PXD014773

PXD014773 is an original dataset announced via ProteomeXchange.

Title	Charaterising the surfaceome of primary equine chondrocytes
Description	The aim of this study was to characterize the surfaceome of primary equine chondrocytes isolated from healthy joints following exposure to the pro-inflammatory cytokines interleukin-1-beta (IL-1β) and tumour necrosis factor-alpha (TNF-α). We employed combined methodology that we recently developed for investigating the surfaceome in stem cells. Membrane proteins were isolated using an aminooxy-biotinylation technique and analysed by mass spectrometry using high throughput shotgun proteomics. Amongst the 431 unique cell surface proteins identified, a high percentage of low-abundance proteins, such as ion channels, receptors and transporter molecules were detected. A high number of proteins exhibited different levels of expression following chondrocyte stimulation with pro-inflammatory cytokines. LPR-1, thrombospondin, VDAC1-2 and annexin A1 were chosen for further analysis and validation by western blotting as proteins of special interest. Our results provide, for the first time, a repository for proteomic data on differentially expressed low-abundance membrane proteins on the surface of chondrocytes in response to pro-inflammatory stimuli.
HostingRepository	PRIDE
AnnounceDate	2020-07-02
AnnouncementXML	Submission_2020-08-11_05:55:37.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD014773
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	David Boocock
SpeciesList	scientific name: Equus caballus (Horse); NCBI TaxID: 9796;
ModificationList	HNE; GG; Bacillosamine; GluGlu; Hex; SPITC; Methylphosphonate; Delta:H(4)C(2)O(-1)S(1); Decanoyl; Propionamide; GlycerylPE; Deamidated; sulfo+amino; Methylpyrroline; Methylamine; azole; Myristoyl; Cation:K; PyridoxalPhosphate; Octanoyl; Gln->pyro-Glu; Diethylphosphate; Guanidinyl; DAET; Chlorination; Fluoro; LRGG+dimethyl; Ammonia-loss; Nethylmaleimide+water; HydroxymethylOP; Ethylphosphate; ISD_z+2_ion; Oxidation; AEC-MAEC; Diphthamide; Piperidine; Carboxy; Ethanedithiol; Delta:H(4)C(2); Met->Hpg; O-pinacolylmethylphosphonate; BITC; PET; Quinone; Ethanolamine; Cation:Na; PyMIC; Sulfo; MG-H1; Deoxy; Malonyl; Methyl+Deamidated; GluGluGlu; Formyl; glucosone; Carbamyl; Arg->Orn; Delta:H(2)C(3)O(1); Xlink:DFDNB; Cation:Mg[II]; PhosphoUridine; Met->Aha; Tyr->Dha; NDA; Amino; Ammonium; Dimethyl; Menadione; Delta:H(5)C(2); Lipoyl; Pro->Pyrrolidone; HCysThiolactone; Crotonaldehyde; NeuAc; Cytopiloyne; Dethiomethyl; Amidated; Diethyl; Lys->AminoadipicAcid; Pro->pyro-Glu; Ethanolyl; Phospho; Cation:Zn[II]; PEITC; Propargylamine; Acetyl; Palmitoyl; Cation:Ni[II]; Nitro; 2HPG; Methylthio; Carboxymethyl; dichlorination; 4-ONE+Delta:H(-2)O(-1); HexNAc; Phosphoadenosine; Carbamidomethyl; Cation:Ca[II]; Biotin-PEO-Amine; cGMP+RMP-loss; trifluoro; Puromycin; Glu->pyro-Glu; GluGluGluGlu; Carboxyethyl; MercaptoEthanol; Hydroxymethyl; CAF; EDT-maleimide-PEO-biotin; Delta:H(2)C(2); Ethyl; Cation:Li; GPIanchor; O-Isopropylmethylphosphonate; BHT; Cation:Fe[II]; phosphoRibosyl; Isopropylphospho; FTC; Methyl; AEBS; Pyridylacetyl; Dihydroxyimidazolidine; Methylmalonylation; Phosphopropargyl; HNE-Delta:H(2)O; Delta:H(4)C(3); TNBS; Didehydro; Cytopiloyne+water; Trp->Kynurenin; Glu; Pro->Pyrrolidinone; Arg->GluSA; Dansyl; Iminobiotin; SMA; Iodo; Diisopropylphosphate; G-H1; Lys->Allysine; LG-anhyropyrrole; Amidine; ethylamino; Dehydrated; Biotin; Dioxidation; Ethyl+Deamidated; Xlink:DTSSP[88]; Benzoyl; Carbofuran; glycidamide
Instrument	amaZon ETD

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-26 03:43:57	ID requested
1	2020-07-02 02:46:34	announced
⏵ 2	2020-08-11 05:55:38	announced	2020-08-11: Updated publication reference for PubMed record(s): 32586320.

Jeremiasse B, Matta C, Fellows CR, Boocock DJ, Smith JR, Liddell S, Lafeber F, van Spil WE, Mobasheri A, Alterations in the chondrocyte surfaceome in response to pro-inflammatory cytokines. BMC Mol Cell Biol, 21(1):47(2020) [pubmed]

submitter keyword: Horse, equine, LC-MSMS, chondrocyte

David Boocock
contact affiliation	John van Geest Centre, Nottingham Trent University
contact email	david.boocock@ntu.ac.uk
lab head
David Boocock
contact affiliation	Nottingham Trent University
contact email	david.boocock@ntu.ac.uk
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/2020/07/PXD014773

PRIDE project URI

• PRIDE
  1. PXD014773
     1. Label: PRIDE project
     2. Name: Charaterising the surfaceome of primary equine chondrocytes