Mass spectrometry data on six breast cancer cell lines

This dataset is unpublished – please read the terms of use.

This dataset presents TMT (tandem mass tag) mass spectrometry data for six breast cancer cell lines (BT-20, MCF7, SK-BR-3, MCF 10A, Hs 578T and MDA-MB-231) at steady state.

Download deep proteomics dataset 1 – see terms of use

Purpose and dataset details

The purpose of this dataset was to determine if shotgun proteomics could provide useful comparative information on proteins, kinases in particular that might be mediate response to perturbagen. Across six breast cancer cell lines we were able to identify ~7000 different proteins including many transcription factors, kinases, phosphatases, and cell surface receptors. Some are ubiquitously expressed in all cell lines, while others appear to uniquely identify individual lines. Detailed analysis of this data is underway.

Cells were grown in 15cm dishes and serum starved. At the time of collection they were ~80% confluent. Protein lysates were isotopically labeled with TMT kits, fractionated into 22 different fractions on a strong cationic exchange column and run on an Orbitrap Elite MS3 mass spectrometer.