⮝ Full datasets listing
PXD074419
PXD074419 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Deep phenotyping of ATDC5-derived in-vitro cartilage organoids |
| Description | Cartilage is characterized by a highly specialized extracellular matrix (ECM) secreted by chondrocytes and limited self-regenerative capacity. In-vivo investigations of chondrogenesis is limited by difficult and traumatic access in mammals, especially humans. While it is known for decades that disturbances of chondrocyte differentiation and changed cartilage ECM composition cause severe skeletal phenotypes in vertebrates, a detailed molecular understanding of chondrogenesis and cartilage ECM formation is still missing, especially in the context of human genetic skeletal diseases. ATDC5 cells have been used in the past to model chondrogenic differentiation, however, most studies have investigated few major cellular differentiation markers only, so that the composition of the secreted ECM as well as effects on the ATDC5 transcriptome upon differentiation are still unclear. Here, we performed time-resolved transcriptomic and ECM proteomic analyses of differentiating ATDC5 cells. Both datasets confirm the formation of a cartilage-like matrix with increasing expression of key chondrocyte genes over the course of differentiation. ECM proteomics further revealed several ECM components not previously reported in ATDC5 cells or the secreted ECM, encompassing collagens, proteoglycans, glycoproteins and secreted factors. Our findings provide a more detailed molecular characterization of ATDC5 chondrogenesis and highlight the potential of this model for ECM-focused studies. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-05-29 |
| AnnouncementXML | Submission_2026-05-29_00:54:33.096.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Stefan Tholen |
| SpeciesList | scientific name: Mus musculus; common name: house mouse; NCBI TaxID: 10090; |
| ModificationList | No PTMs are included in the dataset |
| Instrument | timsTOF fleX |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2026-02-12 23:21:45 | ID requested | |
| ⏵ 1 | 2026-05-29 00:54:33 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: Chondrogenesis, Cartilage, ATDC5, Extracellular matrix, Proteomics, DatasetType:Proteomics |
Contact List
| Dr. Miriam Schmidts | |
|---|---|
| contact affiliation | Medical Center, University of Freiburg |
| contact email | miriam.schmidts@uniklinik-freiburg.de |
| lab head | |
| Stefan Tholen | |
| contact affiliation | Uniklinik Freiburg |
| contact email | stefan.tholen@uniklinik-freiburg.de |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive-ftp.ucsd.edu/v12/MSV000100830/ |
