Results
author = "Mar, Jessica C."
Decomposition of Gene Expression State Space Trajectories
Description :
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 programs that underlie these phenotypic changes and give rise to the coordi...
Repository :
Europe PubMed Central
Language(s) :
English
Defining an informativeness metric for clustering gene expression data
Description :
Motivation: Unsupervised ‘cluster’ analysis is an invaluable tool for exploratory microarray data analysis, as it organizes the data into groups of genes or samples in which the elements share common patterns. Once the data are clustered, finding the optimal number of informative subgroups within a ...
Repository :
Europe PubMed Central
Language(s) :
English
Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples
Description :
A simple model for assessing transcript levels based on Poisson statistics is proposed and validated by estimating the variance on gene expression levels as a function of the number of cells surveyed.
Repository :
Europe PubMed Central
Language(s) :
English
Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation
Description :
Abstract
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 and simulated protein-sequence data under conditi...
Repository :
DOAJ-Articles
Language(s) :
English
attract: A Method for Identifying Core Pathways That Define Cellular Phenotypes
Description :
attract is a knowledge-driven analytical approach for identifying and annotating the gene-sets that best discriminate between cell phenotypes. attract finds distinguishing patterns within pathways, decomposes pathways into meta-genes representative of these patterns, and then generates synexpression...
Repository :
Europe PubMed Central
Language(s) :
English
Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation
Description :
Repository :
Europe PubMed Central
Language(s) :
English
Epstein–Barr virus nuclear antigen 3C regulated genes in lymphoblastoid cell lines
Author(s) :
Zhao, Bo
,
Mar, Jessica C.
,
Maruo, Seiji
,
Lee, Sungwook
,
Gewurz, Benjamin E.
,
Johannsen, Eric
,
Holton, Kristina
,
Rubio, Renee
Description :
EBV nuclear antigen 3C (EBNA3C) is an essential transcription factor for EBV transformed lymphoblast cell line (LCL) growth. To identify EBNA3C-regulated genes in LCLs, microarrays were used to measure RNA abundances in each of three different LCLs that conditionally express EBNA3C fused to a 4-OH-T...
Repository :
Europe PubMed Central
Language(s) :
English
Data-driven normalization strategies for high-throughput quantitative RT-PCR
Author(s) :
Mar Jessica C
,
Kimura Yasumasa
,
Schroder Kate
,
Irvine Katharine M
,
Hayashizaki Yoshihide
,
Suzuki Harukazu
,
Hume David
Description :
Abstract
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 technology allows the acquisition of profiles for a modera...
Repository :
DOAJ-Articles
Language(s) :
English
Data-driven normalization strategies for high-throughput quantitative RT-PCR
Author(s) :
Mar, Jessica C
,
Kimura, Yasumasa
,
Schroder, Kate
,
Irvine, Katharine M
,
Hayashizaki, Yoshihide
,
Suzuki, Harukazu
Description :
Repository :
Europe PubMed Central
Language(s) :
English
Variance of Gene Expression Identifies Altered Network Constraints in Neurological Disease
Author(s) :
Mar, Jessica C.
,
Matigian, Nicholas A.
,
Mackay-Sim, Alan
,
Mellick, George D.
,
Sue, Carolyn M.
,
Silburn, Peter A.
Description :
Gene expression analysis has become a ubiquitous tool for studying a wide range of human diseases. In a typical analysis we compare distinct phenotypic groups and attempt to identify genes that are, on average, significantly different between them. Here we describe an innovative approach to the anal...
Repository :
Europe PubMed Central
Language(s) :
English