title: A genecentric Human Protein Atlas for expression profiles based on antibodies.
abstract: An attractive path forward in proteomics is to experimentally annotate the human protein complement of the genome in a genecentric manner. Using antibodies, it might be possible to design protein-specific probes for a representative protein from every protein-coding gene and to subsequently use the antibodies for systematical analysis of cellular distribution and subcellular localization of proteins in normal and disease tissues. A new version (4.0) of the Human Protein Atlas has been developed in a genecentric manner with the inclusion of all human genes and splice variants predicted from genome efforts together with a visualization of each protein with characteristics such as predicted membrane regions, signal peptide, and protein domains and new plots showing the uniqueness (sequence similarity) of every fraction of each protein toward all other human proteins. The new version is based on tissue profiles generated from 6120 antibodies with more than five million immunohistochemistry-based images covering 5067 human genes, corresponding to approximately 25% of the human genome. Version 4.0 includes a putative list of members in various protein classes, both functional classes, such as kinases, transcription factors, G-protein-coupled receptors, etc., and project-related classes, such as candidate genes for cancer or cardiovascular diseases. The exact antigen sequence for the internally generated antibodies has also been released together with a visualization of the application-specific validation performed for each antibody, including a protein array assay, Western blot analysis, immunohistochemistry, and, for a large fraction, immunofluorescence-based confocal microscopy. New search functionalities have been added to allow complex queries regarding protein expression profiles, protein classes, and chromosome location. The new version of the protein atlas thus is a resource for many areas of biomedical research, including protein science and biomarker discovery.
authors.affiliation: Department of Proteomics, School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden.
authors.forename: Lisa
authors.initials: L
authors.lastname: Berglund
authors.forename: Erik
authors.initials: E
authors.lastname: Björling
authors.forename: Per
authors.initials: P
authors.lastname: Oksvold
authors.forename: Linn
authors.initials: L
authors.lastname: Fagerberg
authors.forename: Anna
authors.initials: A
authors.lastname: Asplund
authors.forename: Cristina Al-Khalili
authors.initials: CA
authors.lastname: Szigyarto
authors.forename: Anja
authors.initials: A
authors.lastname: Persson
authors.forename: Jenny
authors.initials: J
authors.lastname: Ottosson
authors.forename: Henrik
authors.initials: H
authors.lastname: Wernérus
authors.forename: Peter
authors.initials: P
authors.lastname: Nilsson
authors.forename: Emma
authors.initials: E
authors.lastname: Lundberg
authors.forename: Asa
authors.initials: A
authors.lastname: Sivertsson
authors.forename: Sanjay
authors.initials: S
authors.lastname: Navani
authors.forename: Kenneth
authors.initials: K
authors.lastname: Wester
authors.forename: Caroline
authors.initials: C
authors.lastname: Kampf
authors.forename: Sophia
authors.initials: S
authors.lastname: Hober
authors.forename: Fredrik
authors.initials: F
authors.lastname: Pontén
authors.forename: Mathias
authors.initials: M
authors.lastname: Uhlén
mesh_terms: D000906:Antibodies / Q000276:immunology*; D000941:Antigens / Q000032:analysis / Q000235:genetics / Q000276:immunology; D001271:Atlases as Topic; D016208:Databases, Factual; D020869:Gene Expression Profiling; D006801:Humans; D020543:Proteome / Q000032:analysis / Q000235:genetics / Q000276:immunology / Q000378:metabolism*
chemical_list: D000906:Antibodies; D000941:Antigens; D020543:Proteome