PXD010701

PXD010701 is an original dataset announced via ProteomeXchange.

Title	Proteome analysis of human neutrophil granulocytes from patients with monogenic disease using data-independent acquisition
Description	Neutrophil granulocytes are critical mediators of innate immunity and tissue regeneration. Rare diseases of neutrophil granulocytes may affect their differentiation and/or functions. However, there are very few validated diagnostic tests assessing the functions of neutrophil granulocytes in these diseases. Here, we set out to probe omics analysis as a novel diagnostic platform for patients with defective differentiation and function of neutrophil granulocytes. We analyzed highly purified neutrophil granulocytes from 68 healthy individuals and 16 patients with rare monogenic diseases. Cells were isolated from fresh venous blood (purity >99%) and used to create a spectral library covering almost 8000 proteins using strong cation exchange fractionation. Patient neutrophil samples were then analyzed by data-independent acquisition proteomics, quantifying 4154 proteins in each sample.
HostingRepository	PRIDE
AnnounceDate	2019-02-01
AnnouncementXML	Submission_2019-02-01_06:16:25.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Piotr Grabowski
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2018-08-06 07:13:20	ID requested
⏵ 1	2019-02-01 06:16:27	announced

Grabowski P, Hesse S, Hollizeck S, Rohlfs M, Behrends U, Sherkat R, Tamary H, Ü, nal E, Somech R, Pat, ı, ro, ğ, lu T, Canzar S, van der Werff Ten Bosch J, Klein C, Rappsilber J, Proteome Analysis of Human Neutrophil Granulocytes From Patients With Monogenic Disease Using Data-independent Acquisition. Mol Cell Proteomics, 18(4):760-772(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: systems medicine, neutrophil granulocyte, proteomics, primary immunodeficiency diseases, whole exome sequencing, rare disease, multi-omics analysis

Juri Rappsilber
contact affiliation	Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany; Wellcome Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3BF, UK
contact email	juri.rappsilber@ed.ac.uk
lab head
Piotr Grabowski
contact affiliation	TU Berlin
contact email	grabowski@tu-berlin.de
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/2019/02/PXD010701

PRIDE project URI

• PRIDE
  1. PXD010701
     1. Label: PRIDE project
     2. Name: Proteome analysis of human neutrophil granulocytes from patients with monogenic disease using data-independent acquisition