dual scRNA-seq analysis of P. vivax infected hepatocytes

This repository contains the processed data (final selection of cells) supporting the analyses published in the Cell Host and Microbes article. Two time-course experiments were performed, from which corresponding SeqWell libraries were generated. These libraries were subsequently enriched for P. vivax-derived transcripts. Only post-enrichment, infected libraries were sequenced from "Experiment 1" - these are denoted "SEQ50" and "SEQ100" with respect to the parasite load used for infection. Regarding the second experiment reported here, both pre-captured (mostly host) and post-capture, infected libraries were sequenced. Therefore "Experiment 2" accounts for all the "host" data and all the P.vivax data annotated "SEQ1" or "SEQ2" (two replicates per infection for each time-point). "p" denotes treatment with a PI4K inhibitor. The files are organized as follows: - Host_compartment_CHM_final_object.RDS : Seurat object (R statistical environment) with filtered, pre-capture Experiment 2 data - Host_compartment_Final_CHM_counts.tar : MatrixMarket formatted count data, with cell names and gene names included as tab-separated files - PvData_CHM_Final.RDS : Seurat object (R statistical environment) with filtered, parasite-enriched data from Experiments 1 and 2 (cell names as referenced above) - PvData_CHM_Final_counts.csv.gz : comma-separated files of SCT-transformed parasite count data matching the PvData_CHM_Final.RDS object - TableS2_Cell_Metadata.xls : Metadata for all cells reported in this repository