Now showing items 1-5 of 5

    • Bayesian and Maximum Likelihood Phylogenetic Analyses of Protein Sequence Data Under Relative Branch-Length Differences and Model Violation 

      Mar, Jessica Cara; Harlow, Timothy J; Ragan, Mark A (BioMed Central, 2005)
      Background: Bayesian phylogenetic inference holds promise as an alternative to maximum likelihood, particularly for large molecular-sequence data sets. We have investigated the performance of Bayesian inference with empirical ...
    • Data-Driven Normalization Strategies for High-Throughput Quantitative RT-PCR 

      Mar, Jessica Cara; Kimura, Yasumasa; Schroder, Kate; Irvine, Katharine M; Hayashizaki, Yoshihide; Suzuki, Harukazu; Hume, David; Quackenbush, John (BioMed Central, 2009)
      Background: High-throughput real-time quantitative reverse transcriptase polymerase chain reaction (qPCR) is a widely used technique in experiments where expression patterns of genes are to be profiled. Current stage ...
    • Decomposition of Gene Expression State Space Trajectories 

      Mar, Jessica Cara; Quackenbush, John (Public Library of Science, 2009)
      Representing and analyzing complex networks remains a roadblock to creating dynamic network models of biological processes and pathways. The study of cell fate transitions can reveal much about the transcriptional regulatory ...
    • Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples 

      Mar, Jessica Cara; Rubio, Renee; Quackenbush, John (BioMed Central, 2006)
      Background: A great deal of interest has been generated by systems biology approaches that attempt to develop quantitative, predictive models of cellular processes. However, the starting point for all cellular gene ...
    • Therapeutic Implications of GIPC1 Silencing in Cancer 

      Chittenden, Thomas W.; Pak, Jane; Rubio, Renee; Holton, Kristina; Prendergast, Niall; Glinskii, Vladimir; Schwede, Mathew; Howe, Eleanor A.; Aryee, Martin; Sultana, Razvan; Lanahan, Anthony A.; Holmes, Chris; Cheng, Hailing; Cai, Yi; Culhane, Aedin; Bentink, Stefan; Mar, Jessica Cara; Taylor, Jennifer; Hahn, William C.; Zhao, Jean J.; Iglehart, James Dirk; Quackenbush, John (Public Library of Science, 2010)
      GIPC1 is a cytoplasmic scaffold protein that interacts with numerous receptor signaling complexes, and emerging evidence suggests that it plays a role in tumorigenesis. GIPC1 is highly expressed in a number of human ...