PXD004384
PXD004384 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | MRM analysis of serological markers for lung cancer |
Description | Non-small cell lung cancer (NSCLC) constitutes approximately 80% of all diagnosed lung cancers and diagnostic markers detectable in the plasma/serum of NSCLC patients are greatly needed. Omic-based platforms have been promoted for the discovery of disease biomarkers. In this study, we established a pipeline for the discovery of markers using 10 transcriptome data sets obtained from the Gene Expression Omnibus (GEO) and the profiling of six lung cancer cell secretomes. Seventeen out of 281 proteins that overlapped between ±15% differentially expressed genes and identified cell secretome proteins were detected in the pooled plasma of lung cancer patients. In the verification process, 58 signature peptides for 17 candidates were first confirmed by Qtrap5500. To quantify the candidates in the serum of NSCLC patients, multiple reaction monitoring mass spectrometry (MRM-MS) with stable isotope-labeled standard (SIS) peptides was performed for eight candidate biomarkers. Finally, two potential biomarkers (BCHE and GPX3; AUC = 0.918 and 0.728, respectively) and one two-marker panel (BCHE/GPX3; AUC = 0.943) were able to effectively differentiate NSCLC from healthy controls. Collectively, these results demonstrate that our pipeline for marker discovery and our MRM-MS platform for verifying potential biomarkers are feasible for use with human diseases. |
HostingRepository | PeptideAtlas |
AnnounceDate | 2016-06-20 |
AnnouncementXML | Submission_2016-06-20_15:51:58.xml |
DigitalObjectIdentifier | |
ReviewLevel | Non peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Heesung Ahn |
SpeciesList | scientific name: Homo sapiens; NCBI TaxID: 9606; |
ModificationList | 6x(13)C,4x(15)N labeled L-arginine; 6x(13)C,2x(15)N labeled L-lysine; S-carboxamidomethyl-L-cysteine |
Instrument | QTRAP 5500 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2016-06-20 15:00:28 | ID requested | |
1 | 2016-06-20 15:36:40 | announced | |
⏵ 2 | 2016-06-20 15:51:59 | announced | update |
Publication List
Jihye, et al. (submitted) |
Keyword List
curator keyword: selected reaction monitoring, SRM, targeted |
Contact List
Heesung Ahn | |
---|---|
contact affiliation | Korea Institute of Science and Technology |
contact email | zaulim3@gmail.com |
dataset submitter | |
Cheolju Lee | |
contact affiliation | Korea Institute of Science and Technology |
contact email | clee270@kist.re.kr |
lab head |
Full Dataset Link List
PeptideAtlas dataset URI |
PASSEL experiment URI |
PASSEL transition group browser URI |