PXD007537 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Mycoplasma pneumoniae Gene Regulatory Network I |
Description | Determining the gene regulatory network of an organism is fundamental to achieving a global understanding of cell behavior. In general, studies of transcription regulation are limited to the annotated transcription factors, not considering other non-canonical regulators. Here we describe the first systematic analysis of the DNA-interactome of a bacterium with a minimal proteome (Mycoplasma pneumoniae). We first determined by DNA affinity chromatography and intact chromatin isolation all potential DNA binding proteins. We then mapped the DNA binding of these factors by ChIP-seq, as well as their functionality by gain- and loss-of-function experiments, by transcriptomics and proteomics. This identified new DNA binding proteins and novel regulators with moonlighting properties like proteases and metabolic enzymes and allowed to reconstruct the gene regulatory network. |
HostingRepository | PRIDE |
AnnounceDate | 2019-11-12 |
AnnouncementXML | Submission_2019-11-12_00:48:06.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Eva Yus |
SpeciesList | scientific name: Mycoplasma pneumoniae (strain ATCC 29342 / M129); NCBI TaxID: 272634; |
ModificationList | No PTMs are included in the dataset |
Instrument | LTQ Orbitrap Velos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-08-23 06:29:02 | ID requested | |
⏵ 1 | 2019-11-12 00:48:07 | announced | |
Publication List
Yus E, Llor, é, ns-Rico V, Mart, í, nez S, Gallo C, Eilers H, Bl, ö, tz C, St, ü, lke J, Lluch-Senar M, Serrano L, Determination of the Gene Regulatory Network of a Genome-Reduced Bacterium Highlights Alternative Regulation Independent of Transcription Factors. Cell Syst, 9(2):143-158.e13(2019) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Ttranscription factor, proteome, regulation, bacteria |
Contact List
Luis Serrano |
contact affiliation | Centre for Genomic Regulation |
contact email | luis.serrano@crg.eu |
lab head | |
Eva Yus |
contact affiliation | Centre for Genomic Regulation |
contact email | eva.yus@crg.eu |
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/2019/11/PXD007537 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD007537
- Label: PRIDE project
- Name: Mycoplasma pneumoniae Gene Regulatory Network I