PXD063687

PXD063687 is an original dataset announced via ProteomeXchange.

Title	Mild Tissue Extraction for Mass Spectrometry-based Proteomic Discovery of Biomarkers
Description	Clinical blood biomarkers provide important diagnostic information and are generally secreted, cytoplasmic, membrane and other soluble proteins. However, in the mass spectrometry-based proteomics-based discovery phase, the whole tissue is often lysed and analyzed, increasing protein complexity and thus limiting the discovery of those soluble biomarkers. Here we use a mild extraction method that utilizes low salt buffer and 1% Triton X-100 to extract proteins from the tissue sample followed by the proteome analysis. This mild condition extracts membrane and cytoplasmic proteins efficiently while spares nuclear proteins largely from the mouse brain tissue as demonstrated by Western blot. The subsequent proteomic analysis shows significant enrichment of secreted and cytoplasmic proteins in the low salt and Triton extracts. Expanding application of this method to other 16 mouse tissue samples has yielded similar results. Further in-depth proteomic analysis of an Alzheimer mouse brain tissue mild extract has identified more than 12,000 proteins with significant enrichment in the soluble proteins and decent depth of serum proteins. Overall, this mild tissue extraction demonstrates to be an efficient approach for proteomic discovery of circulating biomarkers.
HostingRepository	iProX
AnnounceDate	2025-05-02
AnnouncementXML	Submission_2025-05-06_19:56:48.281.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bing Bai
SpeciesList	scientific name: Mus musculus; NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-05-06 19:56:17	ID requested
⏵ 1	2025-05-06 19:56:48	announced

Dataset with its publication pending

submitter keyword: Tissue, mild extraction, Low salt, Triton, secreted proteins, cytoplasmic proteins, membrane proteins, proteomics, Biomarker Discovery

Bing Bai
contact affiliation	Nanjing University
contact email	bing.bai@nju.edu.cn
lab head
Bing Bai
contact affiliation	Nanjing University
contact email	bing.bai@nju.edu.cn
dataset submitter

iProX dataset URI