Volume 13 Supplement 7

Eleventh International Conference on Bioinformatics (InCoB2012): Computational Biology

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, Thailand

3-5 October 2012

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  1. Introduction

    Advances in translational bioinformatics and population genomics in the Asia-Pacific

    The theme of the 2012 International Conference on Bioinformatics (InCoB) in Bangkok, Thailand was "From Biological Data to Knowledge to Technological Breakthroughs." Besides providing a forum for life scientis...

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

    BMC Genomics 2012 13(Suppl 7):S1

    Published on: 13 December 2012

  2. Proceedings

    iLOCi: a SNP interaction prioritization technique for detecting epistasis in genome-wide association studies

    Genome-wide association studies (GWAS) do not provide a full account of the heritability of genetic diseases since gene-gene interactions, also known as epistasis are not considered in single locus GWAS. To ad...

    Jittima Piriyapongsa, Chumpol Ngamphiw, Apichart Intarapanich, Supasak Kulawonganunchai, Anunchai Assawamakin, Chaiwat Bootchai, Philip J Shaw and Sissades Tongsima

    BMC Genomics 2012 13(Suppl 7):S2

    Published on: 13 December 2012

  3. Proceedings

    Whole-genome sequencing and identification of Morganella morganii KT pathogenicity-related genes

    The opportunistic enterobacterium, Morganella morganii, which can cause bacteraemia, is the ninth most prevalent cause of clinical infections in patients at Changhua Christian Hospital, Taiwan. The KT strain of M...

    Yu-Tin Chen, Hwei-Ling Peng, Wei-Chung Shia, Fang-Rong Hsu, Chuian-Fu Ken, Yu-Ming Tsao, Chang-Hua Chen, Chun-Eng Liu, Ming-Feng Hsieh, Huang-Chi Chen, Chuan-Yi Tang and Tien-Hsiung Ku

    BMC Genomics 2012 13(Suppl 7):S4

    Published on: 13 December 2012

  4. Proceedings

    Quantitative assessment of mitochondrial DNA copies from whole genome sequencing

    Mitochondrial dysfunction is associated with various aging diseases. The copy number of mtDNA in human cells may therefore be a potential biomarker for diagnostics of aging. Here we propose a new computational...

    Hsueh-Ting Chu, William WL Hsiao, Theresa TH Tsao, Ching-Mao Chang, Yen-Wenn Liu, Chen-Chieh Fan, Han Lin, Hen-Hong Chang, Tze-Jung Yeh, Jen-Chih Chen, Dun-Ming Huang, Chaur-Chin Chen and Cheng-Yan Kao

    BMC Genomics 2012 13(Suppl 7):S5

    Published on: 13 December 2012

  5. Proceedings

    snpTree - a web-server to identify and construct SNP trees from whole genome sequence data

    The advances and decreasing economical cost of whole genome sequencing (WGS), will soon make this technology available for routine infectious disease epidemiology. In epidemiological studies, outbreak isolates...

    Pimlapas Leekitcharoenphon, Rolf S Kaas, Martin Christen Frølund Thomsen, Carsten Friis, Simon Rasmussen and Frank M Aarestrup

    BMC Genomics 2012 13(Suppl 7):S6

    Published on: 13 December 2012

  6. Proceedings

    Feasibility of using 454 pyrosequencing for studying quasispecies of the whole dengue viral genome

    Dengue is the world's most common mosquito-borne viral disease. Poor proofreading by RNA polymerase during its replication results in the accumulation of mutations in its genome. This leads to a diversity of g...

    Kwanrutai Chin-inmanu, Aroonroong Suttitheptumrong, Duangjai Sangsrakru, Sithichoke Tangphatsornruang, Somvong Tragoonrung, Prida Malasit, Sumalee Tungpradabkul and Prapat Suriyaphol

    BMC Genomics 2012 13(Suppl 7):S7

    Published on: 13 December 2012

  7. Proceedings

    FastAnnotator- an efficient transcript annotation web tool

    Recent developments in high-throughput sequencing (HTS) technologies have made it feasible to sequence the complete transcriptomes of non-model organisms or metatranscriptomes from environmental samples. The c...

    Ting-Wen Chen, Ruei-Chi Richie Gan, Timothy H Wu, Po-Jung Huang, Cheng-Yang Lee, Yi-Ywan M Chen, Che-Chun Chen and Petrus Tang

    BMC Genomics 2012 13(Suppl 7):S9

    Published on: 13 December 2012

  8. Proceedings

    Meta-analytical biomarker search of EST expression data reveals three differentially expressed candidates

    Researches have been conducted for the identification of differentially expressed genes (DEGs) by generating and mining of cDNA expressed sequence tags (ESTs) for more than a decade. Although the availability ...

    Timothy H Wu, Lichieh J Chu, Jian-Chiao Wang, Ting-Wen Chen, Yin-Jing Tien, Wen-Chang Lin and Wailap V Ng

    BMC Genomics 2012 13(Suppl 7):S12

    Published on: 13 December 2012

  9. Proceedings

    Computational discovery and RT-PCR validation of novel Burkholderia conserved and Burkholderia pseudomallei unique sRNAs

    The sRNAs of bacterial pathogens are known to be involved in various cellular roles including environmental adaptation as well as regulation of virulence and pathogenicity. It is expected that sRNAs may also h...

    Jia-Shiun Khoo, Shiao-Fei Chai, Rahmah Mohamed, Sheila Nathan and Mohd Firdaus-Raih

    BMC Genomics 2012 13(Suppl 7):S13

    Published on: 13 December 2012

  10. Proceedings

    Preferential regulation of stably expressed genes in the human genome suggests a widespread expression buffering role of microRNAs

    MicroRNAs (miRNAs) are a class of small noncoding RNAs that regulate the target gene expression at post-transcriptional level. They are widely involved in biological processes, such as embryonic development, c...

    Zhen Yang, Dong Dong, Zhaolei Zhang, M James C Crabbe, Li Wang and Yang Zhong

    BMC Genomics 2012 13(Suppl 7):S14

    Published on: 13 December 2012

  11. Proceedings

    A computational tool for the design of live attenuated virus vaccine based on microRNA-mediated gene silencing

    The microRNA-based gene-silencing machinery has been recognized as a promising approach to control viral replication and used for improving safety for the live attenuated virus vaccines. The effective host mic...

    Duangdao Wichadakul, Wuttichai Mhuantong, Anan Jongkaewwattana and Supawadee Ingsriswang

    BMC Genomics 2012 13(Suppl 7):S15

    Published on: 13 December 2012

  12. Proceedings

    C-mii: a tool for plant miRNA and target identification

    MicroRNAs (miRNAs) have been known to play an important role in several biological processes in both animals and plants. Although several tools for miRNA and target identification are available, the number of ...

    Somrak Numnark, Wuttichai Mhuantong, Supawadee Ingsriswang and Duangdao Wichadakul

    BMC Genomics 2012 13(Suppl 7):S16

    Published on: 13 December 2012

  13. Proceedings

    Comprehensive analysis of microRNAs in breast cancer

    MicroRNAs (miRNAs) are short noncoding RNAs (approximately 22 nucleotides in length) that play important roles in breast cancer progression by downregulating gene expression. The detailed mechanisms and biolog...

    Hong-Tai Chang, Sung-Chou Li, Meng-Ru Ho, Hung-Wei Pan, Luo-Ping Ger, Ling-Yueh Hu, Shou-Yu Yu, Wen-Hsiung Li and Kuo-Wang Tsai

    BMC Genomics 2012 13(Suppl 7):S18

    Published on: 13 December 2012

  14. Proceedings

    Blocking Protein kinase C signaling pathway: mechanistic insights into the anti-leishmanial activity of prospective herbal drugs from Withania somnifera

    Leishmaniasis is caused by several species of leishmania protozoan and is one of the major vector-born diseases after malaria and sleeping sickness. Toxicity of available drugs and drug resistance development ...

    Abhinav Grover, Shashank Prakash Katiyar, Jeyaraman Jeyakanthan, Vikash Kumar Dubey and Durai Sundar

    BMC Genomics 2012 13(Suppl 7):S20

    Published on: 13 December 2012

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