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. 2025 Jan 6;53(D1):D10-D19.
doi: 10.1093/nar/gkae1089.

EMBL's European Bioinformatics Institute (EMBL-EBI) in 2024

Matthew Thakur  1 , Catherine Brooksbank  1 , Robert D Finn  1 , Helen V Firth  2   3 , Julia Foreman  1 , Mallory Freeberg  1 , Kim T Gurwitz  1 , Melissa Harrison  1 , David Hulcoop  2   4 , Sarah E Hunt  1 , Andrew R Leach  1 , Mariia Levchenko  1 , Diana Marques  1 , Ellen M McDonagh  2   4 , Aziz Mithani  1 , Helen Parkinson  1 , Yasset Perez-Riverol  1 , Zinaida Perova  1 , Ugis Sarkans  1 , Santosh Tirunagari  1 , Eleni Tzampatzopoulou  1 , Aravind Venkatesan  1 , Juan-Antonio Vizcaino  1 , Benjamin Wingfield  1 , Barbara Zdrazil  1 , Johanna McEntyre  1
Affiliations

EMBL's European Bioinformatics Institute (EMBL-EBI) in 2024

Matthew Thakur et al. Nucleic Acids Res. .

Abstract

The European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI is one of six sites of the European Molecular Biology Laboratory, Europe's only intergovernmental life sciences organization. This overview summarizes the latest developments in services that EMBL-EBI data resources provide to scientific communities globally (https://www.ebi.ac.uk/services).

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Figures

Graphical Abstract
Graphical Abstract
Figure 1.
Figure 1.
Cumulative volumes of data depositions into EMBL-EBI archival data resources in Terabytes. Note the log scale (base 10). Genomics includes ENA, EGA and European Variation Archive. Bioimaging includes EMPIRE, BIA and EMDB. Multiomics includes PRIDE and MetaboLights. Generalist includes BioStudies.
Figure 2.
Figure 2.
Monthly average unique IP addresses visiting EMBL-EBI data resources between 2018 and 2023.
Figure 3.
Figure 3.
Density plots of PGSs show PGSs are confounded by genetic ancestry. A PGS is the weighted sum of effect allele dosages multiplied by their effect weight (A, SUM). The PGS Catalog Calculator also includes PCA-based adjustment methods to normalize PGS mean (B, Z_norm1) and mean + variance (C, Z_norm2). Population labels represent similarity to super-population labels in a reference panel (e.g. SAS means similar to the South Asian population descriptor in 1000 Genomes).
Figure 4.
Figure 4.
DECIPHER contextualizes genotypic and phenotypic data. Examples shown are for PTEN. (A) Protein browser, including AlphaFold predicted 3D structure. (B) Matching sequence variant interface. (C) MaveDB data. (D) Ensembl VEP annotations.
Figure 5.
Figure 5.
Target attributes page in the Open Targets Platform for prioritizing targets associated with Alzheimer disease.
Figure 6.
Figure 6.
Distribution of biological entity types in text-based supplemental files within BioStudies database (left hand grouped bars) and in corresponding full text publications within Europe PMC (right hand grouped bars). Data accessed via Europe PMC Annotations API on 15 August 2024.
See this image and copyright information in PMC

References

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