Project PXD003531

PRIDE Assigned Tags:
Biomedical Dataset

Summary

Title

Proteomics of Primary cells derived from Ovarian Cancer

Description

We analyzed primary cells derived from patients with ovarian cancer. We compared OSE, FTE and EOC and we use quantitative propeomics followed by WB, IHC, TMA for validation of our findings. We also analyzed the phosphoproteome of OVCAR3.

Sample Processing Protocol

We started form 700 ug of proteins, enriched (or not) for phophorylated peptides by TiO2-based chromatography, and analyzed the peptide mixture on QExactive and QExavtive-HF from Thermofisher.

Data Processing Protocol

We used MaxQuant, Perseus, and the Bioconductor pachkage LIMNA in R for data analysis.

Contact

Chiara Francavilla, NNF CPR, University Copenhagen
Jesper V. Olsen, Proteomics Program Novo Nordisk Foundation CPR University of Copenhagen Copenhagen Denmark ( lab head )

Submission Date

27/01/2016

Publication Date

03/04/2017

Instrument

Q Exactive

Software

Not available

Modification

phosphorylated residue

Quantification

Label free

Experiment Type

Shotgun proteomics

Publication

    Francavilla C, Lupia M, Tsafou K, Villa A, Kowalczyk K, Rakownikow Jersie-Christensen R, Bertalot G, Confalonieri S, Brunak S, Jensen LJ, Cavallaro U, Olsen JV. Phosphoproteomics of Primary Cells Reveals Druggable Kinase Signatures in Ovarian Cancer. Cell Rep. 2017 Mar 28;18(13):3242-3256 PubMed: 28355574