The Human Protein Atlas project
The Human Protein Atlas is a Swedish-based program initiated in 2003 with the aim to map all the human proteins in cells, tissues and organs using integration of various omics technologies, including antibody-based imaging, transcriptomics, mass spectrometry-based proteomics and systems biology. All the data in the knowledge resource is open access to allow scientists both in academia and industry, as well as the general population, to freely access the data for exploration of the human proteome (www.proteinatlas.org). The database constitutes an important starting point for identification of tissue and cell type-specific expression patterns, and analysis for candidate proteins that may have implications for human biology in health and disease.
The Human Protein Atlas consists of ten separate sections, each focusing on a particular aspect of the genome-wide analysis of the human proteins. They include:
The Tissue section - distribution of the majority of the human proteins, across all major tissues and organs in the human body.
The Brain section - protein expression in the mammalian brain by integration of data from three mammalian species (human, pig and mouse).
The Single Cell Type section - expression levels of protein-coding genes in single human cell types.
The Tissue Cell Type section - predictions of cell type expression specificity within human tissues for all protein-coding genes.
The Pathology section - impact of protein levels on survival of cancer patients, across all major cancer types.
The Immune Cell section - expression level of proteins in the different cell types of human blood
The Blood Protein section - distribution of the proteins that are secreted from different cell types around the body.
The Subcellular section - subcellular location of proteins in single cells.
The Cell Line section - expression levels of protein-coding genes in various human cell lines.
- The Metabolic section - expression profiles of proteins in the context of the most curated human metabolic network.
The Human Protein Atlas project involves the joint efforts of several Swedish universities, including the Royal Institute of Technology, Uppsala University, Uppsala Akademiska University Hospital, Karolinska Institute and Chalmers University, as well as the national infrastructure SciLifeLab.
The Uppsala group, situated at the Rudbeck Laboratory and part of the Department of Immunology, Genetics and Pathology, Uppsala University, is in charge of generating antibody-based protein data for the Tissue Atlas and the Pathology Atlas. The Uppsala group is also involved in the Human Uterus Cell Atlas (HUTER) consortium (https://huter-hca.eu/project/), part of the international Human Cell Atlas (HCA) project (https://www.humancellatlas.org/). HUTER is a collaboration with research groups in Spain, United Kingdom and Estonia, and aims to create a single-cell and spatial reference map of the human uterus throughout the menstrual cycle and across lifespan.
Read more in the links below:
- Organization of the Human Protein Atlas in Uppsala
- Workflow in Human Protein Atlas
- Human Protein Atlas research projects in Uppsala
- Human Protein Atlas website
- Video/text of methods used in Human Protein Atlas