PXD000621

PXD000621 is an original dataset announced via ProteomeXchange.

Title	Platelet Activation Results in Modulation of miRNA, mRNA, and Protein Expression Profiles: New Insights into the Pathophysiology of Platelet Activation
Description	Leucocytes-decontaminated platelet-rich plasma (PRP) from 15 healthy volunteers was collected and activated with collagen, or Thrombin Activator Receptor Peptide (TRAP). Total protein extracts (75 microg protein/sample), coming from two biological replicates, were precipitated using 2-D Clean Up Kit (Amersham Bioscience). Total protein extracts were precipitated and dissolved into 20 microl of iTRAQ dissolution buffer. Protein alkylation, trypsin digestion and labeling of the resulting peptides were performed according to manufacturer’s instructions (Applied Biosystems) followed by strong cation exchange fractionation and LC-MS/MS analysis of the peptides as previously described (Lietzén et al, PLoS Pathogens). Protein identification and relative quantitation were performed with Paragon search algorithm using ProteinPilot 4 interface (Applied Biosystems). Database searches were performed against human protein sequences in UniProt database (version 120813 with 20231 human entries). The search criteria were: cysteine alkylation with MMTS, trypsin digestion, biological modifications allowed, thorough search and detected protein threshold of 95% confidence (Paragon Unused ProtScore > 1.3). Additionally, automatic bias correction was used to correct for uneven protein loading.
HostingRepository	PRIDE
AnnounceDate	2015-04-27
AnnouncementXML	Submission_2015-04-27_04:08:36.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tuula Nyman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iTRAQ4plex-116 reporter+balance reagent acylated residue; methylthiolated residue
Instrument	QSTAR

Revision	Datetime	Status	ChangeLog Entry
0	2013-12-05 02:24:09	ID requested
⏵ 1	2015-04-27 04:08:37	announced

Cimmino G, Tarallo R, Nassa G, De Filippo MR, Giurato G, Ravo M, Rizzo F, Conte S, Pellegrino G, Cirillo P, Calabro P, Ö, hman T, Nyman TA, Weisz A, Golino P, Activating stimuli induce platelet microRNA modulation and proteome reorganisation. Thromb Haemost, 114(1):96-108(2015) [pubmed]

submitter keyword: Human, platelets, LC-MS/MS, iTRAQ-labeling

Tuula Nyman
contact affiliation	Institute of Biotechnology
contact email	tuula.nyman@helsinki.fi
lab head
Tuula Nyman
contact affiliation	Institute of Biotechnology
contact email	tuula.nyman@helsinki.fi
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/2015/04/PXD000621

PRIDE project URI

• PRIDE
  1. PXD000621
     1. Label: PRIDE project
     2. Name: Platelet Activation Results in Modulation of miRNA, mRNA, and Protein Expression Profiles: New Insights into the Pathophysiology of Platelet Activation