PXD003557

PXD003557 is an original dataset announced via ProteomeXchange.

Title	Human bladder cancer LC MS/MS
Description	Urine is an ideal material to study and examine the bladder cancer (BCa) biomarkers, whereas exploration to the corresponding protein candidates is confronting technique challenges. Herein, we proposed a comprehensive strategy of searching the urine proteins related to BCa. The strategy consists of three core combinations, screening the candidates in the secreted proteins derived from the BCa cell lines and verifying them in the patient urines, defining the differential proteins through two-dimensional electrophoresis (2DE) and isobaric tags for relative and absolute quantitation (iTRAQ), and implementing quantitative analysis in profiling and targeting proteomics. The differential proteins were globally and quantitatively determined between the two typical cell lines of BCa, T24 and 5637, and the immortalized normal uroepithelium cell line, SV-HUC-1, while the BCa related proteins were verified between the relatively normal and patient urines. With proteomic survey combined with 2DE and iTRAQ, a total of 724 secreted proteins were identified as the BCa related proteins. With label-free quantitative proteomics, the 96 candidates were detected in the pooled urine samples. Furthermore, the multiple reaction monitoring (MRM)-based quantification was adapted to verify these urine proteins in individual urines that were collected from 23 BCa patients and 24 relative normal people, and resulted in the 10 urine proteins with significant abundance differences between the two groups. Of the potential indicators for BCa, analysis of receiver operating characteristics (ROC) revealed the combination of complement component 3 (CO3) and lactose dehydrogenase B (LDHB) was more sensitive and efficient to distinguish healthy and disease urine. The discovery of the indicative proteins of BCa through our strategy has thus paved an avenue to further validation of BCa biomarkers in urine.
HostingRepository	PRIDE
AnnounceDate	2016-06-17
AnnouncementXML	Submission_2016-06-17_03:36:34.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jiao Guo
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iTRAQ8plex-116 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-02-02 00:28:57	ID requested
⏵ 1	2016-06-17 03:36:35	announced

Guo J, Ren Y, Hou G, Wen B, Xian F, Chen Z, Cui P, Xie Y, Zi J, Lin L, Wu S, Li Z, Wu L, Lou X, Liu S, A Comprehensive Investigation toward the Indicative Proteins of Bladder Cancer in Urine: From Surveying Cell Secretomes to Verifying Urine Proteins. J Proteome Res, 15(7):2164-77(2016) [pubmed]

curator keyword: Biomedical

submitter keyword: human, bladder cancer, LC MS/MS

Siqi Liu
contact affiliation	CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chines Academy of Sciences, Beijing, China.
contact email	siqiliu@genomics.cn
lab head
Jiao Guo
contact affiliation	+86 15811023402
contact email	329278790@qq.com
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/2016/06/PXD003557

PRIDE project URI

• PRIDE
  1. PXD003557
     1. Label: PRIDE project
     2. Name: Human bladder cancer LC MS/MS