Proteomics

Dataset Information

0

Label-free LC-MSe in tissue and serum reveals protein networks underlying differences between benign and malignant serous ovarian tumors


ABSTRACT: Purpose: To identify proteins and (molecular/biological) pathways associated with differences between benign and malignant epithelial ovarian tumors. Experimental procedures: Serum of six patients with a serous adenocarcinoma of the ovary was collected before treatment, with a control group consisting of six matched patients with a serous cystadenoma. In addition to the serum, homogeneous regions of cells exhibiting uniform histology were isolated from benign and cancerous tissue by laser microdissection. We subsequently employed label-free liquid chromatography tandem mass spectrometry (LC-MSe) to identify proteins in these serum and tissues samples. Analyses of differential expression between samples were performed using Bioconductor packages and in-house scripts in the statistical software package R. Hierarchical clustering and pathway enrichment analyses were performed, as well as network enrichment and interactome analysis using MetaCore. Results: In total, we identified 20 and 71 proteins that were significantly differentially expressed between benign and malignant serum and tissue samples, respectively. The differentially expressed protein sets in serum and tissue largely differed with only 2 proteins in common. MetaCore network analysis, however inferred GCR-alpha and Sp1 as common transcriptional regulators. Interactome analysis highlighted 14-3-3 zeta/delta, 14-3-3 beta/alpha, Alpha-actinin 4, HSP60, and PCBP1 as critical proteins in the tumor proteome signature based on their relative overconnectivity.

INSTRUMENT(S): Synapt G2 MS

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Blood Serum, Ovary Epithelium

DISEASE(S): Malignant Neoplasm Of Ovary

SUBMITTER: Gertjan Kramer  

LAB HEAD: Johannes M.F.G. Aerts

PROVIDER: PXD001084 | Pride | 2014-10-13

REPOSITORIES: Pride

Dataset's files

Source:
altmetric image

Publications

Label-free LC-MSe in tissue and serum reveals protein networks underlying differences between benign and malignant serous ovarian tumors.

Wegdam Wouter W   Argmann Carmen A CA   Kramer Gertjan G   Vissers Johannes P JP   Buist Marrije R MR   Kenter Gemma G GG   Aerts Johannes M F G JM   Meijer Danielle D   Moerland Perry D PD  

PloS one 20140929 9


<h4>Purpose</h4>To identify proteins and (molecular/biological) pathways associated with differences between benign and malignant epithelial ovarian tumors.<h4>Experimental procedures</h4>Serum of six patients with a serous adenocarcinoma of the ovary was collected before treatment, with a control group consisting of six matched patients with a serous cystadenoma. In addition to the serum, homogeneous regions of cells exhibiting uniform histology were isolated from benign and cancerous tissue by  ...[more]

Similar Datasets

2011-12-16 | E-GEOD-16220 | biostudies-arrayexpress
2023-10-24 | PXD032299 | Pride
2016-08-08 | E-GEOD-79893 | biostudies-arrayexpress
2012-10-12 | E-GEOD-41498 | biostudies-arrayexpress
2021-11-30 | PXD026886 | Pride
2012-12-31 | E-GEOD-40105 | biostudies-arrayexpress
2009-07-28 | GSE17308 | GEO
2019-02-02 | PXD010939 | Pride
2016-10-04 | PXD004575 | Pride
2022-07-11 | PXD034184 | Pride