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Volume 10 Supplement 1

The 2008 International Conference on Bioinformatics & Computational Biology (BIOCOMP'08)

Research

Edited by Youping Deng, Mary Qu Yang, Hamid R Arabnia, and Jack Y Yang

Publication of this supplement was made possible with support from the International Society of Intelligent Biological Medicine (ISIBM).

The 2008 International Conference on Bioinformatics & Computational Biology (BIOCOMP'08). Go to conference site.

Las Vegas, NV, USA14-17 July 2008

  1. The advent of high-throughput next generation sequencing technologies have fostered enormous potential applications of supercomputing techniques in genome sequencing, epi-genetics, metagenomics, personalized m...

    Authors: Mary Qu Yang, Brian D Athey, Hamid R Arabnia, Andrew H Sung, Qingzhong Liu, Jack Y Yang, Jinghe Mao and Youping Deng
    Citation: BMC Genomics 2009 10(Suppl 1):I1
  2. Gene expression time series array data has become a useful resource for investigating gene functions and the interactions between genes. However, the gene expression arrays are always mixed with noise, and man...

    Authors: Yadong Wang, Guohua Wang, Bo Yang, Haijun Tao, Jack Y Yang, Youping Deng and Yunlong Liu
    Citation: BMC Genomics 2009 10(Suppl 1):S2
  3. In the classification of Mass Spectrometry (MS) proteomics data, peak detection, feature selection, and learning classifiers are critical to classification accuracy. To better understand which methods are more...

    Authors: Qingzhong Liu, Andrew H Sung, Mengyu Qiao, Zhongxue Chen, Jack Y Yang, Mary Qu Yang, Xudong Huang and Youping Deng
    Citation: BMC Genomics 2009 10(Suppl 1):S3
  4. Human genes undergo various patterns of pre-mRNA splicing across different tissues. Such variation is primarily regulated by trans-acting factors that bind on exonic and intronic cis-acting RNA elements (CAEs). H...

    Authors: Xin Wang, Kejun Wang, Milan Radovich, Yue Wang, Guohua Wang, Weixing Feng, Jeremy R Sanford and Yunlong Liu
    Citation: BMC Genomics 2009 10(Suppl 1):S4
  5. The human genome has been extensively annotated with Gene Ontology for biological functions, but minimally computationally annotated for diseases.

    Authors: John D Osborne, Jared Flatow, Michelle Holko, Simon M Lin, Warren A Kibbe, Lihua (Julie) Zhu, Maria I Danila, Gang Feng and Rex L Chisholm
    Citation: BMC Genomics 2009 10(Suppl 1):S6
  6. Intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs) lack stable tertiary and/or secondary structure yet fulfills key biological functions. The recent recognition of IDPs and ID...

    Authors: Vladimir N Uversky, Christopher J Oldfield, Uros Midic, Hongbo Xie, Bin Xue, Slobodan Vucetic, Lilia M Iakoucheva, Zoran Obradovic and A Keith Dunker
    Citation: BMC Genomics 2009 10(Suppl 1):S7
  7. One of the most challenging tasks in the post-genomic era is to reconstruct the transcriptional regulatory networks. The goal is to reveal, for each gene that responds to a certain biological event, which tran...

    Authors: Jianhua Ruan, Youping Deng, Edward J Perkins and Weixiong Zhang
    Citation: BMC Genomics 2009 10(Suppl 1):S8
  8. The steadily increasing number of prokaryotic genomes has accelerated the study of genome evolution; in particular, the availability of sets of genomes from closely related bacteria has facilitated the explora...

    Authors: Jianying Gu, Jennifer Neary, Hong Cai, Audrey Moshfeghian, Stephen A Rodriguez, Timothy G Lilburn and Yufeng Wang
    Citation: BMC Genomics 2009 10(Suppl 1):S11
  9. Intrinsically disordered proteins lack stable structure under physiological conditions, yet carry out many crucial biological functions, especially functions associated with regulation, recognition, signaling ...

    Authors: Uros Midic, Christopher J Oldfield, A Keith Dunker, Zoran Obradovic and Vladimir N Uversky
    Citation: BMC Genomics 2009 10(Suppl 1):S12
  10. How gene duplication has influenced the evolution of gene networks is one of the core problems in evolution. Current duplication-divergence theories generally suggested that genes on the periphery of the netwo...

    Authors: Yong Huang, Ying Zheng, Zhixi Su and Xun Gu
    Citation: BMC Genomics 2009 10(Suppl 1):S14
  11. Inferring a gene regulatory network (GRN) from high throughput biological data is often an under-determined problem and is a challenging task due to the following reasons: (1) thousands of genes are involved i...

    Authors: Yuji Zhang, Jianhua Xuan, Benildo G de los Reyes, Robert Clarke and Habtom W Ressom
    Citation: BMC Genomics 2009 10(Suppl 1):S15
  12. In this study, we formulate a computational reaction model following a chemical kinetic theory approach to predict the binding rate constant for the siRNA-RISC complex formation reaction. The model allowed us ...

    Authors: Preetam Ghosh, Robert Dullea, James E Fischer, Tom G Turi, Ronald W Sarver, Chaoyang Zhang, Kalyan Basu, Sajal K Das and Bradley W Poland
    Citation: BMC Genomics 2009 10(Suppl 1):S17
  13. DNA repair genes provide an important contribution towards the surveillance and repair of DNA damage. These genes produce a large network of interacting proteins whose mRNA expression is likely to be regulated...

    Authors: Jens Lichtenberg, Edwin Jacox, Joshua D Welch, Kyle Kurz, Xiaoyu Liang, Mary Qu Yang, Frank Drews, Klaus Ecker, Stephen S Lee, Laura Elnitski and Lonnie R Welch
    Citation: BMC Genomics 2009 10(Suppl 1):S18
  14. Affymetrix GeneChip® high-density oligonucleotide arrays are widely used in biological and medical research because of production reproducibility, which facilitates the comparison of results between experiment ru...

    Authors: Zhongxue Chen, Monnie McGee, Qingzhong Liu, Megan Kong, Youping Deng and Richard H Scheuermann
    Citation: BMC Genomics 2009 10(Suppl 1):S19

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