BuDDI manuscript data and results

In this zipped folder are two folders: <strong>data</strong> and <strong>results</strong> <br> <strong>data</strong> <br> <strong>data</strong> contains two subfolders: <strong>bulk_data</strong> <strong>single_cell_data</strong> <br> <strong>bulk_data </strong>has the processed bulk data for the sex-dependent liver analysis (original data is from Schaum, N. et al. Ageing hallmarks exhibit organ-specific temporal signatures. Nature 583, 596–602 (2020). Original data used for processing can be downloaded from Gene Expression Omnibus, under accession ID GSE132040. <br> <strong>single_cell_data</strong> has the processed single-cell data and the generated pseudobulks used by BuDDI. Within this folder, <strong>kang_rybakov </strong>contains the processed Kang et al. data used in the analysis. (original data is from Kang, H. M. <em>et al.</em> Multiplexed droplet single-cell RNA-sequencing using natural genetic variation. <em>Nat. Biotechnol.</em> <strong>36</strong>, 89–94 (2018).) <strong>liver_sex</strong> contains the processed single-cell data used to generate pseudobulks (original data is from 1.Tabula Muris Consortium. A single-cell transcriptomic atlas characterizes ageing tissues in the mouse. Nature 583, 590–595 (2020). and 2.Schaum, N. et al. Ageing hallmarks exhibit organ-specific temporal signatures. Nature 583, 596–602 (2020). <strong>cibersort_*</strong> contains the data used to perform CIBERSORTx <strong>augmented_*</strong> contains the pseudobulks <br> <strong>results</strong> <br> This folder contains several results folders. Each one is specific to an experiment and a model. The naming convention is "model_experiment" <strong>buddiM2</strong>: the BuDDI model <strong>CVAE</strong>: conditional variational autoencoder <strong>PCA</strong>: principal components analysis <strong>bp</strong>: BayesPrism <strong>cibsersort</strong>: CIBERSORTx