DOI: 10.6084/m9.figshare.12543473.v6
title: Source Data Underlying Manuscript Figures

description: <b>Fig1aSupplementaryDataMixture.xlsx</b><br>Source data underlying <b>Figure 1a</b> of the manuscript. In Silico mixtures which are deconvolved.<br>Row names:CellType - Cell type spiked in at a particular fraction<br>SpikePercentage - Percentage cell type is spiked in at<br>TumorContent - Percentage of tumor content added to methylation mixture<br>CancerType - Cancer cell line used as the tumor content<br>Replicate - Replicate number<br><br>Cell type names ending in "_GT" are the ground truth percentages of those cell types<br><br>Rows with "cg" correspond to CpG site on 450k methylation array with the Beta values for each mixture in the columns<br><b>Fig1aSupplementaryDataDeconvolution.xlsx<br></b><br>Source data underlying <b>Figure 1a</b> of the manuscript. Results of deconvolution of in silico mixtures.<br>Column names:Method - Method used for deconvolution<br>CellType - Cell type spiked in at a particular fractionSpikePercentage - Percentage cell type is spiked in at<br>TumorContent - Percentage of tumor content added to methylation mixture<br>CancerType - Cancer cell line used as the tumor content<br>Replicate - Replicate number<br><br>Cell type names ending in "_GT" are the ground truth percentages of those cell types; cell type names not ending in "_GT" are the predicted cell type fractions using the specified method.<br><b>Fig1bSupplementaryDataMixture.xlsx</b><br>Source data underlying <b>Figure 1b</b> of the manuscript. In Vitro mixtures which are deconvolved.<br>Row names:Mixture - In Vitro mixture name -- this corresponds to the cell type fractions in the mixtureTumorContent - Percentage of tumor content added to methylation mixture<br>CancerType - Cancer cell line used as the tumor content<br>NoiseCoefficient - Amount of noise added to the mixture<br>Replicate - Replicate number<br>Cell type names ending in "_GT" are the ground truth percentages of those cell types<br><br>Rows with "cg" correspond to CpG site on 450k methylation array with the Beta values for each mixture in the columns<br><b>Fig1bSupplementaryDataDeconvolution.xlsx</b><br><b><br></b>Source data underlying <b>Figure 1b</b> of the manuscript. Results of deconvolution of in vitro mixtures.<br>Column names:Method - Method used for deconvolution<br>Mixture - In Vitro mixture name -- this corresponds to the cell type fractions in the mixtureTumorContent - Percentage of tumor content added to methylation mixture<br>CancerType - Cancer cell line used as the tumor content<br>NoiseCoefficient - Amount of noise added to the mixture<br>Replicate - Replicate number<br><br>Cell type names ending in "_GT" are the ground truth percentages of those cell types; cell type names not ending in "_GT" are the predicted cell type fractions using the specified method.<br><b>Fig1cSupplementaryDataDeconvolution.xlsx</b><br>Source data underlying <b>Figure 1c</b> of the manuscript. Results of deconvolution of whole blood and engineered mixtures using LTS regression and the new signature matrix.<b><br></b><br>Column names:Mixture - Mixture name -- this corresponds to the cell type fractions in the mixture<br>Cell type names ending in "_GT" are the ground truth percentages of those cell types; cell type names not ending in "_GT" are the predicted cell type fractions using the specified method.<br>RMSE1,RMSE2,R1,R2 -- these correspond to the goodness-of-fit metrics<br><b>Fig2a2bSupplementaryDataDeconvolution.xlsx</b><br>Source data underlying <b>Figures 2a</b> and <b>2b</b> of the manuscript. Results of deconvolution of true positive and true negative samples using LTS regression and the new signature matrix.<br><br>Column names:<br>Sample - Sample GEO accession<br>RMSE1, R1, RMSE2, R2 - goodness of fit metrics which are plotted in Figures 2a and 2bCell type names - the predicted cell type fractions using LTS and the new signature<br>Tissue - the annotated tissue (or tissue of origin)