Volume 11 Supplement 9

Selected Proceedings of the 2010 AMIA Summit on Translational Bioinformatics

Proceedings

Edited by Eneida A Mendoça

2010 AMIA Summit on Translational Bioinformatics.

San Francisco, CA, USA

10-12 March 2010

  1. Proceedings

    Mapping transcription mechanisms from multimodal genomic data

    Identification of expression quantitative trait loci (eQTLs) is an emerging area in genomic study. The task requires an integrated analysis of genome-wide single nucleotide polymorphism (SNP) data and gene exp...

    Hsun-Hsien Chang, Michael McGeachie, Gil Alterovitz and Marco F Ramoni

    BMC Bioinformatics 2010 11(Suppl 9):S2

    Published on: 28 October 2010

  2. Proceedings

    Multi-dimensional discovery of biomarker and phenotype complexes

    Given the rapid growth of translational research and personalized healthcare paradigms, the ability to relate and reason upon networks of bio-molecular and phenotypic variables at various levels of granularity...

    Philip RO Payne, Kun Huang, Kristin Keen-Circle, Abhisek Kundu, Jie Zhang and Tara B Borlawsky

    BMC Bioinformatics 2010 11(Suppl 9):S3

    Published on: 28 October 2010

  3. Proceedings

    Using gene co-expression network analysis to predict biomarkers for chronic lymphocytic leukemia

    Chronic lymphocytic leukemia (CLL) is the most common adult leukemia. It is a highly heterogeneous disease, and can be divided roughly into indolent and progressive stages based on classic clinical markers. Im...

    Jie Zhang, Yang Xiang, Liya Ding, Kristin Keen-Circle, Tara B Borlawsky, Hatice Gulcin Ozer, Ruoming Jin, Philip Payne and Kun Huang

    BMC Bioinformatics 2010 11(Suppl 9):S5

    Published on: 28 October 2010

  4. Proceedings

    Comparison of multiplex meta analysis techniques for understanding the acute rejection of solid organ transplants

    Combining the results of studies using highly parallelized measurements of gene expression such as microarrays and RNAseq offer unique challenges in meta analysis. Motivated by a need for a deeper understandin...

    Alexander A Morgan, Purvesh Khatri, Richard Hayden Jones, Minnie M Sarwal and Atul J Butte

    BMC Bioinformatics 2010 11(Suppl 9):S6

    Published on: 28 October 2010

  5. Proceedings

    Assessing the quality of annotations in asthma gene expression experiments

    The amount of data deposited in the Gene Expression Omnibus (GEO) has expanded significantly. It is important to ensure that these data are properly annotated with clinical data and descriptions of experimenta...

    Ronilda Lacson, Michael Mbagwu, Hisham Yousif and Lucila Ohno-Machado

    BMC Bioinformatics 2010 11(Suppl 9):S8

    Published on: 28 October 2010

  6. Proceedings

    Feasibility of incorporating genomic knowledge into electronic medical records for pharmacogenomic clinical decision support

    In pursuing personalized medicine, pharmacogenomic (PGx) knowledge may help guide prescribing drugs based on a person’s genotype. Here we evaluate the feasibility of incorporating PGx knowledge, combined with ...

    Casey Lynnette Overby, Peter Tarczy-Hornoch, James I Hoath, Ira J Kalet and David L Veenstra

    BMC Bioinformatics 2010 11(Suppl 9):S10

    Published on: 28 October 2010

  7. Proceedings

    Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models

    Mouse xenograft models, in which human cancer cells are implanted in immune-suppressed mice, have been popular for studying the mechanisms of novel therapeutic targets, tumor progression and metastasis. We hyp...

    Xinan Yang, Younghee Lee, Yong Huang, James L Chen, Rosie H Xing and Yves A Lussier

    BMC Bioinformatics 2010 11(Suppl 9):S11

    Published on: 28 October 2010

  8. Proceedings

    Assessment of genetic variation for the LINE-1 retrotransposon from next generation sequence data

    In humans, copies of the Long Interspersed Nuclear Element 1 (LINE-1) retrotransposon comprise 21% of the reference genome, and have been shown to modulate expression and produce novel splice isoforms of trans...

    Eric Rouchka, Diego E Montoya-Durango, Vilius Stribinskis, Kenneth Ramos and Ted Kalbfleisch

    BMC Bioinformatics 2010 11(Suppl 9):S12

    Published on: 28 October 2010