Volume 13 Supplement 6

Selected articles from the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS) 2011

Research

Edited by Ranadip Pal, Yufei Huang and Yidong Chen

This supplement has not been supported by sponsorship or other external funding.

IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS) 2011. Go to conference site.

San Antonio, TX, USA

4-6 December 2011

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  1. Research

    A systematic model of the LC-MS proteomics pipeline

    Mass spectrometry is a complex technique used for large-scale protein profiling with clinical and pharmaceutical applications. While individual components in the system have been studied extensively, little wo...

    Youting Sun, Ulisses Braga-Neto and Edward R Dougherty

    BMC Genomics 2012 13(Suppl 6):S2

    Published on: 26 October 2012

  2. Research

    Boolean modeling and fault diagnosis in oxidative stress response

    Oxidative stress is a consequence of normal and abnormal cellular metabolism and is linked to the development of human diseases. The effective functioning of the pathway responding to oxidative stress protects...

    Sriram Sridharan, Ritwik Layek, Aniruddha Datta and Jijayanagaram Venkatraj

    BMC Genomics 2012 13(Suppl 6):S4

    Published on: 26 October 2012

  3. Research

    Application of Max-SAT-based ATPG to optimal cancer therapy design

    Cancer and other gene related diseases are usually caused by a failure in the signaling pathway between genes and cells. These failures can occur in different areas of the gene regulatory network, but can be a...

    Pey-Chang Kent Lin and Sunil P Khatri

    BMC Genomics 2012 13(Suppl 6):S5

    Published on: 26 October 2012

  4. Research

    A modulator based regulatory network for ERα signaling pathway

    Estrogens control multiple functions of hormone-responsive breast cancer cells. They regulate diverse physiological processes in various tissues through genomic and non-genomic mechanisms that result in activa...

    Heng-Yi Wu, Pengyue Zheng, Guanglong Jiang, Yunlong Liu, Kenneth P Nephew, Tim HM Huang and Lang Li

    BMC Genomics 2012 13(Suppl 6):S6

    Published on: 26 October 2012

  5. Research

    Assessing the gain of biological data integration in gene networks inference

    A current challenge in gene annotation is to define the gene function in the context of the network of relationships instead of using single genes. The inference of gene networks (GNs) has emerged as an approa...

    Fábio FR Vicente, Fabrício M Lopes, Ronaldo F Hashimoto and Roberto M Cesar

    BMC Genomics 2012 13(Suppl 6):S7

    Published on: 26 October 2012

  6. Research

    Reducing confounding and suppression effects in TCGA data: an integrated analysis of chemotherapy response in ovarian cancer

    Despite initial response in adjuvant chemotherapy, ovarian cancer patients treated with the combination of paclitaxel and carboplatin frequently suffer from recurrence after few cycles of treatment, and the un...

    Fang-Han Hsu, Erchin Serpedin, Tzu-Hung Hsiao, Alexander JR Bishop, Edward R Dougherty and Yidong Chen

    BMC Genomics 2012 13(Suppl 6):S13

    Published on: 26 October 2012

  7. Research

    Methods for high-throughput MethylCap-Seq data analysis

    Advances in whole genome profiling have revolutionized the cancer research field, but at the same time have raised new bioinformatics challenges. For next generation sequencing (NGS), these include data storag...

    Benjamin AT Rodriguez, David Frankhouser, Mark Murphy, Michael Trimarchi, Hok-Hei Tam, John Curfman, Rita Huang, Michael WY Chan, Hung-Cheng Lai, Deval Parikh, Bryan Ball, Sebastian Schwind, William Blum, Guido Marcucci, Pearlly Yan and Ralf Bundschuh

    BMC Genomics 2012 13(Suppl 6):S14

    Published on: 26 October 2012

  8. Research

    Pathway Distiller - multisource biological pathway consolidation

    One method to understand and evaluate an experiment that produces a large set of genes, such as a gene expression microarray analysis, is to identify overrepresentation or enrichment for biological pathways. B...

    Mark S Doderer, Zachry Anguiano, Uthra Suresh, Ravi Dashnamoorthy, Alexander JR Bishop and Yidong Chen

    BMC Genomics 2012 13(Suppl 6):S18

    Published on: 26 October 2012

  9. Research

    Atlas2 Cloud: a framework for personal genome analysis in the cloud

    Until recently, sequencing has primarily been carried out in large genome centers which have invested heavily in developing the computational infrastructure that enables genomic sequence analysis. The recent a...

    Uday S Evani, Danny Challis, Jin Yu, Andrew R Jackson, Sameer Paithankar, Matthew N Bainbridge, Adinarayana Jakkamsetti, Peter Pham, Cristian Coarfa, Aleksandar Milosavljevic and Fuli Yu

    BMC Genomics 2012 13(Suppl 6):S19

    Published on: 26 October 2012

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