Resources

“The goal is to turn data into information, and information into insight" - Carly Fiorina

Table of Contents

Genome Databases

Ensembl is a genome browser for most organisms enclosing infomation as: genes sequence and function; comparative genomics; evolution; sequence variation; transcriptional regulation.
Explore EnsemblGenomes for other organisms!
MicrobesOnline is a complete resource dedicated to microbes.

 

 

 

 

 

 

 

 

 

 

 

 

Multi-Omics Profiles

Genotype-Tissue Expression (GTEx) portal contains genotypes and transcriptome profiles of 53 non-diseased tissues from almost 1000 individuals, allwoing to study tissue-specific expression and regulations (eQTLs, sQTLs).

cBioportal integrates genomic, transcriptomic profiles of tumor biopsies with clinical information for all cancer types.
Aging Atlas provides user-friendly functionalities to explore age-related changes in gene expression
Single Cell Expression Atlas contains transcriptome profiles at single-cell level for several organisms

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Multi-Omics Data

Raw data for all organisms, but requires analysis!
GEO is a functional genomics data repository with raw data for all organisms containing data from: microarrays, RNAseq, ChIPseq, etc.
SRA is a high-throughput sequencing repository with raw data for all organisms. 
UCSC Genome Browser to interactively visualize pre-processed muti-omics data

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Drug Discovery

 

The Clue Command allows to depict the connectivity map for specific compounds or assess their effect in gene expression

 

 

The Clue Repurposing allows to explore ~5000 drugs to find potential drug repurposing opportunities to impreove disease treatments

 

 

 

 

Open Targets enables targets identification and prioritisation

 

 

 

 

 

 

 

Other useful tools

 

The Human Protein Atlas allows to search for specific genes/proteins enclosing: tissue expression; pathology; subcellular localization; metabolic; etc

 

 

 

 

The Database for Annotation, Visualization and Integrated Discovery (DAVID) provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large list of genes

 

 

 

 

 

 

miRWalk allows to search for miRNA-target interactions with a machine learning algorithm and experimenatlly verified interactions