PXD000534

PXD000534 is an original dataset announced via ProteomeXchange.

Title	Identification of novel biomarker candidates for the immunohistochemical diagnosis of cholangiocellular carcinoma - LC-MS Part
Description	The aim of this study was the identification of biomarkers for the immunohistochemical diagnosis of cholangiocellular carcinoma (CCC). CCC is a primary cancer which arises from the epithelial cells of the bile ducts and is characterised by high mortality rates due to its late clinical presentation and limited treatment options. Tumorous tissue and adjacent non-tumorous liver tissue from eight CCC patients were analysed by two-dimensional differential in-gel electrophoresis (2D-DIGE) and by mass spectrometry-based label-free proteomics. After data analysis and statistical evaluation of the proteins which were found to be differentially regulated between the two experimental groups (fold change ≥ 1.5; p-value ≤ 0.05), 15 candidate proteins were chosen for verification by immunohistochemistry in an independent cohort of 14 patients. This confirmed the significant up-regulation of chloride intracellular channel protein 1 (CLIC1), gelsolin (GSN), pyruvate kinase isozymes M1/M2 (PKM2), serpin H1, 14-3-3 protein sigma (SFN), stress-induced phosphoprotein 1 (STIP1) and tax1-binding protein 3 (Tax1BP3) in tumorous cholangiocytes when compared to normal hepatocytes, whereas fatty acid-binding protein 1 (FABP1) and Betaine-homocysteine S-methyltransferase 1 (BHMT) were significantly down-regulated. Furthermore, STIP1 and SFN were able to differentiate between CCC tumour cells and non-tumorous cholangiocytes with a sensitivity of 100% and 86%, respectively and a specificity of 100% in both cases. We therefore conclude that these proteins should be considered as potential diagnostic biomarkers for CCC in an immunohistochemical application. Additional experiments addressing the validation of these novel biomarker candidates are being performed.
HostingRepository	PRIDE
AnnounceDate	2014-10-23
AnnouncementXML	Submission_2014-10-23_02:43:44.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000534
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Julian Uszkoreit
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidoethyl-L-cysteine; oxidation
Instrument	LTQ Orbitrap; instrument model: LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2013-10-21 10:28:44	ID requested
1	2014-07-22 05:44:39	announced
2	2014-07-28 00:50:00	announced	Updated project metadata.
⏵ 3	2014-10-23 02:43:45	announced	Updated project metadata.

Padden J, Megger DA, Bracht T, Reis H, Ahrens M, Kohl M, Eisenacher M, Schlaak JF, Canbay AE, Weber F, Hoffmann AC, Kuhlmann K, Meyer HE, Baba HA, Sitek B, Identification of novel biomarker candidates for the immunohistochemical diagnosis of cholangiocellular carcinoma. Mol Cell Proteomics, 13(10):2661-72(2014) [pubmed]

curator keyword: Biomedical

submitter keyword: Human, Liver, Cholangiocellular Carcinoma, MALDI, LC-MS

Julian Uszkoreit
contact affiliation	Medizinisches Proteom-Center WG Bioinformatics / Biostatistics
contact email	julian.uszkoreit@rub.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD000534
     1. Label: PRIDE project
     2. Name: Identification of novel biomarker candidates for the immunohistochemical diagnosis of cholangiocellular carcinoma - LC-MS Part