Processed data for X-Atlas/Orion: Genome-wide Perturb-seq Datasets via a Scalable Fix-Cryopreserve Platform for Training Dose-Dependent Biological Foundation Models

This dataset (X-Atlas/Orion) contains processed data from two genome-wide Perturb-seq experiments in HCT116 and HEK293T cell lines described in the manuscript <b>X-Atlas/Orion: Genome-wide Perturb-seq Datasets via a Scalable Fix-Cryopreserve Platform for Training Dose-Dependent Biological Foundation Models</b>Dataset:HCT116:<b>HCT116_filtered_dual_guide_cells.h5ad</b>: HCT116 cells that contain two sgRNAs targeting the same gene and from the same guide pair<b>HCT116_filtered_dual_guide_cells.h5ad.md5</b>: checksum for HCT116_filtered_dual_guide_cells.h5adHEK293T:<b>HEK293T_filtered_dual_guide_cell</b><b>s</b><b>.h5ad</b>: HEK293T cells that contain two sgRNAs targeting the same gene and from the same guide pair<b>HEK293T_filtered_dual_guide_cell</b><b>s</b><b>.h5ad.md5</b>: checksum for HEK293T_filtered_dual_guide_cells.h5adh5ads containing all aligned cells to be released at a later date.Description of h5ads: h5ads are AnnData objects that contain the following metadatacell-level (obs):sample: GEM batchnum_features: number of guidesguide_target: guide identitygene_target: gene targeted by guiden_genes_by_counts: number of genes with non-zero countstotal_counts: total UMIstotal_counts_mt: total UMIs from MT genespct_counts_mt: % UMIs from MT genespass_guide_filter: boolean if cells contains two guides from the same guide pairgene-level (var):mt: boolean if gene is MT genen_cells_by_counts: number of cells gene has non-zero UMIs inmean_counts: mean UMIs over all cellspct_dropout_by_counts: % of cells this gene does not appear intotal_counts: sum of UMIs for a gene<br>