PXD016915

PXD016915 is an original dataset announced via ProteomeXchange.

Title	Impact of miRNAs on the USSC proteome after XXL-differentiation
Description	The contribution of microRNA-mediated posttranscriptional regulation on the final proteome in differentiating cells remains elusive. Here, we evaluated the impact of microRNAs (miRNAs) on the proteome of human umbilical cord blood-derived unrestricted somatic stem cells (USSC) during retinoic acid (RA) differentiation by a systemic approach using next generation sequencing analysing mRNA and miRNA expression and quantitative mass spectrometry-based proteome analyses. Interestingly, regulation of mRNAs and their dedicated proteins highly correlated during RA-incubation. Additionally, RA-induced USSC demonstrated a clear separation from native USSC thereby shifting from a proliferating to a metabolic phenotype. Bioinformatic integration of up- and downregulated miRNAs and proteins initially implied a strong impact of the miRNome on the XXL-USSC proteome. However, quantitative proteome analysis of the miRNA contribution on the final proteome after ectopic overexpression of downregulated miR-27a-5p and miR-221-5p or inhibition of upregulated miR-34a-5p, respectively, followed by RA-induction revealed only minor proportions of differentially abundant proteins. In addition, only small overlaps of these regulated proteins with inversely abundant proteins in non-transfected RA-treated USSC were observed. Hence, mRNA transcription rather than miRNA-mediated regulation is the driving force for protein regulation upon RA-incubation, strongly suggesting that miRNAs are fine-tuning regulators rather than active primary switches during RA-induction of USSC.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:59:04.854.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jessica Schira-Heinen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	methionine oxidation with neutral loss of 80 Da; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-02 02:41:03	ID requested
1	2020-01-31 02:43:19	announced
2	2020-02-27 23:00:17	announced	2020-02-28: Updated publication reference for PubMed record(s): 32094412.
⏵ 3	2024-10-22 04:59:07	announced	2024-10-22: Updated project metadata.

Schira-Heinen J, Czapla A, Hendricks M, Kloetgen A, Wruck W, Adjaye J, K, ö, gler G, Werner M, ü, ller H, St, ü, hler K, Trompeter HI, Functional omics analyses reveal only minor effects of microRNAs on human somatic stem cell differentiation. Sci Rep, 10(1):3284(2020) [pubmed]

10.1038/s41598-020-60065-8;

submitter keyword: neuronal differentiation, human, microRNA,umbilical cord blood stem cells, retinoic acid, unrestricted somatic stem cells

Kai Stuehler
contact affiliation	Institute for Molecular Medicine I Medical Faculty Heinrich-Heine-University Duesseldorf Universitaetsstrasse 1 40225 Duesseldorf Germany
contact email	kai.stuehler@hhu.de
lab head
Jessica Schira-Heinen
contact affiliation	Heinrich Heine University Duesseldorf
contact email	j.schira@hhu.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/2020/01/PXD016915

PRIDE project URI

• PRIDE
  1. PXD016915
     1. Label: PRIDE project
     2. Name: Impact of miRNAs on the USSC proteome after XXL-differentiation