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158views Computer Vision» more  NAR 2011»
9 years 5 months ago
T1DBase: update 2011, organization and presentation of large-scale data sets for type 1 diabetes research
T1DBase ( is web platform, which supports the type 1 diabetes (T1D) community. It integrates genetic, genomic and expression data relevant to T1D research a...
Oliver S. Burren, Ellen C. Adlem, Premanand Achuth...
9 years 6 months ago
Proportion statistics to detect differentially expressed genes: a comparison with log-ratio statistics
Background: In genetic transcription research, gene expression is typically reported in a test sample relative to a reference sample. Laboratory assays that measure gene expressio...
Tracy L. Bergemann, Jason Wilson
96views more  TCBB 2010»
9 years 9 months ago
A Survey of Spatial Defects in Homo Sapiens Affymetrix GeneChips
Modern biology has moved from a science of individual measurements to a science where data are collected on an industrial scale. Foremost, among the new tools for biochemistry are ...
William B. Langdon, Graham J. G. Upton, Renata da ...
179views more  BMCBI 2010»
9 years 10 months ago
Circadian signatures in rat liver: from gene expression to pathways
Background: Circadian rhythms are 24 hour oscillations in many behavioural, physiological, cellular and molecular processes that are controlled by an endogenous clock which is ent...
Meric A. Ovacik, Siddharth Sukumaran, Richard R. A...
134views more  JIFS 2002»
10 years 2 months ago
Classification of gene expression data using fuzzy logic
Microarray technologies have allowed the measurement of expression of multiple genes simultaneously. Gene expression levels can be used to classify tissues into diagnostic or progn...
Lucila Ohno-Machado, Staal A. Vinterbo, Griffin We...
139views more  BMCBI 2004»
10 years 2 months ago
Resolution of large and small differences in gene expression using models for the Bayesian analysis of gene expression levels an
Background: The detection of small yet statistically significant differences in gene expression in spotted DNA microarray studies is an ongoing challenge. Meeting this challenge r...
Jeffrey P. Townsend
96views more  BMCBI 2005»
10 years 2 months ago
Comparison of codon usage measures and their applicability in prediction of microbial gene expressivity
Background: There are a number of methods (also called: measures) currently in use that quantify codon usage in genes. These measures are often influenced by other sequence proper...
Fran Supek, Kristian Vlahovicek
97views more  BMCBI 2005»
10 years 2 months ago
Phylogenetic reconstruction of ancestral character states for gene expression and mRNA splicing data
Background: As genomes evolve after speciation, gene content, coding sequence, gene expression, and splicing all diverge with time from ancestors with close relatives. A minimum e...
Roald Rossnes, Ingvar Eidhammer, David A. Liberles
180views more  BMCBI 2007»
10 years 2 months ago
Splicy: a web-based tool for the prediction of possible alternative splicing events from Affymetrix probeset data
Background: The Affymetrix™ technology is nowadays a well-established method for the analysis of gene expression profiles in cancer research studies. However, changes in gene ex...
Davide Rambaldi, Barbara Felice, Viviane Praz, Phi...
167views more  BMCBI 2007»
10 years 2 months ago
A stochastic differential equation model for transcriptional regulatory networks
Background: This work explores the quantitative characteristics of the local transcriptional regulatory network based on the availability of time dependent gene expression data se...
Adriana Climescu-Haulica, Michelle D. Quirk