PXD021149

PXD021149 is an original dataset announced via ProteomeXchange.

Title	MS quantification of circulating CFP-10, p24 and VP40
Description	Liquid chromatography coupled mass spectrometry (LC-MS) operating in targeted mass spectrometry (MS) including multiple reaction monitoring (MRM) mode is an accurate analytical method. Integrating with nanoelectrospray-tandem MS (NanoES-MS/MS) and immunoprecipitation (IP), it becomes a promising method in detecting serum biomarkers which are at extremely low concentrations, such as mycobacterium tuberculosis (Mtb) secreted 10 kDa culture filtrate antigen (CFP-10). We employed an optimum denaturing condition for trypsin digestion and IP of targeted peptides. The condition shows several advantages over commonly used one, 1) it prevents further dilution of sample, thus enables as-needed sample volume, 2) It ensures liberation of trace amount of antigen peptide under a cost-effective enzyme to substrate mass ratio, 3) It avoids time-consuming and unnecessary reduction of disulfide bonds, as some pathogen antigens don't contain disulfide bond. More importantly, optimum MRM transitions of the targeted peptide and standardized data processing and interpretation algorithm provide confirmative information of it in serum samples. By changing the denaturing buffer, addition of a clean-up step, selection of optimum MRM transitions and better interpreting MS signal, this workflow showed an improved accuracy in clinical samples.
HostingRepository	PanoramaPublic
AnnounceDate	2021-11-09
AnnouncementXML	Submission_2021-11-09_11:47:59.896.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Qingbo Shu
SpeciesList	scientific name: Human immunodeficiency virus 1; NCBI TaxID: 11676; scientific name: Sudan ebolavirus; NCBI TaxID: 186540; scientific name: Ebola virus; NCBI TaxID: 1570291; scientific name: Mycobacterium tuberculosis; NCBI TaxID: 1773;
ModificationList	Label:13C(6)15N(2); Label:13C(6)15N(4)
Instrument	TSQ Altis; Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-08-26 15:38:40	ID requested
1	2021-10-19 10:24:04	announced
⏵ 2	2021-11-09 11:48:00	announced	: Added PubMed ID

Shu Q, Kenny T, Fan J, Lyon CJ, Cazares LH, Hu TY, Species-specific quantification of circulating ebolavirus burden using VP40-derived peptide variants. PLoS Pathog, 17(11):e1010039(2021) [pubmed]

submitter keyword: MRM

Tony Hu
contact affiliation	Tulane University
contact email	tonyhu@tulane.edu
lab head
Qingbo Shu
contact affiliation	Tulane University
contact email	qshu@tulane.edu
dataset submitter

Panorama Public dataset URI