Table 1 Overview about publicly available omic data resources
From: New perspectives: systems medicine in cardiovascular disease
Name | Description | URL | Reference |
|---|---|---|---|
1000 Genomesproject | The goal of the 1000 genomes project was to find most genetic variants with frequencies of at least 1% in the populations studied | Â | |
ArrayExpress | Archive of functional genomics data stores data from high-throughput functional genomics experiments | Â | |
GEO Gene Expression Omnibus | Public functional genomics data repository supporting MIAME-compliant data submissions. Tools are provided to help users query and download experiments and curated gene expression profiles | Â | |
EBI Expression Atlas | Gene expression patterns under different conditions. Data sets are re-analyzed in-house to detect baseline and differential expression patterns | [103] | |
GXD The Mouse Gene Expression Database | Collection of gene expression data in rodents. Focus on development. | [104] | |
TCGA – The Cancer Genome Atlas | Aims to assess the value of large-scale multidimensional analysis of molecular characteristics in human cancer and to provide the data rapidly to the research community. | [53] | |
LINCS - The Library of Integrated Network-Based Cellular Signatures | Aims to create a network-based holistic understanding of biology by cataloging changes in gene expression and other cellular processes upon perturbation. | [57] | |
CCLE - The Cancer Cell Line Encyclopedia | A compilation of gene expression, chromosomal copy number and sequencing data from 947 human cancer cell lines with pharmacological profiles for 24 anticancer drugs across 479 of the cell lines. | [56] | |
PRIDE – PRoteomics IDEntifications | Repository for proteomics data, protein and peptide identifications and post-translational modifications. | [105] | |
COPaKB | Proteome biology platform specifically for cardiovascular research | [106] |