STATegra EMS: an Experiment Management System for complex next-generation omics experiments

Rafael Hernández-de-Diego, Noemi Boix-Chova, David Gómez-Cabrero, Jesper Tegner, Imad Abugessaisa, Ana Conesa

Research output: Contribution to journalArticlepeer-review

14 Scopus citations

Abstract

High-throughput sequencing assays are now routinely used to study different aspects of genome organization. As decreasing costs and widespread availability of sequencing enable more laboratories to use sequencing assays in their research projects, the number of samples and replicates in these experiments can quickly grow to several dozens of samples and thus require standardized annotation, storage and management of preprocessing steps. As a part of the STATegra project, we have developed an Experiment Management System (EMS) for high throughput omics data that supports different types of sequencing-based assays such as RNA-seq, ChIP-seq, Methyl-seq, etc, as well as proteomics and metabolomics data. The STATegra EMS provides metadata annotation of experimental design, samples and processing pipelines, as well as storage of different types of data files, from raw data to ready-to-use measurements. The system has been developed to provide research laboratories with a freely-available, integrated system that offers a simple and effective way for experiment annotation and tracking of analysis procedures.

Original languageEnglish (US)
Pages (from-to)S9
JournalBMC systems biology
Volume8
DOIs
StatePublished - Jan 1 2014

ASJC Scopus subject areas

  • Structural Biology
  • Modeling and Simulation
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics

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