PXD029900

PXD029900 is an original dataset announced via ProteomeXchange.

Title	Proteome dataset of cultured human bone marrow derived stromal (stem) cells, adipocytes and osteoblasts
Description	Mesenchymal stromal stem cells (MSCs) gain increasing focus in the field of regenerative medicine due to their differentiational abilities into chondrocytes, adipocytes and osteoblastic cells. However, it is apparent that the transformation processes are extremely complex, cause cellular heterogeneity and need further insights into functional annotation. The aim of the study was to characterize differences between MSCs and cells after adipogenic or osteoblastic differentiation at the proteome level. For this, we analysed the proteome of isolated and cultured MSCs and after differentiation into adipogenic and osteoblastic cell lineages using electrospray ionization tandem mass spectrometry in data-independent acquisition mode. Protein inference and quantification was performed using deep neural networks in library free mode. By jointly using strict differential expression analysis and machine learning algorithms, two cell type specific marker protein panels for the osteoblastic and the adipocytic lineage were identified which allow for distinguishment of the three cell types.
HostingRepository	PRIDE
AnnounceDate	2022-03-25
AnnouncementXML	Submission_2022-03-25_08:57:08.359.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Thorben Sauer
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2021-11-24 06:22:58	ID requested
1	2022-03-25 02:30:33	announced
⏵ 2	2022-03-25 08:57:09	announced	2022-03-25: Updated publication reference for PubMed record(s): 35269711.

Sauer T, Facchinetti G, Kohl M, Kowal JM, Rozanova S, Horn J, Schmal H, Kwee I, Schulz AP, Hartwig S, Kassem M, Habermann JK, Gemoll T, Protein Expression of AEBP1, MCM4, and FABP4 Differentiate Osteogenic, Adipogenic, and Mesenchymal Stromal Stem Cells. Int J Mol Sci, 23(5):(2022) [pubmed]

submitter keyword: LC-MSMS, DIA, Human

Timo Gemoll
contact affiliation	Section for Translational Surgical Oncology and Biobanking, Department of Surgery, University of Lübeck and University Hospital Schleswig-Holstein, Campus Lübeck, Germany
contact email	timo.gemoll@uni-luebeck.de
lab head
Thorben Sauer
contact affiliation	Section for translational surgical oncology and biobanking
contact email	thorben.sauer@student.uni-luebeck.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/03/PXD029900

PRIDE project URI

• PRIDE
  1. PXD029900
     1. Label: PRIDE project
     2. Name: Proteome dataset of cultured human bone marrow derived stromal (stem) cells, adipocytes and osteoblasts