SUPR
Protein interactions with AlphaFold for Human Protein Atlas
Dnr:

NAISS 2025/5-230

Type:

NAISS Medium Compute

Principal Investigator:

Mathias Uhlen

Affiliation:

Kungliga Tekniska högskolan

Start Date:

2025-04-30

End Date:

2025-09-01

Primary Classification:

10203: Bioinformatics (Computational Biology) (Applications at 10610)

Allocation

Abstract

The Human Protein Atlas (HPA) is a Swedish-based program initiated in 2003 with the aim to map all the human proteins in cells, tissues, and organs using an integration of various omics technologies, including antibody-based imaging, antibody -and mass spectrometry-based proteomics, transcriptomics, and systems biology. All the data in the knowledge resource is open access to allow scientists both in academia and industry to freely access the data for exploration of the human proteome. The open access web resource is used by over 200 000 researchers every month. The Human Protein Atlas consortium is mainly funded by the Knut and Alice Wallenberg Foundation. Currently HPA consists of 8 resources and this specific project relates to the Structure & Interaction resource. This resource contains information about the three-dimensional structure of human proteins, as well as protein-protein interaction data based on several interaction databases. We have previously generated structures for a majority of the human protein-coding transcripts using AlphaFold2, and in this project we want to extend the Interaction part of the resource with scores and structures of protein-protein interactions based on AlphaFold3 for our consensus set of interactions. This to, if possible, use the scores as an independent measure of reliability and relevance of the consensus interactions. We will use AlphaFold v3 protein structure prediction software for this purpose.