Biomedicine: Protein Profile of Tumor Cells Decoded

Photo: Protein signatures

The protein signatures show how sensitively the tumor cell lines investigated react to two drugs (see large picture down); © Gholami/TUM

Since proteins are responsible for converting somatic cells into tumor cells, scientists have now decoded the proteome of 59 tumor cell lines – and have found new ways to explain why cancer drugs do not have the same effect on all patients.

In what is the biggest study of its kind to date, researchers from Technische Universität München (TUM), Germany, have identified over 10,000 different proteins in cancer cells. “Nearly all anti-tumor drugs are targeted against cellular proteins,” says Prof. Bernhard Küster. “Identifying the proteome the protein portfolio of tumor cells increases our chances of finding new targets for drugs.”

The scientists investigated 59 tumor cell lines from the US National Cancer Institute. The “NCI-60” cell lines represent the most common tumor diseases in nine tissues (like brain, breast, bowels, skin, and blood). Cancer researchers in all parts of the world use them in their experiments. Dr. Amin Gholami elaborates: “Before now, there was little knowledge on the proteome of the NCI-60 cell lines. But it is proteins that make the difference between a healthy cell and a tumor cell.”

The scientists found over 10,000 different proteins in the NCI-60 cell lines. More than 5,000 of them are present in varying abundance in tumor cell lines of all types of tissue. “We can assume that this is the core proteome of cancer,” comments Küster. However, the researchers also found some clearly distinguishable protein profiles between the tumor cells of different tissues – a clear indication that the tumor cells possess typical characteristics of healthy cells of the same tissue.

375 of the 10,000 or so proteins belong to the kinase group. These proteins are responsible for transmitting signals which cells use to control their metabolic reactions, their division, or their communication with other cells in the tissue, for example. Dr. Zhixiang Wu explains the wide range of different kinases in the NCI-60 cell line panel: “Unlike healthy cells, tumor cells are open to many signaling pathways in order to activate their division and ensure their survival.”

Küster adds: “The kinases play a part in the continuous reproduction process of tumor cells. The wide variety of kinases shows how different these mechanisms are in human cancer diseases. This is an important discovery for personalized medicine.”

In another first, TUM researchers were able to prove that the protein pattern of the cells determines the effectiveness of cancer drugs. “We investigated how the cell lines react to 108 different cancer drugs and found that there are indeed proteins that indicate whether a cell will respond to certain therapeutic agents – or whether it will be resistant to the drug,” explains Dr. Hannes Hahne. As an example, he mentions the 14-3-3 zeta/delta protein, which is suspected of mediating resistance against cancer drugs.

Photo: Protein signatures

The protein signatures show how sensitively the tumor cell lines investigated (box, left to right) react to two drugs: the chemotherapy drug Taxol (top) and the kinase inhibitor Dasatinib (below gray line). The first line shows the reaction – from blue to red: low to high sensitivity; the lines below show the abundance of different proteins in the cell lines: small number blue, high number red; © Gholami/TUM; Source: Technische Universität München