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, USA

14-17 July 2008

  1. Introduction

    High-throughput next-generation sequencing technologies foster new cutting-edge computing techniques in bioinformatics

    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...

    Mary Qu Yang, Brian D Athey, Hamid R Arabnia, Andrew H Sung, Qingzhong Liu, Jack Y Yang, Jinghe Mao and Youping Deng

    BMC Genomics 2009 10(Suppl 1):I1

    Published on: 7 July 2009

  2. Research

    Reconstruct gene regulatory network using slice pattern model

    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...

    Yadong Wang, Guohua Wang, Bo Yang, Haijun Tao, Jack Y Yang, Youping Deng and Yunlong Liu

    BMC Genomics 2009 10(Suppl 1):S2

    Published on: 7 July 2009

  3. Research

    Comparison of feature selection and classification for MALDI-MS data

    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...

    Qingzhong Liu, Andrew H Sung, Mengyu Qiao, Zhongxue Chen, Jack Y Yang, Mary Qu Yang, Xudong Huang and Youping Deng

    BMC Genomics 2009 10(Suppl 1):S3

    Published on: 7 July 2009

  4. Research

    Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing

    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...

    Xin Wang, Kejun Wang, Milan Radovich, Yue Wang, Guohua Wang, Weixing Feng, Jeremy R Sanford and Yunlong Liu

    BMC Genomics 2009 10(Suppl 1):S4

    Published on: 7 July 2009

  5. Research

    Annotating the human genome with Disease Ontology

    The human genome has been extensively annotated with Gene Ontology for biological functions, but minimally computationally annotated for diseases.

    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

    BMC Genomics 2009 10(Suppl 1):S6

    Published on: 7 July 2009

  6. Research

    Unfoldomics of human diseases: linking protein intrinsic disorder with diseases

    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...

    Vladimir N Uversky, Christopher J Oldfield, Uros Midic, Hongbo Xie, Bin Xue, Slobodan Vucetic, Lilia M Iakoucheva, Zoran Obradovic and A Keith Dunker

    BMC Genomics 2009 10(Suppl 1):S7

    Published on: 7 July 2009

  7. Research

    Energy profile and secondary structure impact shRNA efficacy

    RNA interference (RNAi) is a cellular mechanism in which a short/small double stranded RNA induces the degradation of its sequence specific target mRNA, leading to specific gene silencing. Since its discovery,...

    Hong Zhou and Xiao Zeng

    BMC Genomics 2009 10(Suppl 1):S9

    Published on: 7 July 2009

  8. Research

    Genomic and systems evolution in Vibrionaceae species

    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...

    Jianying Gu, Jennifer Neary, Hong Cai, Audrey Moshfeghian, Stephen A Rodriguez, Timothy G Lilburn and Yufeng Wang

    BMC Genomics 2009 10(Suppl 1):S11

    Published on: 7 July 2009

  9. Research

    Protein disorder in the human diseasome: unfoldomics of human genetic diseases

    Intrinsically disordered proteins lack stable structure under physiological conditions, yet carry out many crucial biological functions, especially functions associated with regulation, recognition, signaling ...

    Uros Midic, Christopher J Oldfield, A Keith Dunker, Zoran Obradovic and Vladimir N Uversky

    BMC Genomics 2009 10(Suppl 1):S12

    Published on: 7 July 2009

  10. Research

    Reverse engineering module networks by PSO-RNN hybrid modeling

    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...

    Yuji Zhang, Jianhua Xuan, Benildo G de los Reyes, Robert Clarke and Habtom W Ressom

    BMC Genomics 2009 10(Suppl 1):S15

    Published on: 7 July 2009

  11. Research

    Comparing 2-nt 3' overhangs against blunt-ended siRNAs: a systems biology based study

    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 ...

    Preetam Ghosh, Robert Dullea, James E Fischer, Tom G Turi, Ronald W Sarver, Chaoyang Zhang, Kalyan Basu, Sajal K Das and Bradley W Poland

    BMC Genomics 2009 10(Suppl 1):S17

    Published on: 7 July 2009

  12. Research

    Word-based characterization of promoters involved in human DNA repair pathways

    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...

    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

    BMC Genomics 2009 10(Suppl 1):S18

    Published on: 7 July 2009

Portable peer review

 The editors of BMC Genomics support initiatives that expedite the peer review process and are happy to consider manuscripts that have been reviewed in Axios Review or Peerage of Science. Please indicate in your cover letter if this applies to your manuscript.

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