RUCova: Removal of Unwanted Covariance in mass cytometry data

<p>Mass cytometry data, cell area measurement data, and R Markdown reports to reproduce the figures of our publication and understand the application of RUCova.</p> <p>Raw data were saved post de-convolution and spillover-compensation. Gates for singlets and non-dead cells (low_Pt) are included as logical columns and should be applied prior to usage.</p> <p>Mass cytometry data sets:</p> <ul> <li>data1_HNSCC.csv -&gt; Data from 10 Head-and-neck squamous cell carcinoma (HNSCC) cell lines in control condition and 48 h after irradiation with 10 Gy. <ul> <li>marker_category_HNSCC.csv -&gt; table for each marker in the mass cytometry panel and category.</li> </ul> </li> <li>data2_FACS.csv -&gt; Data from Cal33 cell line under different stimuli and FACS-sorted by size (small and large). <ul> <li>size_gates.png -&gt; Image depicting the FACS sorting.</li> </ul> </li> <li>data3_ru.csv -&gt; Data from Cal33 cell line with Ruthenium staining (Rapsomaniki et. al. 2018, doi:&nbsp;<span>10.1038/s41467-018-03005-5</span><span>).</span></li> <li>data_ruthenium_rapsomaniki.csv (data from Rapsomaniki et. al. 2018)&nbsp;</li> </ul> <p>Cell area measurement data:</p> <ul> <li>cell_area_HNSCC.csv -&gt; Measurements of the cell area [&micro;m^2] via microscopy images for the 10 HNSCC in control condition and after irradiation with 10 Gy.</li> </ul> <p>R Markdown reports:</p> <ul> <li>analysis.Rmd&nbsp;</li> <li>analysis.html</li> </ul>