PXD041859

PXD041859 is an original dataset announced via ProteomeXchange.

Title	Identification of potential protein biomarkers associated with congenital diaphragmatic hernia in human amniotic fluid
Description	Congenital diaphragmatic hernia (CDH) is a severe birth defect frequently associated with pulmonary hypoplasia, pulmonary hypertension, and heart failure. Since amniotic fluid comprises proteins of both fetal and maternal origin, its analysis could provide insights on mechanisms underlying CDH and provide biomarkers for early diagnosis, severity of pulmonary changes and response to treatment. The study objective was to identify proteomic changes in amniotic fluid consistently associated with CDH. Amniotic fluid was obtained at term (37-39 weeks) from women with normal pregnancies (n=5) or carrying fetuses with CDH (n=5). After immuno-depletion of the highest abundance proteins, off-line fractionation and high-resolution tandem mass spectrometry were performed and quantitative differences between the proteomes of the groups were determined. Of 1036 proteins identified, 218 were differentially abundant. Bioinformatics analysis showed significant changes in GP6 signaling, MSP-RON signaling in macrophages pathways and networks associated with cardiovascular system development and function, connective tissue disorders and dermatological conditions. Pulmonary surfactant protein B, osteopontin, kallikrein 5 and galectin 3 were investigated orthogonally using ELISA in larger cohorts to test the observed differences and showed statistically significant differences aiding in the prediction of CDH. The findings provide potential tools for improved clinical detection and management of CDH.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_09:13:39.857.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD041859
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Sumit Bhutada
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-27 14:18:51	ID requested
1	2023-11-03 09:18:54	announced
⏵ 2	2023-11-14 09:13:43	announced	2023-11-14: Updated project metadata.

10.6019/PXD041859;

Bhutada S, Tran-Lundmark K, Kramer B, Conner P, Lowry AM, Blackstone E, Frenckner B, Mesas-Burgos C, Apte SS, fluid. Sci Rep, 13(1):15483(2023) [pubmed]

submitter keyword: Surfactant Protein B, Osteopontin, Galectin-3,Amniotic fluid, kallikrein-5, Proteomics

Suneel Apte
contact affiliation	Cleveland Clinic
contact email	aptes@ccf.org
lab head
Sumit Bhutada
contact affiliation	Cleveland Clinic
contact email	bhutads@ccf.org
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD041859
     1. Label: PRIDE project
     2. Name: Identification of potential protein biomarkers associated with congenital diaphragmatic hernia in human amniotic fluid