCoB) in Bangkok its theme was North-South Networking. At that time InCoB aimed to provide bio...

    Authors: Christian Schönbach, Sissades Tongsima, Jonathan Chan, Vladimir Brusic, Tin Wee Tan and Shoba Ranganathan
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S1
  2. Existing methods for predicting protein solubility on overexpression in Escherichia coli advance performance by using ensemble classifiers such as two-stage support vector machine (SVM) based classifiers and a nu...

    Authors: Hui-Ling Huang, Phasit Charoenkwan, Te-Fen Kao, Hua-Chin Lee, Fang-Lin Chang, Wen-Lin Huang, Shinn-Jang Ho, Li-Sun Shu, Wen-Liang Chen and Shinn-Ying Ho
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S3
  3. Rheumatoid arthritis (RA) is an autoimmune disease with unknown etiology. Anticitrullinated protein autoantibody has been documented as a highly specific autoantibody associated with RA. Protein arginine deimi...

    Authors: Chian Ying Teo, Steven Shave, Adam Leow Thean Chor, Abu Bakar Salleh, Mohd Basyaruddin Bin Abdul Rahman, Malcolm D Walkinshaw and Bimo A Tejo
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S4
  4. The RNA polymerase NS5B of Hepatitis C virus (HCV) is a well-characterised drug target with an active site and four allosteric binding sites. This work presents a workflow for virtual screening and its applica...

    Authors: Mahmoud ElHefnawi, Mohammad ElGamacy and Mohamed Fares
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S5
  5. Reverse docking approaches have been explored in previous studies on drug discovery to overcome some problems in traditional virtual screening. However, current reverse docking approaches are problematic in th...

    Authors: Minho Lee and Dongsup Kim
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S6
  6. Computational methods utilizing the structural and functional information help to understand specific molecular recognition events between the target biomolecule and candidate hits and make it possible to desi...

    Authors: B Jayaram, Tanya Singh, Goutam Mukherjee, Abhinav Mathur, Shashank Shekhar and Vandana Shekhar
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S7
  7. Prediction of biochemical (metabolic) pathways has a wide range of applications, including the optimization of drug candidates, and the elucidation of toxicity mechanisms. Recently, several methods have been d...

    Authors: Masaomi Nakamura, Tsuyoshi Hachiya, Yutaka Saito, Kengo Sato and Yasubumi Sakakibara
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S8
  8. Manual chemical data curation from publications is error-prone, time consuming, and hard to maintain up-to-date data sets. Automatic information extraction can be used as a tool to reduce these problems. Since...

    Authors: Atima Tharatipyakul, Somrak Numnark, Duangdao Wichadakul and Supawadee Ingsriswang
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S9
  9. Large-scale bioactivity/SAR Open Data has recently become available, and this has allowed new analyses and approaches to be developed to help address the productivity and translational gaps of current drug dis...

    Authors: Felix A Kruger, Raghd Rostom and John P Overington
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S11
  10. Biclustering has been utilized to find functionally important patterns in biological problem. Here a bicluster is a submatrix that consists of a subset of rows and a subset of columns in a matrix, and contains...

    Authors: Je-Gun Joung, Soo-Jin Kim, Soo-Yong Shin and Byoung-Tak Zhang
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S12
  11. Identification of subcellular localization in proteins is crucial to elucidate cellular processes and molecular functions in a cell. However, given a tremendous amount of sequence data generated in the post-ge...

    Authors: Emily Chia-Yu Su, Jia-Ming Chang, Cheng-Wei Cheng, Ting-Yi Sung and Wen-Lian Hsu
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S13
  12. Metamorphosis in insects transforms the larval into an adult body plan and comprises the destruction and remodeling of larval and the generation of adult tissues. The remodeling of larval into adult muscles pr...

    Authors: Rambabu Chinta, Joo Huang Tan and Martin Wasser
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S14
  13. Statistical model checking techniques have been shown to be effective for approximate model checking on large stochastic systems, where explicit representation of the state space is impractical. Importantly, t...

    Authors: Chuan Hock Koh, Sucheendra K Palaniappan, PS Thiagarajan and Limsoon Wong
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S15
  14. Current malaria diagnosis relies primarily on microscopic examination of Giemsa-stained thick and thin blood films. This method requires vigorously trained technicians to efficiently detect and classify the ma...

    Authors: Saowaluck Kaewkamnerd, Chairat Uthaipibull, Apichart Intarapanich, Montri Pannarut, Sastra Chaotheing and Sissades Tongsima
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S18
  15. When studying genetic diseases in which genetic variations are passed on to offspring, the ability to distinguish between paternal and maternal alleles is essential. Determining haplotypes from genotype data i...

    Authors: En-Yu Lai, Wei-Bung Wang, Tao Jiang and Kun-Pin Wu
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S19
  16. Prediction of B-cell epitopes from antigens is useful to understand the immune basis of antibody-antigen recognition, and is helpful in vaccine design and drug development. Tremendous efforts have been devoted...

    Authors: Liang Zhao, Limsoon Wong, Lanyuan Lu, Steven CH Hoi and Jinyan Li
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S20
  17. The definition of artificial immunity, realized through vaccinations, is nowadays a practice widely developed in order to eliminate cancer disease. The present paper deals with an improved version of a mathema...

    Authors: Carlo Bianca, Ferdinando Chiacchio, Francesco Pappalardo and Marzio Pennisi
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S21
  18. Bioinformatics services have been traditionally provided in the form of a web-server that is hosted at institutional infrastructure and serves multiple users. This model, however, is not flexible enough to cop...

    Authors: Mohamed El-Kalioby, Mohamed Abouelhoda, Jan Krüger, Robert Giegerich, Alexander Sczyrba, Dennis P Wall and Peter Tonellato
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S22
  19. The transcriptome of an organism can be studied with the analysis of expressed sequence tag (EST) data sets that offers a rapid and cost effective approach with several new and updated bioinformatics approache...

    Authors: Ranjeeta Menon, Gagan Garg, Robin B Gasser and Shoba Ranganathan
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S24
  20. Freshwater algae can be used as indicators to monitor freshwater ecosystem condition. Algae react quickly and predictably to a broad range of pollutants. Thus they provide early signals of worsening environmen...

    Authors: Mogeeb AA Mosleh, Hayat Manssor, Sorayya Malek, Pozi Milow and Aishah Salleh
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S25
  21. The Nymphaeales (waterlilly and relatives) lineage has diverged as the second branch of basal angiosperms and comprises of two families: Cabombaceae and Nymphaceae. The classification of Nymphaeales and phylog...

    Authors: Devendra Kumar Biswal, Manish Debnath, Shakti Kumar and Pramod Tandon
    Citation: BMC Bioinformatics 2012 13(Suppl 17):S26

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