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March 31, 2023

[VIDEO] Talk: EMBL-EBI’s Expression Atlas: An open science resource for gene and protein expression | BioHIT - SKEL | The AI Lab

BioHIT | Biomedical and Health Informatics Team of SKEL | The AI Lab hosted invited speaker Dr. Irene Papatheodorou, leader of the Gene Expression team at the EMBL-European Bioinformatics Institute to deliver a talk titled EMBL-EBI’s Expression Atlas: An open science resource for gene and protein expression at the Institute of Informatics & Telecommunications (IIT), NCSR Demokritos on Monday 3 April 2023. 

The talk was held in hybrid mode, physically at the Lecture room of IIT (Building 26) and through zoom.

Watch the video of the talk here:

About the talk: The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein of interest is expressed. Expression Atlas brings together data from >4500 expression studies from >65 different species, across different conditions and tissues. It makes these data freely available in an easy to visualise form, after expert curation to accurately represent the intended experimental design, re-analysed via standardised pipelines that rely on open-source community developed tools. Each study’s metadata are annotated using ontologies. The data are re-analyzed with the aim of reproducing the original conclusions of the underlying experiments. Expression Atlas is currently divided into Bulk Expression Atlas and Single Cell Expression Atlas. Expression Atlas contains data from differential studies (microarray and bulk RNA-Seq) and baseline studies (bulk RNA-Seq and proteomics), whereas Single Cell Expression Atlas is currently dedicated to Single Cell RNA-Sequencing (scRNA-Seq) studies.

Short Bio: Dr. Irene Papatheodorou leads the Gene Expression team at EMBL-EBI, which focuses on gene expression analyses at tissue and single cell level across species. Her team delivers tools and services for the submission, archiving, analysis and visualisation of functional genomics experiments. After completing her degree in Genetics at University College London, Irene focused on Bioinformatics through her MSc and PhD studies at Imperial College.

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