PXD006990

PXD006990 is an original dataset announced via ProteomeXchange.

Title	Comparative and Network-based Proteomic Analysis of Ethanol-treated and Lipopolysaccharide-induced Macrophages
Description	Macrophages are specialized phagocytes that play an essential role in inflammation, immunity, and tissue repair. Profiling the global proteomic response of macrophages to microbial molecules such as bacterial lipopolysaccharide is key to understanding fundamental mechanisms of inflammatory disease. Ethanol is a widely abused substance that has complex effects on inflammation. Reports have indicated that ethanol can activate or inhibit the lipopolysaccharide receptor, Toll-like Receptor 4, in different settings, with important consequences for liver and neurologic inflammation, but the underlying mechanisms are poorly understood. To profile the ethanol and lipopolysaccharide responsive proteins on the macrophages, a gel-free proteomic technique was applied to RAW 264.7 macrophages. Five hundred four differentially expressed proteins were identified and quantified with high confidence using ≥ 5 peptide spectral matches. Among these, 319 proteins were shared across all treatment conditions, and 69 proteins were exclusively identified in ethanol-treated or lipopolysaccharide-stimulated cells. The interactive impact of ethanol and lipopolysaccharide on the macrophage proteome was evaluated using bioinformatics tools, enabling identification of differentially responsive proteins, protein interaction networks, disease- and function-based networks, canonical pathways, and upstream regulators. Pathway analysis revealed that differential proteins are involved in cell-cell signaling, cell death and survival, and injury, and, notably, are enriched for regulators of liver disease. Taken together, this study describes for the first time at a systems level the interaction between ethanol and lipopolysaccharide in the proteomic programming of macrophages, and offers new mechanistic insights into the biology that may underlie the impact of ethanol on infectious and inflammatory disease in humans.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:39:40.138.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Abu Hena Kamal
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-12 01:04:14	ID requested
1	2018-03-05 01:12:01	announced
⏵ 2	2024-10-22 04:39:43	announced	2024-10-22: Updated project metadata.

Kamal AHM, Fessler MB, Chowdhury SM, Comparative and network-based proteomic analysis of low dose ethanol- and lipopolysaccharide-induced macrophages. PLoS One, 13(2):e0193104(2018) [pubmed]

10.1371/journal.pone.0193104;

curator keyword: Biological

submitter keyword: lipopolysaccharide,Ethanol, gel-free quantitative proteomics, ingenuity pathway analysis, RAW 264.7 macrophages

Dr. Saiful M. Chowdhury
contact affiliation	Assistant Professor Chemistry and Biochemistry University of Texas at Arlington Box 19065 700 Planetarium Place, Room 130 Arlington, TX 76019 United States
contact email	schowd@uta.edu
lab head
Abu Hena Kamal
contact affiliation	University of Texas at Arlington
contact email	abuhena.kamal@uta.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/2018/03/PXD006990

PRIDE project URI

• PRIDE
  1. PXD006990
     1. Label: PRIDE project
     2. Name: Comparative and Network-based Proteomic Analysis of Ethanol-treated and Lipopolysaccharide-induced Macrophages