Spatial mapping of human hematopoiesis at single-cell resolution reveals aging-associated topographic remodeling
Creators
Description
This repository contains the data for the paper "Spatial mapping of human hematopoiesis at single-cell resolution reveals aging-associated topographic remodeling".
Data schema is follows:
'n_obs': 1510295,
'n_vars': 6,
'obs': ['sample_id',
'cell_index',
'cell_type',
'graph_cluster',
'distance_Fat',
'distance_Trabecules',
'distance_Endothelium',
'perimeter',
'center_x',
'center_y',
'cell_type_community',
'nb_num_pixels_150_Endothelium',
'nb_num_pixels_150_Trabeculae',
'nb_num_pixels_150_Fat',
'nuclei_ratio',
'case_id',
'category',
'age_at_dx',
'm_f',
'CD71_mean_intensity',
'CD61_mean_intensity',
'CD117_mean_intensity',
'CD38_mean_intensity',
'CD34_mean_intensity',
'CD15_mean_intensity',
'chm',
'cell_area_um',
'age_group',
'gender',
'fat_to_cell_ratio',
'fat_to_cell_amount',
'organism_ontology_term_id',
'donor_id',
'disease_ontology_term_id',
'tissue_type',
'suspension_type',
'development_stage_ontology_term_id',
'sex_ontology_term_id',
'assay_ontology_term_id',
'tissue_ontology_term_id',
'self_reported_ethnicity_ontology_term_id',
'cell_type_ontology_term_id'],
'obsm': ['X_graph_nn_embeddings', 'X_pca', 'spatial'],
'uns': ['age_group_palette',
'cell_type_colors',
'cell_type_order',
'cell_type_palette',
'cytopenia_palette',
'dendrogram_graph_cluster',
'gender_palette',
'graph_cluster_palette',
'sample_order',
'staging_palette',
'tissue_type_palette',
'title'],
'var': ['gene_name_at_imaging']}
anndata.X contains mean intensity values per segmented cell contour
Files
Files
(841.4 MB)
Name | Size | Download all |
---|---|---|
md5:bbcadd10d53e23255f285278bf050d73
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841.4 MB | Download |
Additional details
Identifiers
Software
- Repository URL
- https://github.com/BostonGene/AgingHemaTopoMap
- Development Status
- Wip