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GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins

High-throughput technologies generate a tremendous amount of expression data on mRNA, miRNA and protein levels. Mining and visualizing the large amount of expression data requires sophisticated computational skills. An easy to use and user-friendly web-server for the visualization of gene expression...

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Detalles Bibliográficos
Autores principales: Xia, Mengxuan, Liu, Chun-Jie, Zhang, Qiong, Guo, An-Yuan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6678772/
https://www.ncbi.nlm.nih.gov/pubmed/31277321
http://dx.doi.org/10.3390/cells8070675
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author Xia, Mengxuan
Liu, Chun-Jie
Zhang, Qiong
Guo, An-Yuan
author_facet Xia, Mengxuan
Liu, Chun-Jie
Zhang, Qiong
Guo, An-Yuan
author_sort Xia, Mengxuan
collection PubMed
description High-throughput technologies generate a tremendous amount of expression data on mRNA, miRNA and protein levels. Mining and visualizing the large amount of expression data requires sophisticated computational skills. An easy to use and user-friendly web-server for the visualization of gene expression profiles could greatly facilitate data exploration and hypothesis generation for biologists. Here, we curated and normalized the gene expression data on mRNA, miRNA and protein levels in 23,315, 9009 and 9244 samples, respectively, from 40 tissues (The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GETx)) and 1594 cell lines (Cancer Cell Line Encyclopedia (CCLE) and MD Anderson Cell Lines Project (MCLP)). Then, we constructed the Gene Expression Display Server (GEDS), a web-based tool for quantification, comparison and visualization of gene expression data. GEDS integrates multiscale expression data and provides multiple types of figures and tables to satisfy several kinds of user requirements. The comprehensive expression profiles plotted in the one-stop GEDS platform greatly facilitate experimental biologists utilizing big data for better experimental design and analysis. GEDS is freely available online.
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spelling pubmed-66787722019-08-19 GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins Xia, Mengxuan Liu, Chun-Jie Zhang, Qiong Guo, An-Yuan Cells Data Descriptor High-throughput technologies generate a tremendous amount of expression data on mRNA, miRNA and protein levels. Mining and visualizing the large amount of expression data requires sophisticated computational skills. An easy to use and user-friendly web-server for the visualization of gene expression profiles could greatly facilitate data exploration and hypothesis generation for biologists. Here, we curated and normalized the gene expression data on mRNA, miRNA and protein levels in 23,315, 9009 and 9244 samples, respectively, from 40 tissues (The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GETx)) and 1594 cell lines (Cancer Cell Line Encyclopedia (CCLE) and MD Anderson Cell Lines Project (MCLP)). Then, we constructed the Gene Expression Display Server (GEDS), a web-based tool for quantification, comparison and visualization of gene expression data. GEDS integrates multiscale expression data and provides multiple types of figures and tables to satisfy several kinds of user requirements. The comprehensive expression profiles plotted in the one-stop GEDS platform greatly facilitate experimental biologists utilizing big data for better experimental design and analysis. GEDS is freely available online. MDPI 2019-07-03 /pmc/articles/PMC6678772/ /pubmed/31277321 http://dx.doi.org/10.3390/cells8070675 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Data Descriptor
Xia, Mengxuan
Liu, Chun-Jie
Zhang, Qiong
Guo, An-Yuan
GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title_full GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title_fullStr GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title_full_unstemmed GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title_short GEDS: A Gene Expression Display Server for mRNAs, miRNAs and Proteins
title_sort geds: a gene expression display server for mrnas, mirnas and proteins
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6678772/
https://www.ncbi.nlm.nih.gov/pubmed/31277321
http://dx.doi.org/10.3390/cells8070675
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