new Genevestigator publication

Published Date: September 4, 2014: GENEVESTIGATOR is an innovative online platform enabling researchers to globally explore public and proprietary expression data for research and clinical applications.

new publication in BioData Mining (08/2014)

Software article

ExpressionData - A public resource of high quality curated datasets representing gene expression across anatomy, development and experimental conditions

Philip ZimmermannStefan BleulerOliver LauleFlorian MartinNikolai V IvanovPrisca CampanoniKaren Oishi,Nicolas Lugon-MoulinMarkus WyssTomas Hruz and Wilhelm Gruissem

 

BioData Mining 2014, 7:18  doi:10.1186/1756-0381-7-18

Published: 31 August 2014

 

Abstract (provisional)

 

Reference datasets are often used to compare, interpret or validate experimental data and analytical methods. In the field of gene expression, several reference datasets have been published. Typically, they consist of individual baseline or spike-in experiments carried out in a single laboratory and representing a particular set of conditions. Here, we describe a new type of standardized datasets representative for the spatial and temporal dimensions of gene expression. They result from integrating expression data from a large number of globally normalized and quality controlled public experiments. Expression data is aggregated by anatomical part or stage of development to yield a representative transcriptome for each category. For example, we created a genome-wide expression dataset representing the FDA tissue panel across 35 tissue types. The proposed datasets were created for human and several model organisms and are publicly available at www.expressiondata.org.


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