PXD008243 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Detection of SEPs by MS |
Description | Identifying smORFs and SEPs is technically and computationally challenging. Experimentally, techniques as ribosome profiling (Ribo-Seq and mass spectroscopy (MS) are used. Ribo-Seq sequences the mRNA and does not provide the translated frame, thus identifying proteins encoded by overlapping ORFs is not feasible. Herein we have used MS to characterize smORFomes of different Mycoplasma species. This data is used to corroborate the predictions of a random forest classifier that in silico predicts all the putative SEPs encoded by different bacterial genomes. |
HostingRepository | PRIDE |
AnnounceDate | 2019-03-01 |
AnnouncementXML | Submission_2019-03-01_08:27:07.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Samuel Miravet Verde |
SpeciesList | scientific name: Mycoplasma pneumoniae; NCBI TaxID: 2104; scientific name: Mycoplasma hyopneumoniae; NCBI TaxID: 2099; scientific name: Mycoplasma mycoides; NCBI TaxID: 2102; scientific name: Mycoplasma capricolum; NCBI TaxID: 2095; scientific name: Mycoplasma genitalium; NCBI TaxID: 2097; scientific name: Mycoplasma gallisepticum str. R; NCBI TaxID: 233150; |
ModificationList | No PTMs are included in the dataset |
Instrument | LTQ Orbitrap Velos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-11-20 05:39:21 | ID requested | |
⏵ 1 | 2019-03-01 08:27:08 | announced | |
Publication List
Miravet-Verde S, Ferrar T, Espadas-Garc, í, a G, Mazzolini R, Gharrab A, Sabido E, Serrano L, Lluch-Senar M, Unraveling the hidden universe of small proteins in bacterial genomes. Mol Syst Biol, 15(2):e8290(2019) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: SEPs, Mycoplasma pneumoniae, Mycoplasma genitalium, Mycoplasma hyopneumoniae, Mycoplasma capricolum, Mycoplasma gallisepticum, Mycoplasma mycoides. |
Contact List
Luis Serrano |
contact affiliation | The Barcelona Institute of Science and Technology EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG) Dr. Aiguader 88 (Barcelona 08003, Spain) |
contact email | luis.serrano@crg.eu |
lab head | |
Samuel Miravet Verde |
contact affiliation | Centre for Genomic Regulation |
contact email | samuel.miravet@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/2019/03/PXD008243 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD008243
- Label: PRIDE project
- Name: Detection of SEPs by MS