Expression Atlas update--a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments
Autor: | James Malone, Emma Hastings, Oliver Mannion, Robert Petryszak, Wolfgang Huber, Nataliya Kryvych, Alvis Brazma, Eleanor Williams, Helen Parkinson, Jan Taubert, John C. Marioni, Simon Jupp, Julie A. McMurry, Nuno A. Fonseca, Maria Keays, Y. Amy Tang, Karyn Megy, Mar Gonzàlez-Porta, Benedetto Fiorelli, Gabriella Rustici, Tony Burdett |
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Přispěvatelé: | Marioni, John [0000-0001-9092-0852], Megy, Karyn [0000-0002-2826-3879], Apollo - University of Cambridge Repository |
Rok vydání: | 2013 |
Předmět: |
Genetics
Internet Database Experimental factor ontology Sequence Analysis RNA Gene Expression Profiling Alternative splicing Proteins Genomics V. Human genome model organisms comparative genomics Biology computer.software_genre Gene expression profiling Gene expression Databases Genetic RNA Isoforms Microarray databases Humans computer Gene Functional genomics Oligonucleotide Array Sequence Analysis |
Zdroj: | Nucleic Acids Research Nucleic Acids Research; Vol 42 |
ISSN: | 1362-4962 |
Popis: | Expression Atlas (http://www.ebi.ac.uk/gxa) is a value-added database providing information about gene, protein and splice variant expression in different cell types, organism parts, developmental stages, diseases and other biological and experimental conditions. The database consists of selected high-quality microarray and RNA-sequencing experiments from ArrayExpress that have been manually curated, annotated with Experimental Factor Ontology terms and processed using standardized microarray and RNA-sequencing analysis methods. The new version of Expression Atlas introduces the concept of 'baseline' expression, i.e. gene and splice variant abundance levels in healthy or untreated conditions, such as tissues or cell types. Differential gene expression data benefit from an in-depth curation of experimental intent, resulting in biologically meaningful 'contrasts', i.e. instances of differential pairwise comparisons between two sets of biological replicates. Other novel aspects of Expression Atlas are its strict quality control of raw experimental data, up-to-date RNA-sequencing analysis methods, expression data at the level of gene sets, as well as genes and a more powerful search interface designed to maximize the biological value provided to the user. |
Databáze: | OpenAIRE |
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