Multicenter reverse-phase protein array data integration

de Koning, L.; Bernhardt, S.; Macleod, K. G.; Ouine, B.; Cartier, A.; Sibut, V.; Carragher, N. O.; Korf, U.; Serrels, B.; Byron, A.

doi:10.1101/2021.08.31.458377

bioRxiv · 10.1101/2021.08.31.458377

Multicenter reverse-phase protein array data integration

de Koning, L.·Bernhardt, S.·Macleod, K. G.·Ouine, B.·Cartier, A.·Sibut, V.·Carragher, N. O.·Korf, U.·Serrels, B.·Byron, A.

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Abstract

Among the technologies available for protein biomarker discovery and validation, reverse-phase protein array (RPPA) benefits from unequalled sample throughput. Panels of high-quality antibodies enable the quantification by RPPA of protein abundance and posttranslational modifications in biological specimens with high precision and sensitivity. Incorporation of RPPA technology into clinical and drug development pipelines requires robust assays that generate reproducible results across multiple laboratories. We implemented the first international multicenter pilot study to investigate RPPA workflow variability. We characterized the proteomic responses of a series of breast cancer cells to two cancer drugs. This analysis quantified 86,832 sample spots, representing 108 biological samples, arrayed at three independent RPPA platforms. This unique integrated set of data is publicly available as a resource to the proteomic and cancer research communities to catalyse further analysis and investigation. We anticipate that this dataset will form a reference for the comparison of RPPA workflows and reagents, which can be expanded in the future, and will aid the identification of platform-robust treatment-marker antigens in breast cancer cells. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=95 SRC="FIGDIR/small/458377v1_ufig1.gif" ALT="Figure 1"> View larger version (17K): org.highwire.dtl.DTLVardef@e2fb2forg.highwire.dtl.DTLVardef@1d8f425org.highwire.dtl.DTLVardef@84dd60org.highwire.dtl.DTLVardef@e1ccf7_HPS_FORMAT_FIGEXP M_FIG C_FIG

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de Koning, L., Bernhardt, S., Macleod, K. G., Ouine, B., Cartier, A., Sibut, V., Carragher, N. O., Korf, U., Serrels, B., Byron, A.. 2021-08-31. Multicenter reverse-phase protein array data integration. https://doi.org/10.1101/2021.08.31.458377

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