PXD000619

PXD000619 is an original dataset announced via ProteomeXchange.

Title	Quantitative proteomic analysis of gallbladder cancer
Description	We carried out an iTRAQ-based quantitative proteomic analysis of gallbladder cancer and adjacent non-tumor tissue to systematically identify differentially expressed proteins in gallbladder cancer. Ten gallbladder adenocarcinoma and ten adjacent non-tumor tissue samples were selected post pathological confirmation for the study. Samples were pooled and In-solution trypsin digestion was carried out. Post digestion, peptides were iTRAQ labeled with 114 and 115 (gallbladder adenocarcinoma) and 116 and 117 (adjacent non-tumor samples). LC-MS/MS analysis of SCX fractions was carried out using a reversed phase analytical C18 column connected to 1200 Series Nanoflow LC interfaced with LTQ-Orbitrap Velos. Data were acquired using Xcalibur 2.1. Proteome Discoverer (v 1.3) suite was used for quantitation and database searches. LC-MS/MS data were searched using Mascot and SEQUEST search algorithms against Human RefSeq 50 supplemented with frequently observed contaminants.
HostingRepository	PRIDE
AnnounceDate	2015-06-27
AnnouncementXML	Submission_2015-06-27_00:30:33.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Akhilesh Pandey
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iTRAQ4plex-117: mTRAQ heavy; iTRAQ4plex-114 reporter+balance reagent acylated N-terminal; iTRAQ4plex-116 reporter+balance reagent acylated residue; iTRAQ4plex-115 reporter+balance reagent acylated N-terminal; iTRAQ4plex-116 reporter+balance reagent acylated N-terminal; methylthiolated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2013-12-04 10:23:08	ID requested
1	2015-06-26 04:46:06	announced
⏵ 2	2015-06-27 00:30:34	announced	Updated project metadata.

Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK, Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics. Biochem Biophys Res Commun, 446(4):863-9(2014) [pubmed]

curator keyword: Biomedical

submitter keyword: gallbladder cancer, iTRAQ, quantitative proteomics, prosaposin, transgelin, biomarkers

Akhilesh Pandey
contact affiliation	Johns Hopkins University
contact email	pandey@jhmi.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/2015/06/PXD000619

PRIDE project URI

• PRIDE
  1. PXD000619
     1. Label: PRIDE project
     2. Name: Quantitative proteomic analysis of gallbladder cancer