PXD029697

PXD029697 is an original dataset announced via ProteomeXchange.

Title	Deep proteomic analysis of human hippocampus micro-sections provides a new avenue to identify hippocampal subfield heterogeneity in the protein expression
Description	Hippocampus has drawn an immense attention from researchers and clinicians worldwide due to its clinical importance in various neurodegenerative disorders. Each hippocampal subfield is known to perform distinct functions and are selectively vulnerable to environmental, physiological, and clinical factors. Therefore, proteomic analysis of hippocampus at subfield level is increasingly important, however, an in-depth proteomic analysis of human hippocampus at its subfield level is not well established to date. In this study, we compared the sub-proteome of the hippocampus- the cornu ammonis sectors (CA1, CA2, CA3 and CA4), and dentate gyrus (DG) from healthy adult human cohorts using high resolution mass spectrometry. We procured hippocampal subfields from the archived FFPE tissue sections by performing manual micro-dissection and conducted TMT label quantification-based proteomic analysis that resulted in the identification of 5,593 proteins, of which 890 proteins were differentially abundant at ≥1.5-fold cut-off across all subfields. Gene Ontology enrichment analysis was performed to uncover the biological processes, pathways and cellular localization associated with each subfield of hippocampus. IHC-based validation of selected proteins were also carried out in an independent set of hippocampus from normal subjects. We believe that our findings will effectively pave a way for further analysis of the hippocampal subdivisions and understand the etiopathology of many neurological disorders in future.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:32:03.606.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Keshava Prasad T. S.
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-11-12 05:56:23	ID requested
1	2022-10-14 02:12:55	announced
⏵ 2	2023-11-14 08:32:06	announced	2023-11-14: Updated project metadata.

Mol P, Gopalakrishnan L, Chatterjee O, Mangalaparthi KK, Kumar M, Durgad SS, Nair B, Shankar SK, Mahadevan A, Prasad TSK, Proteomic Analysis of Adult Human Hippocampal Subfields Demonstrates Regional Heterogeneity in the Protein Expression. J Proteome Res, 21(10):2293-2310(2022) [pubmed]

submitter keyword: subfields,Coronu ammonis, manual-microdissection, spliceosome, formalin fixed paraffin embedded tissue, immunohistochemistry, dentate gyrus

Dr. T. S. Keshava Prasad
contact affiliation	Professor and Deputy Director, Centre for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya (Deemed to be University), Mangalore 575018, India
contact email	keshav@yenepoya.edu.in
lab head
Keshava Prasad T. S.
contact affiliation	Institute of Bioinformatics, Bangalore, Karnataka, India.
contact email	keshav@ibioinformatics.org
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD029697
     1. Label: PRIDE project
     2. Name: Deep proteomic analysis of human hippocampus micro-sections provides a new avenue to identify hippocampal subfield heterogeneity in the protein expression