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The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling
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2015 (English)In: PLoS ONE, ISSN 1932-6203, E-ISSN 1932-6203, Vol. 10, no 12, e0145301Article in journal (Refereed) PublishedText
Abstract [en]

To understand functions and diseases of urinary bladder, it is important to define its molecular constituents and their roles in urinary bladder biology. Here, we performed genome-wide deep RNA sequencing analysis of human urinary bladder samples and identified genes upregulated in the urinary bladder by comparing the transcriptome data to those of all other major human tissue types. 90 protein-coding genes were elevated in the urinary bladder, either with enhanced expression uniquely in the urinary bladder or elevated expression together with at least one other tissue (group enriched). We further examined the localization of these proteins by immunohistochemistry and tissue microarrays and 20 of these 90 proteins were localized to the whole urothelium with a majority not yet described in the context of the urinary bladder. Four additional proteins were found specifically in the umbrella cells (Uroplakin 1a, 2, 3a, and 3b), and three in the intermediate/basal cells (KRT17, PCP4L1 and ATP1A4). 61 of the 90 elevated genes have not been previously described in the context of urinary bladder and the corresponding proteins are interesting targets for more in-depth studies. In summary, an integrated omics approach using transcriptomics and antibody-based profiling has been used to define a comprehensive list of proteins elevated in the urinary bladder.

Place, publisher, year, edition, pages
Public Library of Science , 2015. Vol. 10, no 12, e0145301
Keyword [en]
SQUAMOUS-CELL CARCINOMA, RNA-SEQ, EXPRESSION, UROTHELIUM, UROPLAKINS, GREMLIN, BIOLOGY, TRACT, SHH
National Category
Natural Sciences
Identifiers
URN: urn:nbn:se:kth:diva-180598DOI: 10.1371/journal.pone.0145301ISI: 000367092500037PubMedID: 26694548ScopusID: 2-s2.0-84957553823OAI: oai:DiVA.org:kth-180598DiVA: diva2:896168
Funder
Science for Life Laboratory - a national resource center for high-throughput molecular bioscienceKnut and Alice Wallenberg FoundationStockholm County Council
Note

QC 20160120

Available from: 2016-01-20 Created: 2016-01-19 Last updated: 2016-01-20Bibliographically approved

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Uhlen, Mathias
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Proteomics and NanobiotechnologyScience for Life Laboratory, SciLifeLab
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