Volume 6 Supplement 2

Second Annual MidSouth Computational Biology and Bioinformatics Society Conference. Bioinformatics: a systems approach

Proceedings

Edited by William Slikker, Jr and Jonathan D Wren

Second Annual MidSouth Computational Biology and Bioinformatics Society Conference. Bioinformatics: a systems approach. Go to conference site.

Little Rock, AR, USA

7-9 October 2004

  1. Proceedings

    CLU: A new algorithm for EST clustering

    The continuous flow of EST data remains one of the richest sources for discoveries in modern biology. The first step in EST data mining is usually associated with EST clustering, the process of grouping of ori...

    Andrey Ptitsyn and Winston Hide

    BMC Bioinformatics 2005 6(Suppl 2):S3

    Published on: 15 July 2005

  2. Proceedings

    Decision Forest Analysis of 61 Single Nucleotide Polymorphisms in a Case-Control Study of Esophageal Cancer; a novel method

    Systematic evaluation and study of single nucleotide polymorphisms (SNPs) made possible by high throughput genotyping technologies and bioinformatics promises to provide breakthroughs in the understanding of c...

    Qian Xie, Luke D Ratnasinghe, Huixiao Hong, Roger Perkins, Ze-Zhong Tang, Nan Hu, Philip R Taylor and Weida Tong

    BMC Bioinformatics 2005 6(Suppl 2):S4

    Published on: 15 July 2005

  3. Proceedings

    Quality control and quality assessment of data from surface-enhanced laser desorption/ionization (SELDI) time-of flight (TOF) mass spectrometry (MS)

    Proteomic profiling of complex biological mixtures by the ProteinChip technology of surface-enhanced laser desorption/ionization time-of-flight (SELDI-TOF) mass spectrometry (MS) is one of the most promising a...

    Huixiao Hong, Yvonne Dragan, Joshua Epstein, Candee Teitel, Bangzheng Chen, Qian Xie, Hong Fang, Leming Shi, Roger Perkins and Weida Tong

    BMC Bioinformatics 2005 6(Suppl 2):S5

    Published on: 15 July 2005

  4. Proceedings

    Bioinformatics approaches for cross-species liver cancer analysis based on microarray gene expression profiling

    The completion of the sequencing of human, mouse and rat genomes and knowledge of cross-species gene homologies enables studies of differential gene expression in animal models. These types of studies have the...

    H Fang, W Tong, R Perkins, L Shi, H Hong, X Cao, Q Xie, SH Yim, JM Ward, HC Pitot and YP Dragan

    BMC Bioinformatics 2005 6(Suppl 2):S6

    Published on: 15 July 2005

  5. Proceedings

    Evaluation of Glycine max mRNA clusters

    Clustering the ESTs from a large dataset representing a single species is a convenient starting point for a number of investigations into gene discovery, genome evolution, expression patterns, and alternativel...

    Ronald L Frank and Fikret Ercal

    BMC Bioinformatics 2005 6(Suppl 2):S7

    Published on: 15 July 2005

  6. Proceedings

    A microarray study of MPP+-treated PC12 Cells: Mechanisms of toxicity (MOT) analysis using bioinformatics tools

    This paper describes a microarray study including data quality control, data analysis and the analysis of the mechanism of toxicity (MOT) induced by 1-methyl-4-phenylpyridinium (MPP+) in a rat adrenal pheochromoc...

    Zengjun Xu, Tucker A Patterson, Jonathan D Wren, Tao Han, Leming Shi, Helen Duhart, Syed F Ali and William Slikker

    BMC Bioinformatics 2005 6(Suppl 2):S8

    Published on: 15 July 2005

  7. Proceedings

    CLPM: A Cross-Linked Peptide Mapping Algorithm for Mass Spectrometric Analysis

    Protein-protein, protein-DNA and protein-RNA interactions are of central importance in biological systems. Quadrapole Time-of-flight (Q-TOF) mass spectrometry is a sensitive, promising tool for studying these ...

    Yong Tang, Yingfeng Chen, Cheryl F Lichti, Roger A Hall, Kevin D Raney and Steven F Jennings

    BMC Bioinformatics 2005 6(Suppl 2):S9

    Published on: 15 July 2005

  8. Proceedings

    Reproducible Clusters from Microarray Research: Whither?

    In cluster analysis, the validity of specific solutions, algorithms, and procedures present significant challenges because there is no null hypothesis to test and no 'right answer'. It has been noted that a re...

    Nikhil R Garge, Grier P Page, Alan P Sprague, Bernard S Gorman and David B Allison

    BMC Bioinformatics 2005 6(Suppl 2):S10

    Published on: 15 July 2005

  9. Proceedings

    Microarray scanner calibration curves: characteristics and implications

    Microarray-based measurement of mRNA abundance assumes a linear relationship between the fluorescence intensity and the dye concentration. In reality, however, the calibration curve can be nonlinear.

    Leming Shi, Weida Tong, Zhenqiang Su, Tao Han, Jing Han, Raj K Puri, Hong Fang, Felix W Frueh, Federico M Goodsaid, Lei Guo, William S Branham, James J Chen, Z Alex Xu, Stephen C Harris, Huixiao Hong, Qian Xie…

    BMC Bioinformatics 2005 6(Suppl 2):S11

    Published on: 15 July 2005

  10. Proceedings

    Cross-platform comparability of microarray technology: Intra-platform consistency and appropriate data analysis procedures are essential

    The acceptance of microarray technology in regulatory decision-making is being challenged by the existence of various platforms and data analysis methods. A recent report (E. Marshall, Science, 306, 630–631, 2004...

    Leming Shi, Weida Tong, Hong Fang, Uwe Scherf, Jing Han, Raj K Puri, Felix W Frueh, Federico M Goodsaid, Lei Guo, Zhenqiang Su, Tao Han, James C Fuscoe, Z aAlex Xu, Tucker A Patterson, Huixiao Hong, Qian Xie…

    BMC Bioinformatics 2005 6(Suppl 2):S12

    Published on: 15 July 2005