title: Utilization of HPASubC for the Identification of Sinusoid-Specific Proteins in the Liver.
abstract: Mass spectrometry-based proteomes of human organs and tissues are powerful tools but fail to capture protein localization and expression at the cellular level. For example, the proteome signal in liver represents the combined protein expression across diverse cellular constituents that include hepatocytes, Kupffer cells, endothelial cells, and others. We utilized HPASubC and the Human Protein Atlas (HPA) to identify the sinusoidal component of protein liver expression to further subset and organize this homogeneous signal. We evaluated 51 109 liver images covering 13 197 proteins from the HPA and discovered 1054 proteins that were exclusive to sinusoidal cells. Sinusoidal staining patterns were identified in a Kupffer cell (n = 247), endothelial cell (n = 358), or lymphocyte (n = 86) specific pattern. Two-hundred and thirty-nine of these proteins were not present in the NextProt or Human Proteome Map liver data sets, potentially expanding our knowledge of the liver proteome. We additionally demonstrate unique endothelial cell expression patterns that distinguish between portal vein, hepatic artery, capillary sinusoids, and central vein regions. These findings significantly improve our understanding of the liver proteome with insight into the endothelial complexity across the hepatic vascular network.
authors.affiliation: Department of Pathology, Johns Hopkins University School of Medicine , 720 Rutland Avenue, Baltimore, Maryland 21205, United States.
authors.forename: Divine-Favour
authors.initials: DF
authors.lastname: Anene
authors.affiliation: Department of Pathology, Children's National Medical Center , 111 Michigan Avenue Northwest, Washington, D.C. 20010, United States.
authors.forename: Avi Z
authors.initials: AZ
authors.lastname: Rosenberg
authors.affiliation: Laboratory of Pathology, National Cancer Institute , Building 10, Room 2S235, MSC 1500, 10 Center Drive, Bethesda, Maryland 20892, United States.
authors.forename: David E
authors.initials: DE
authors.lastname: Kleiner
authors.affiliation: Department of Pathology, Johns Hopkins University School of Medicine , 720 Rutland Avenue, Baltimore, Maryland 21205, United States.|Department of Pathology, University of Colorado School of Medicine , Academic Office 1, Room L15-2109, 12631 East 17th Avenue, Aurora, Colorado 80045, United States.
authors.forename: Toby C
authors.initials: TC
authors.lastname: Cornish
authors.affiliation: Department of Pathology, Johns Hopkins University School of Medicine , 720 Rutland Avenue, Baltimore, Maryland 21205, United States.
authors.forename: Marc K
authors.initials: MK
authors.lastname: Halushka
mesh_terms: D002196:Capillaries / Q000737:chemistry*; D057225:Data Mining; D004730:Endothelium, Vascular / Q000737:chemistry; D006801:Humans; D007728:Kupffer Cells / Q000737:chemistry; D008099:Liver / Q000098:blood supply / Q000737:chemistry* / Q000166:cytology; D008214:Lymphocytes / Q000737:chemistry; D020543:Proteome / Q000032:analysis*
chemical_list: D020543:Proteome
keywords: HPASubC; Kupffer cell; endothelial cell; human protein atlas; liver; lymphocyte; proteome; tissue microarray