PXD009844 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | regulatory changes induced by miR-223 in a monocyte/macrophage cell line. |
Description | We used a multi-omics approach combining transcriptomics, proteomics and metabolomics to study the impact of over-expression and inhibition of the microRNA miR-223, a pleiotropic regulator of metabolic-related disease, in the RAW monocyte-macrophage cell line. We analyzed the levels of proteins, mRNAs, and metabolites in order to identify genes involved in miR-223 regulation, to determine candidate disease biomarkers and potential therapeutic targets. We observed that both up- and down-regulation of miR-223 induced profound changes in the mRNA, protein and metabolite profiles in RAW cells. Microarray-based transcriptomics evidenced a change in 120 genes that were linked predominantly to histone acetylation, bone remodeling and RNA regulation. In addition, 30 out the 120 genes encoded long noncoding RNAs. The nanoLC-MS/MS revealed that 52 proteins were significantly altered when comparing scramble, pre- and anti-miR-223 treatments. Sixteen out of the mRNAs coding these proteins genes are predicted to have binding sites for miR-223. CARM-1, Ube2g2, Cactin and Ndufaf4 were confirmed to be miR-223 targets by western blotting. Analyses using Gene Ontology annotations evidenced association with cell death, splicing and stability of mRNAs, bone remodeling and cell metabolism. miR-223 alteration changed the expression of CARM-1, Ube2g2, Cactin and Ndufaf4 during osteoclastogenesis and macrophage, indicating that these genes are potential biomarkers of these processes. The most important discriminant metabolites found in the metabolomics study were found to be hydrophilic amino acids, carboxylic acids linked to metabolism and pyrimidine nucleotides, indicating that changes in miR-223 expression alter the metabolic profile of cells, and may affect their apoptotic and proliferative state. |
HostingRepository | PRIDE |
AnnounceDate | 2021-03-29 |
AnnouncementXML | Submission_2021-03-29_10:02:28.371.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Chiara guerrera |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2018-05-21 01:43:51 | ID requested | |
⏵ 1 | 2021-03-29 10:02:28 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
curator keyword: Biological, Biomedical |
submitter keyword: bone differentiation, vascular, microRNA, gene regulation, multi-omics, miR-223 |
Contact List
Chiara Guerrera, |
contact affiliation | 3Plateforme Protéomique 3P5-Necker, Structure Fédérative de Recherche Necker and Université Paris Descartes, INSERM US24/CNRS UMS3633, Paris, |
contact email | chiara.guerrera@inserm.fr |
lab head | |
Chiara guerrera |
contact affiliation | Necker proteomics, INSERM |
contact email | chiara.guerrera@inserm.fr |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD009844
- Label: PRIDE project
- Name: regulatory changes induced by miR-223 in a monocyte/macrophage cell line.