Dynamics of cell states and alternative splicing following kidney ischemia-reperfusion injury - Supplementary Datasets

Dataset S1: Gene expression counts and metadata obtained from the RNAseq dataset generated by Liu et al. Dataset S2: The topics discovered by topic modeling (“factors”) and their proportions at each time point (“loadings”). Dataset S3: A list of genes compiled from the literature marking cell subtypes and cell states in the healthy and injured kidney. Dataset S4: GO enrichment analysis for genes that are over-expressed in topic k1. Dataset S5: GO enrichment analysis for genes that are over-expressed in topic k2. Dataset S6: GO enrichment analysis for genes that are over-expressed in topic k3. Dataset S7: GO enrichment analysis for genes that are over-expressed in topic k4. Dataset S8: GO enrichment analysis for genes that are over-expressed in topic k5. Dataset S9: A list of cassette exons that were found to be significantly alternatively spliced following IRI (FDR = 0 and , Figure 2A), along with their inclusion levels and results from GO enrichment analysis. Dataset S10: A list of known RNA binding proteins and motifs that were examined in this study.