PXD008243-1

PXD008243 is an original dataset announced via ProteomeXchange.

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

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-20 05:39:21	ID requested
⏵ 1	2019-03-01 08:27:08	announced

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]

curator keyword: Biological

submitter keyword: SEPs, Mycoplasma pneumoniae, Mycoplasma genitalium, Mycoplasma hyopneumoniae, Mycoplasma capricolum, Mycoplasma gallisepticum, Mycoplasma mycoides.

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

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

• PRIDE
  1. PXD008243
     1. Label: PRIDE project
     2. Name: Detection of SEPs by MS