Article: Khan et al, 2023

• Code available at: github.com/SlavovLab/EMT_TGFB_2023
• Peer reviewed article: Khan S, Conover R, Asthagiri A, Slavov N, Dynamics of single-cell protein covariation during epithelial-mesenchymal transition, J. Proteome Res., doi: 10.1021/acs.jproteome.4c00277, PDF
• Perspective: Slavov N., Learning from natural variation across the proteomes of single cells, PLoS Biology 20(1): e3001512

Single-cell proteomics methods: SCoPE2

Sample preparation method: nPOP

Model systems: Cell lines of Breast Cancer cells (MCF-10A) differentiated to mesenchymal like using TGF-β

RAW Data Code Processed Data

Raw Data

MassIVE Repository:

• http: MSV000092872
• ftp:   MSV000092872

Processed Data

Processed Data:
- 000-MQ_txtFolders = txt folders outputted by maxquant across datasets
- 001-bulkProteinSetEnrichment = Results of PSEA performed on both biological replicates
- 002-singleCellDataGeneration = evidence files, DART-ID updated evidence files, DART-ID config files, cell ID to sample collection day map.

Preprint: Khan S, Conover R, Asthagiri A, Slavov N, Dynamics of single-cell protein covariation during epithelial-mesenchymal transition, bioRxiv, doi: 10.1101/2023.12.21.572913