PXD008163

PXD008163 is an original dataset announced via ProteomeXchange.

Title	Depleted Prefractionated Human Plasma for Data Independent Acquisition Spectral Library
Description	We established a spectral library for data-independent analysis of human plasma samples, using a pooled plasma sample from Danish adults. The samples were prepared for proteome analysis using an in-house developed protocol consuming one microliter of plasma per sample, and the tryptic digest and subsequent C18 purification was performed in 96-well plates. The spectral library consists of plasma which was analyzed neat (i.e. non-treated), and top 14 depleted. The samples were subjected to high pH reversed-phase peptide fractionated using C18 tips (8 fraction) and a HPLC system (20 fraction). The resulting peptides were analyzed on a Q Exactive with a capflow reversed-phase C18 LC-MS/MS setup in data-dependent mode. The final spectral library contains 21788 precursors and 1000 proteins (both at FDR<0.01).
HostingRepository	PRIDE
AnnounceDate	2018-04-20
AnnouncementXML	Submission_2018-04-20_01:47:03.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tue Bjerg Bennike
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-08 01:25:38	ID requested
⏵ 1	2018-04-20 01:47:04	announced

Bennike TB, Bellin MD, Xuan Y, Stensballe A, M, ø, ller FT, Beilman GJ, Levy O, Cruz-Monserrate Z, Andersen V, Steen J, Conwell DL, Steen H, A Cost-Effective High-Throughput Plasma and Serum Proteomics Workflow Enables Mapping of the Molecular Impact of Total Pancreatectomy with Islet Autotransplantation. J Proteome Res, 17(5):1983-1992(2018) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: human, plasma, spectral library, depletion, prefractionated, high pH, LC-MSMS

Hanno Steen
contact affiliation	Departments of Pathology, Boston Children’s Hospital and Harvard Medical School, Boston, MA, USA
contact email	hanno.steen@childrens.harvard.edu
lab head
Tue Bjerg Bennike
contact affiliation	Aalborg University
contact email	tbe@hst.aau.dk
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/2018/04/PXD008163

PRIDE project URI

• PRIDE
  1. PXD008163
     1. Label: PRIDE project
     2. Name: Depleted Prefractionated Human Plasma for Data Independent Acquisition Spectral Library