Volume 5 Supplement 3

The 2010 International Conference on Bioinformatics and Computational Biology (BIOCOMP 2010): Systems Biology

Research

Edited by Ke Zhang, Yunlong Liu, Hamid R Arabnia

BIOCOMP 2010 - The 2010 International Conference on Bioinformatics and Computational Biology.

Las Vegas, NV, USA

12-15 July 2010

  1. Introduction

    From genes to networks: in systematic points of view

    We present a report of the BIOCOMP'10 - The 2010 International Conference on Bioinformatics & Computational Biology and other related work in the area of systems biology.

    Ke Zhang, Yunlong Liu, Jack Y Yang, Hamid R Arabnia, Andrzej Niemierko, Arif Ghafoor, Weizhong Li and Youping Deng

    BMC Systems Biology 2011 5(Suppl 3):I1

    Published on: 23 December 2011

  2. Research article

    Statistical methods on detecting differentially expressed genes for RNA-seq data

    For RNA-seq data, the aggregated counts of the short reads from the same gene is used to approximate the gene expression level. The count data can be modelled as samples from Poisson distributions with possibl...

    Zhongxue Chen, Jianzhong Liu, Hon Keung Tony Ng, Saralees Nadarajah, Howard L Kaufman, Jack Y Yang and Youping Deng

    BMC Systems Biology 2011 5(Suppl 3):S1

    Published on: 23 December 2011

  3. Research article

    Polytomy identification in microbial phylogenetic reconstruction

    A phylogenetic tree, showing ancestral relations among organisms, is commonly represented as a rooted tree with sets of bifurcating branches (dichotomies) for simplicity, although polytomies (multifurcating br...

    Guan Ning Lin, Chao Zhang and Dong Xu

    BMC Systems Biology 2011 5(Suppl 3):S2

    Published on: 23 December 2011

  4. Research article

    Biological network motif detection and evaluation

    Molecular level of biological data can be constructed into system level of data as biological networks. Network motifs are defined as over-represented small connected subgraphs in networks and they have been u...

    Wooyoung Kim, Min Li, Jianxin Wang and Yi Pan

    BMC Systems Biology 2011 5(Suppl 3):S5

    Published on: 23 December 2011

  5. Research article

    Mass segmentation using a combined method for cancer detection

    Breast cancer is one of the leading causes of cancer death for women all over the world and mammography is thought of as one of the main tools for early detection of breast cancer. In order to detect the breas...

    Jun Liu, Jianxun Chen, Xiaoming Liu, Lei Chun, Jinshan Tang and Youping Deng

    BMC Systems Biology 2011 5(Suppl 3):S6

    Published on: 23 December 2011

  6. Research article

    A transcriptional dynamic network during Arabidopsis thaliana pollen development

    To understand transcriptional regulatory networks (TRNs), especially the coordinated dynamic regulation between transcription factors (TFs) and their corresponding target genes during development, computationa...

    Jigang Wang, Xiaojie Qiu, Yuhua Li, Youping Deng and Tieliu Shi

    BMC Systems Biology 2011 5(Suppl 3):S8

    Published on: 23 December 2011

  7. Research article

    Bayesian parameter estimation for nonlinear modelling of biological pathways

    The availability of temporal measurements on biological experiments has significantly promoted research areas in systems biology. To gain insight into the interaction and regulation of biological systems, math...

    Omid Ghasemi, Merry L Lindsey, Tianyi Yang, Nguyen Nguyen, Yufei Huang and Yu-Fang Jin

    BMC Systems Biology 2011 5(Suppl 3):S9

    Published on: 23 December 2011

  8. Research article

    Integration of breast cancer gene signatures based on graph centrality

    Various gene-expression signatures for breast cancer are available for the prediction of clinical outcome. However due to small overlap between different signatures, it is challenging to integrate existing dis...

    Jianxin Wang, Gang Chen, Min Li and Yi Pan

    BMC Systems Biology 2011 5(Suppl 3):S10

    Published on: 23 December 2011

  9. Research article

    Kernelized partial least squares for feature reduction and classification of gene microarray data

    The primary objectives of this paper are: 1.) to apply Statistical Learning Theory (SLT), specifically Partial Least Squares (PLS) and Kernelized PLS (K-PLS), to the universal "feature-rich/case-poor" (also kn...

    Walker H Land, Xingye Qiao, Daniel E Margolis, William S Ford, Christopher T Paquette, Joseph F Perez-Rogers, Jeffrey A Borgia, Jack Y Yang and Youping Deng

    BMC Systems Biology 2011 5(Suppl 3):S13

    Published on: 23 December 2011

  10. Research article

    Leveraging social networks for understanding the evolution of epidemics

    To understand how infectious agents disseminate throughout a population it is essential to capture the social model in a realistic manner. This paper presents a novel approach to modeling the propagation of th...

    Gonzalo Martín, Maria-Cristina Marinescu, David E Singh and Jesús Carretero

    BMC Systems Biology 2011 5(Suppl 3):S14

    Published on: 23 December 2011