Volume 9 Supplement 1

Asia Pacific Bioinformatics Network (APBioNet) Sixth International Conference on Bioinformatics (InCoB2007)


Edited by Shoba Ranganathan, Michael Gribskov and Tin Wee Tan

Sixth International Conference on Bioinformatics (InCoB2007). Go to conference site.

Hong Kong

27-30 August 2007

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  1. Introduction

    Bioinformatics research in the Asia Pacific: a 2007 update

    We provide a 2007 update on the bioinformatics research in the Asia-Pacific from the Asia Pacific Bioinformatics Network (APBioNet), Asia's oldest bioinformatics organisation set up in 1998. From 2002, APBioNe...

    Shoba Ranganathan, Michael Gribskov and Tin Wee Tan

    BMC Bioinformatics 2008 9(Suppl 1):S1

    Published on: 13 February 2008

  2. Proceedings

    SNP@Promoter: a database of human SNPs (Single Nucleotide Polymorphisms) within the putative promoter regions

    Analysis of single nucleotide polymorphism (SNP) is becoming a key research in genomics fields. Many functional analyses of SNPs have been carried out for coding regions and splicing sites that can alter prote...

    Byoung-Chul Kim, Woo-Yeon Kim, Daeui Park, Won-Hyong Chung, Kwang-sik Shin and Jong Bhak

    BMC Bioinformatics 2008 9(Suppl 1):S2

    Published on: 13 February 2008

  3. Proceedings

    Exploiting likely-positive and unlabeled data to improve the identification of protein-protein interaction articles

    Experimentally verified protein-protein interactions (PPI) cannot be easily retrieved by researchers unless they are stored in PPI databases. The curation of such databases can be made faster by ranking newly-...

    Richard Tzong-Han Tsai, Hsi-Chuan Hung, Hong-Jie Dai, Yi-Wen Lin and Wen-Lian Hsu

    BMC Bioinformatics 2008 9(Suppl 1):S3

    Published on: 13 February 2008

  4. Proceedings

    Towards ontology-driven navigation of the lipid bibliosphere

    The indexing of scientific literature and content is a relevant and contemporary requirement within life science information systems. Navigating information available in legacy formats continues to be a challe...

    Christopher JO Baker, Rajaraman Kanagasabai, Wee Tiong Ang, Anitha Veeramani, Hong-Sang Low and Markus R Wenk

    BMC Bioinformatics 2008 9(Suppl 1):S5

    Published on: 13 February 2008

  5. Proceedings

    In silico analysis of expressed sequence tags from Trichostrongylus vitrinus (Nematoda): comparison of the automated ESTExplorer workflow platform with conventional database searches

    The analysis of expressed sequence tags (EST) offers a rapid and cost effective approach to elucidate the transcriptome of an organism, but requires several computational methods for assembly and annotation. R...

    Shivashankar H Nagaraj, Robin B Gasser, Alasdair J Nisbet and Shoba Ranganathan

    BMC Bioinformatics 2008 9(Suppl 1):S10

    Published on: 13 February 2008

  6. Proceedings

    Analyzing the simplicial decomposition of spatial protein structures

    The fast growing Protein Data Bank contains the three-dimensional description of more than 45000 protein- and nucleic-acid structures today. The large majority of the data in the PDB are measured by X-ray crys...

    Rafael Ördög, Zoltán Szabadka and Vince Grolmusz

    BMC Bioinformatics 2008 9(Suppl 1):S11

    Published on: 13 February 2008

  7. Proceedings

    Improved general regression network for protein domain boundary prediction

    Protein domains present some of the most useful information that can be used to understand protein structure and functions. Recent research on protein domain boundary prediction has been mainly based on widely...

    Paul D Yoo, Abdur R Sikder, Bing Bing Zhou and Albert Y Zomaya

    BMC Bioinformatics 2008 9(Suppl 1):S12

    Published on: 13 February 2008

  8. Proceedings

    Functional site prediction selects correct protein models

    The prediction of protein structure can be facilitated by the use of constraints based on a knowledge of functional sites. Without this information it is still possible to predict which residues are likely to ...

    Vijayalakshmi Chelliah and William R Taylor

    BMC Bioinformatics 2008 9(Suppl 1):S13

    Published on: 13 February 2008

  9. Proceedings

    Modeling Escherichia coli signal peptidase complex with bound substrate: determinants in the mature peptide influencing signal peptide cleavage

    Type I signal peptidases (SPases) are essential membrane-bound serine proteases responsible for the cleavage of signal peptides from proteins that are translocated across biological membranes. The crystal stru...

    Khar Heng Choo, Joo Chuan Tong and Shoba Ranganathan

    BMC Bioinformatics 2008 9(Suppl 1):S15

    Published on: 13 February 2008

  10. Proceedings

    Preferential binding of allosteric modulators to active and inactive conformational states of metabotropic glutamate receptors

    Metabotropic glutamate receptors (mGluRs) are G protein coupled receptors that play important roles in synaptic plasticity and other neuro-physiological and pathological processes. Allosteric mGluR ligands are...

    Naveena Yanamala, Kalyan C Tirupula and Judith Klein-Seetharaman

    BMC Bioinformatics 2008 9(Suppl 1):S16

    Published on: 13 February 2008

  11. Proceedings

    Stability of the core domain of p53: insights from computer simulations

    The tumour suppressor protein p53 protein has a core domain that binds DNA and is the site for most oncogenic mutations. This domain is quite unstable compared to its homologs p63 and p73. Two key residues in ...

    Arumugam Madhumalar, Derek John Smith and Chandra Verma

    BMC Bioinformatics 2008 9(Suppl 1):S17

    Published on: 13 February 2008

  12. Proceedings

    Identification of human-to-human transmissibility factors in PB2 proteins of influenza A by large-scale mutual information analysis

    The identification of mutations that confer unique properties to a pathogen, such as host range, is of fundamental importance in the fight against disease. This paper describes a novel method for identifying a...

    Olivo Miotto, AT Heiny, Tin Wee Tan, J Thomas August and Vladimir Brusic

    BMC Bioinformatics 2008 9(Suppl 1):S18

    Published on: 13 February 2008

  13. Proceedings

    Hotspot Hunter: a computational system for large-scale screening and selection of candidate immunological hotspots in pathogen proteomes

    T-cell epitopes that promiscuously bind to multiple alleles of a human leukocyte antigen (HLA) supertype are prime targets for development of vaccines and immunotherapies because they are relevant to a large p...

    Guang Lan Zhang, Asif M Khan, Kellathur N Srinivasan, AT Heiny, KX Lee, Chee Keong Kwoh, J Thomas August and Vladimir Brusic

    BMC Bioinformatics 2008 9(Suppl 1):S19

    Published on: 13 February 2008

  14. Proceedings

    SynechoNET: integrated protein-protein interaction database of a model cyanobacterium Synechocystis sp. PCC 6803

    Cyanobacteria are model organisms for studying photosynthesis, carbon and nitrogen assimilation, evolution of plant plastids, and adaptability to environmental stresses. Despite many studies on cyanobacteria, ...

    Woo-Yeon Kim, Sungsoo Kang, Byoung-Chul Kim, Jeehyun Oh, Seongwoong Cho, Jong Bhak and Jong-Soon Choi

    BMC Bioinformatics 2008 9(Suppl 1):S20

    Published on: 13 February 2008

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