PXD020202

PXD020202 is an original dataset announced via ProteomeXchange.

Title	Proteomic and phosphoproteomic analysis identifies novel liver-related signaling in retinal pigment epithelial cells during epithelial-mesenchymal transition
Description	Epithelial–mesenchymal transition (EMT) of the retinal pigment epithelium (RPE) is associated with several potentially blinding retinal diseases. Proteomic and phosphoproteomic studies were performed on human induced pluripotent stem cell-derived RPE (hiPSC-RPE) monolayers to better understand the pathways mediating RPE EMT. EMT was induced by enzymatic dissociation of RPE monolayers from their culture substrate or by co-treatment with transforming growth factor beta (TGF-β) and tumor necrosis factor alpha (TNF-α) (TGNF). The proteome and phosphoproteome were analyzed at 1 hr post EMT induction to capture early events in kinase/phosphatase signaling cascades and at 12 hrs to define early changes in protein abundance. Pathway enrichment analysis revealed that TGNF and dissociation rapidly perturbed signaling in many of the same pathways, with striking similarity in the phosphoproteome at 1 hr. Surprisingly, functions related to liver cell proliferation and hyperplasia were strongly enriched in the phosphosites altered by both treatments at 1 hr and in protein abundance changes at 12 hrs. Hepatocyte Growth Factor-cMET signaling exhibited the strongest overall enrichment in both treatments. These signaling pathways may serve as suitable targets for the development of therapeutic strategies for the inhibition of RPE EMT, and thus may be targets for inhibiting progression of several debilitating visual diseases.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:30:08.890.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joseph Mertz
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-07-05 23:32:30	ID requested
1	2021-11-03 07:08:28	announced
⏵ 2	2024-10-22 05:30:09	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: retinal pigment epithelium (RPE), proteomics, TGFβ, Epithelial-mesenchymal translation (EMT), HGF,human induced pluripotent stem cells (hiPSC), phosphoproteomics, TNFα

Hui Zhang
contact affiliation	Department of Pathology, Johns Hopkins Medical School, USA
contact email	huizhang@jhu.edu
lab head
Joseph Mertz
contact affiliation	Johns Hopkins Medical School
contact email	joseph.mertz@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD020202
     1. Label: PRIDE project
     2. Name: Proteomic and phosphoproteomic analysis identifies novel liver-related signaling in retinal pigment epithelial cells during epithelial-mesenchymal transition