PXD047560-1
PXD047560 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Comparison of glioblastoma cell culture platforms based on transcriptional similarity with paired tissue |
| Description | In this study, we isolated GBM TSs and extracellular matrices (ECM) from tissues obtained from newly diagnosed IDH1 wild-type GBM patients, and cultured GBM TSs on five different culture platforms: (1) ordinary TS culture liquid media (LM), (2) collagen-based three-dimensional (3D) matrix, (3) patient normal ECM-based 3D matrix, (4) patient tumor ECM-based 3D matrix, and (5) mouse brain. To evaluate each culture platform, we obtained transcriptome data of all cultured GBM TSs using microarrays. The LM platform exhibited the most similar transcriptional program to paired tissues based on the four aspects, including GBM genes, stemness- and invasiveness-related genes, transcription factor activity, and canonical signaling pathways. GBM TSs can be cultured via an easy-to-handle, cost-efficient, and time-saving LM platform while preserving the transcriptional program of the originating tissues without supplementing artificially manipulated or patient-derived ECM or embedding into the mouse brain to imitate the tumor microenvironment of brain. In addition to applications in basic cancer research, GBM TSs cultured in LM may also serve as patient avatars in drug screening and pre-clinical evaluation of targeted therapy, and may function as a standardized and clinically relevant model for precision medicine owing to its scalability and reproducibility. |
| HostingRepository | MassIVE |
| AnnounceDate | 2023-12-28 |
| AnnouncementXML | Submission_2023-12-28_12:22:33.870.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | Hyejin Kim |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Oxidation; Carbamidomethyl |
| Instrument | Orbitrap Exploris 480 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-12-06 00:08:42 | ID requested | |
| ⏵ 1 | 2023-12-28 12:22:34 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: cell culture platform, transcriptional program |
Contact List
| Seok-Gu Kang | |
|---|---|
| contact affiliation | Yonsei University College of Medicine |
| contact email | seokgu9@gmail.com |
| lab head | |
| Pilnam Kim | |
| contact affiliation | Korea Advanced Institute of Science and Technology |
| contact email | pkim@kaist.ac.kr |
| lab head | |
| Hyejin Kim | |
| contact affiliation | Korea Advanced Institute of Science and Technology |
| contact email | hjkim2800@kaist.ac.kr |
| 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.ucsd.edu/MSV000093581/ |
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