Expression Atlas: gene and protein expression across multiple studies and organisms
Oliver Stegle; Alvis Brazma; Alfonso Munoz-Pomer Fuentes; Melissa Burke; Maria Keays; Y. Amy Tang; Matthew Geniza; Elisabet Barrera; Suhaib Mohammed; Andrew F. Jarnuczak; Nuno A. Fonseca; Wojciech Bazant; Pankaj Jaiswal; Robert Petryszak; Justin Preece; Satu Koskinen; Wolfgang Huber; Laura Huerta; Nancy George; Anja Fullgrabe; rene Papatheodorou; Juan Antonio Vizcaino
Expression Atlas: gene and protein expression across multiple studies and organisms
Oliver Stegle
Alvis Brazma
Alfonso Munoz-Pomer Fuentes
Melissa Burke
Maria Keays
Y. Amy Tang
Matthew Geniza
Elisabet Barrera
Suhaib Mohammed
Andrew F. Jarnuczak
Nuno A. Fonseca
Wojciech Bazant
Pankaj Jaiswal
Robert Petryszak
Justin Preece
Satu Koskinen
Wolfgang Huber
Laura Huerta
Nancy George
Anja Fullgrabe
rene Papatheodorou
Juan Antonio Vizcaino
OXFORD UNIV PRESS
Julkaisun pysyvä osoite on:
https://urn.fi/URN:NBN:fi-fe2021042718842
https://urn.fi/URN:NBN:fi-fe2021042718842
Tiivistelmä
Expression Atlas (http://www.ebi.ac.uk/gxa) is an added value database that provides information about gene and protein expression in different species and contexts, such as tissue, developmental stage, disease or cell type. The available public and controlled access data sets from different sources are curated and re-analysed using standardized, open source pipelines and made available for queries, download and visualization. As of August 2017, Expression Atlas holds data from 3,126 studies across 33 different species, including 731 from plants. Data from large-scale RNA sequencing studies including Blueprint, PCAWG, ENCODE, GTEx and HipSci can be visualized next to each other. In Expression Atlas, users can query genes or gene-sets of interest and explore their expression across or within species, tissues, developmental stages in a constitutive or differential context, representing the effects of diseases, conditions or experimental interventions. All processed data matrices are available for direct download in tab-delimited format or as R-data. In addition to the web interface, data sets can now be searched and downloaded through the Expression Atlas R package. Novel features and visualizations include the on-the-fly analysis of gene set overlaps and the option to view gene co-expression in experiments investigating constitutive gene expression across tissues or other conditions.
Kokoelmat
- Rinnakkaistallenteet [19207]