PXD019446

PXD019446 is an original dataset announced via ProteomeXchange.

Title	A primary human T-cell spectral library to facilitate large scale quantitative T-cell proteomics
Description	Comprehensive spectral libraries are essential in sequential window acquisition of all theoretical mass spectra (SWATH-MS) based high throughput proteomic studies. Even though SWATH-MS assays provide robust quantitative proteomics data its applications to human T-cell studies are limited by the lack of a human T-cell spectral library. To address this resource gap, we generated a high-quality spectral library containing data for 3,941 unique proteins from primary human T-cells across genetically unrelated donors. SWATH-MS analysis of 18 primary T-cell samples using the new human T-cell spectral library identified and quantified 3,022 proteins at 1% FDR, whereas the larger Pan-human spectral library identified and quantified 2,794 proteins, with only 34% overlap. Combining the two libraries resulted in 4,061 proteins, covering ~50% of proteins in immune-related pathways. Overall, this data suggests DDA-MS is suited to discovery projects through to its enhanced sensitivity and SWATH-MS is suited to high-throughput projects.
HostingRepository	PRIDE
AnnounceDate	2020-10-19
AnnouncementXML	Submission_2020-11-25_02:43:42.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Harshi Weerakoon
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-28 01:54:59	ID requested
1	2020-10-18 23:12:25	announced
⏵ 2	2020-11-25 02:43:43	announced	2020-11-25: Updated publication reference for PubMed record(s): 33230158.

Weerakoon H, Potriquet J, Shah AK, Reed S, Jayakody B, Kapil C, Midha MK, Moritz RL, Lepletier A, Mulvenna J, Miles JJ, Hill MM, A primary human T-cell spectral library to facilitate large scale quantitative T-cell proteomics. Sci Data, 7(1):412(2020) [pubmed]

submitter keyword: Human, Primary T-cells, Spectral library, SWATH

Michelle M. Hill
contact affiliation	QIMR Berghofer Medical Research Institute, Herston, Brisbane, QLD, Australia 4006
contact email	michelle.hill@qimrberghofer.edu.au
lab head
Harshi Weerakoon
contact affiliation	Senior lecturer, Department of Biochemistry, Faculty of Medicine and Allied Sciences, Rajarata University of Sri Lanka, Saliyapura, Sri Lanka Visiting Scientists, Precision and Systems Biomedicine group, QIMR Berghofer Medical Reserach Institute, Brisbane, Australia
contact email	harshitw83@yahoo.com
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/2020/10/PXD019446

PRIDE project URI

• PRIDE
  1. PXD019446
     1. Label: PRIDE project
     2. Name: A primary human T-cell spectral library to facilitate large scale quantitative T-cell proteomics