PXD001657

PXD001657 is an original dataset announced via ProteomeXchange.

Title	A Cell-based Systems Biology Assessment of Human Blood to Monitor Immune Responses After Influenza Vaccination
Description	Systems biology is an approach to comprehensively study complex interactions within a biological system. Most published systems vaccinology studies have utilized whole blood or peripheral blood mononuclear cells (PBMC) to monitor the immune response after vaccination. Because human blood is comprised of multiple hematopoietic cell types, the potential for masking responses of under-represented cell populations is increased when analyzing whole blood or PBMC. To investigate the contribution of individual cell types to the immune response after vaccination, we established a rapid and efficient method to purify human T and B cells, natural killer (NK) cells, myeloid dendritic cells (mDC), monocytes, and neutrophils from fresh venous blood. Purified cells were fractionated and processed in a single day. RNA-Seq and quantitative shotgun proteomics were performed to determine expression profiles for each cell type prior to and after inactivated seasonal influenza vaccination. Our results show that transcriptomic and proteomic profiles generated from purified immune cells differ significantly from PBMC. Differential expression analysis for each immune cell type also shows unique transcriptomic and proteomic expression profiles as well as changing biological networks at early time points after vaccination. This cell type-specific information provides a more comprehensive approach to monitor vaccine responses.
HostingRepository	PRIDE
AnnounceDate	2015-01-08
AnnouncementXML	Submission_2015-02-24_08:46:58.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Andrew Link
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-07 03:18:13	ID requested
1	2015-01-08 02:29:19	announced
⏵ 2	2015-02-24 08:46:59	announced	Updated publication reference for PubMed record(s): 25706537.

Hoek KL, Samir P, Howard LM, Niu X, Prasad N, Galassie A, Liu Q, Allos TM, Floyd KA, Guo Y, Shyr Y, Levy SE, Joyce S, Edwards KM, Link AJ, A cell-based systems biology assessment of human blood to monitor immune responses after influenza vaccination. PLoS One, 10(2):e0118528(2015) [pubmed]

curator keyword: Biomedical

submitter keyword: Human, immune response, systems vaccinology, TIV, iTRAQ, quantitative proteomics, vaccine response, immune cells, blood

Andrew Link
contact affiliation	Department of Pathology, Microbiology, and Immunology Vanderbilt University School of Medicine Nashville, TN 37232 USA
contact email	andrew.link@vanderbilt.edu
lab head
Andrew Link
contact affiliation	Vanderbilt University School of Medicine
contact email	andrew.link@vanderbilt.edu
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/2015/01/PXD001657

PRIDE project URI

• PRIDE
  1. PXD001657
     1. Label: PRIDE project
     2. Name: A Cell-based Systems Biology Assessment of Human Blood to Monitor Immune Responses After Influenza Vaccination