PXD015646

PXD015646 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Immunopeptidomics of Bacillus Calmette-Guérin (BCG)-infected Thp-1 cells
Description	We have immunoprecipitated MHC class-I and class-II complexes from THP-1 macrophages infected with BCG, eluted MHC-bound peptides and analysed them by liquid chromatography tandem mass spectrometry.
HostingRepository	PRIDE
AnnounceDate	2024-10-08
AnnouncementXML	Submission_2024-10-08_11:35:04.923.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD015646
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Nicola Ternette
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mycobacterium; NCBI TaxID: NCBITaxon:1763;
ModificationList	HNE; GG; Hex; Phosphopantetheine; Methylphosphonate; Delta:H(4)C(2)O(-1)S(1); Decanoyl; CAMthiopropanoyl; Propionamide; PhosphoHex; Deamidated; Trp->Oxolactone; Methylamine; DHP; CHDH; Myristoyl; Cation:K; Hex(1)HexNAc(2); Delta:H(2)C(5); Glycosyl; Gln->pyro-Glu; Met->Hsl; Guanidinyl; Menadione-HQ; DAET; DeStreak; Dehydro; HexNAc(2); Trimethyl; Fluoro; Ammonia-loss; Phycocyanobilin; Nethylmaleimide+water; ISD_z+2_ion; Oxidation; AEC-MAEC; Ethanedithiol; Carboxy; Met->Hpg; O-pinacolylmethylphosphonate; BITC; 4-ONE; HexNAc(2)dHex(2); PET; Ethanolamine; Cation:Na; Hydroxytrimethyl; MolybdopterinGD+Delta:S(-1)Se(1); PyMIC; Trp->Hydroxykynurenin; Sulfo; Hex(2)HexNAc(2); Deoxy; Methyl+Deamidated; Retinylidene; GluGluGlu; Glutathione; Formyl; glucosone; Carbamyl; LG-anhydrolactam; Delta:H(2)C(3)O(1); Phosphoguanosine; Cation:Mg[II]; Xlink:DFDNB; BEMAD_C; Thiophospho; NDA; Amino; Ammonium; Delta:H(5)C(2); Lipoyl; Hypusine; Pro->Pyrrolidone; Crotonaldehyde; Met->Hse; Cytopiloyne; Amidated; Diethyl; Hex(3)HexNAc(2); Hex(3); Cys->Dha; Thiazolidine; Lys->AminoadipicAcid; Pro->pyro-Glu; Ethanolyl; Phospho; Cys->ethylaminoAla; Cation:Zn[II]; Hep; PEITC; Acetyl; cGMP; Palmitoyl; Cation:Ni[II]; ADP-Ribosyl; Methylthio; Carboxymethyl; HexNAc; Carbamidomethyl; Cation:Ca[II]; Cysteinyl; 3sulfo; Biotin-PEO-Amine; cGMP+RMP-loss; Trioxidation; Puromycin; Glu->pyro-Glu; CarboxymethylDTT; Arg->Npo; Carboxyethyl; Biotin-HPDP; dHex; Delta:H(2)C(2); Ethyl; Cation:Li; HexNAc(2)dHex(1); Cation:Fe[II]; PyruvicAcidIminyl; Cyano; Isopropylphospho; AEBS; Pyridylacetyl; Dihydroxyimidazolidine; Methylmalonylation; Hex(3)HexNAc(4); Delta:H(4)C(3); DEDGFLYMVYASQETFG; MolybdopterinGD; Didehydro; Cytopiloyne+water; Trp->Kynurenin; Glu; Pro->Pyrrolidinone; Arg->GluSA; Dansyl; Iminobiotin; SMA; HexN; Diisopropylphosphate; thioacylPA; Cys->Oxoalanine; Nmethylmaleimide; Lys->Allysine; LG-anhyropyrrole; Amidine; Gly-loss+Amide; maleimide; O-Methylphosphate; Hex(1)HexNAc(1)NeuAc(2); Dehydrated; Biotin; Dioxidation; Ethyl+Deamidated; Xlink:DTSSP[88]; Amidino; Benzoyl; Carbofuran; Hex(2); glycidamide
Instrument	Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-30 08:10:05	ID requested
⏵ 1	2024-10-08 11:35:05	announced

Publication List

10.6019/PXD015646;
Bettencourt P, M, ü, ller J, Nicastri A, Cantillon D, Madhavan M, Charles PD, Fotso CB, Wittenberg R, Bull N, Pinpathomrat N, Waddell SJ, Stylianou E, Hill AVS, Ternette N, McShane H, Identification of antigens presented by MHC for vaccines against tuberculosis. NPJ Vaccines, 5(1):2(2020) [pubmed]
10.1038/s41541-019-0148-y;

10.6019/PXD015646;

Bettencourt P, M, ü, ller J, Nicastri A, Cantillon D, Madhavan M, Charles PD, Fotso CB, Wittenberg R, Bull N, Pinpathomrat N, Waddell SJ, Stylianou E, Hill AVS, Ternette N, McShane H, Identification of antigens presented by MHC for vaccines against tuberculosis. NPJ Vaccines, 5(1):2(2020) [pubmed]

10.1038/s41541-019-0148-y;

Keyword List

ProteomeXchange project tag: Human Immuno-Peptidome Project (HUPO-HIPP) (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project
submitter keyword: Bacillus Calmette-Guérin, HLA, MHC, BCG, Immunopeptidome

ProteomeXchange project tag: Human Immuno-Peptidome Project (HUPO-HIPP) (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

submitter keyword: Bacillus Calmette-Guérin, HLA, MHC, BCG, Immunopeptidome

Contact List

Nicola Ternette
contact affiliation	University of Oxford
contact email	nicola.ternette@ndm.ox.ac.uk
lab head
Nicola Ternette
contact affiliation	University of Oxford
contact email	nicola.ternette@ndm.ox.ac.uk
dataset submitter

Full Dataset Link List

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PRIDE project URI

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/2020/05/PXD015646

PRIDE project URI

Repository Record List

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