PXD019893-3
PXD019893 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomics of the transition to naïve human pluripotency |
Description | Epigenetic reprogramming is a cancer hallmark but how it unfolds during early neoplastic events and its role in carcinogenesis and cancer progression is not fully understood. Here we show that resetting from primed to naïve human pluripotency results in acquisition of a DNA methylation landscape mirroring the cancer DNA methylome, with gradual hypermethylation of bivalent developmental genes. We hypothesised that unknown proteins and transcription factors play a role in the DNA hypermethylation process and analysed therefore the proteomics of the very early stages of the resetting process which involves overexpression of Nanog and Klf2. The samples analysed were Primed hESCs (Conventional stem cells), 72hours after induction and 1 week after induction, in triplicate. For our purposes we identified candidate transcription factors and subsequently knocked them down to test their involvement in the DNA hypermethylation (as described in the manuscript related to this data, Patani et al. Nature Communications). More broadly, we believe, this dataset is a useful resource for the wider community interested in pluripotency, resetting, reprogramming, cell identity transitions etc. Our results indicate that transition to naïve pluripotency and oncogenic transformation share common epigenetic trajectories, which implicates reprogramming and the pluripotency network as a central hub in cancer formation. |
HostingRepository | PRIDE |
AnnounceDate | 2020-07-13 |
AnnouncementXML | Submission_2020-08-27_08:24:23.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD019893 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Vinothini Rajeeve |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | phosphorylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2020-06-19 03:05:21 | ID requested | |
1 | 2020-07-12 23:54:27 | announced | |
2 | 2020-08-27 07:42:54 | announced | 2020-08-27: Updated publication reference for PubMed record(s): 32699299. |
⏵ 3 | 2020-08-27 08:24:24 | announced | 2020-08-27: Updated publication reference for PubMed record(s): 32699299. 2020-08-27: Updated publication reference for PubMed record(s): 32699299. |
4 | 2020-08-27 09:07:12 | announced | 2020-08-27: Updated publication reference for PubMed record(s): 32699299. 2020-08-27: Updated publication reference for PubMed record(s): 32699299. 2020-08-27: Updated publication reference for PubMed record(s): 32699299. |
Publication List
Patani H, Rushton MD, Higham J, Teijeiro SA, Oxley D, Cutillas P, Sproul D, Ficz G, ve human pluripotency mirrors pan-cancer DNA hypermethylation. Nat Commun, 11(1):3671(2020) [pubmed] |
Keyword List
submitter keyword: hESC, naive embryonic stem cells, resetting, epigenetics, DNA methylation, Transcription factors, reprogramming |
Contact List
Dr Pedro R Cutillas | |
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contact affiliation | Reader | Centre for Genomics and Computational Biology Barts Cancer Institute Queen Mary, University of London John Vane Science Centre, Charterhouse Square, London EC1M 6BQ Tel: +44 (0)20 7882 8266 |
contact email | p.cutillas@qmul.ac.uk |
lab head | |
Vinothini Rajeeve | |
contact affiliation | Centre for Haemato Oncology |
contact email | v.rajeeve@qmul.ac.uk |
dataset submitter |
Full Dataset Link List
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/2020/07/PXD019893 |
PRIDE project URI |
Repository Record List
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