High-throughput transcriptomic and proteomic profiling of mesenchymal-amoeboid transition in 3D collagen

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Abstract

The plasticity of cancer cell invasion represents substantial hindrance for effective anti-metastatic therapy. To better understand the cancer cells’ plasticity, we performed complex transcriptomic and proteomic profiling of HT1080 fibrosarcoma cells undergoing mesenchymal-amoeboid transition (MAT). As amoeboid migratory phenotype can fully manifest only in 3D conditions, all experiments were performed with 3D collagen-based cultures. Two previously described approaches to induce MAT were used: doxycycline-inducible constitutively active RhoA expression and dasatinib treatment. RNA sequencing was performed with ribo-depleted total RNA. Protein samples were analysed with tandem mass tag (TMT)-based mass spectrometry. The data provide unprecedented insight into transcriptome and proteome changes accompanying MAT in true 3D conditions.

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Čermák, V., Gandalovičová, A., Merta, L., Harant, K., Rösel, D., & Brábek, J. (2020). High-throughput transcriptomic and proteomic profiling of mesenchymal-amoeboid transition in 3D collagen. Scientific Data, 7(1). https://doi.org/10.1038/s41597-020-0499-2

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