1k PBMCs

1k peripheral blood mononuclear cells from a healthy donor



10x Genomics (2018)
45.29 MiB
1087 × 15099

Used in


1k Peripheral Blood Mononuclear Cells (PBMCs) from a healthy donor. Sequenced on 10X v3 chemistry in November 2018 by 10X Genomics.


dataset is an AnnData object with n_obs × n_vars = 1087 × 15099 with slots:


Name Description Type Data type Size
size_factors The size factors created by the normalisation method, if any. vector float32 1087
feature_name A human-readable name for the feature, usually a gene symbol. vector object 15099
hvg Whether or not the feature is considered to be a ‘highly variable gene’ vector bool 15099
hvg_score A ranking of the features by hvg. vector float64 15099
knn_connectivities K nearest neighbors connectivities matrix. sparsematrix float32 1087 × 1087
knn_distances K nearest neighbors distance matrix. sparsematrix float64 1087 × 1087
X_pca The resulting PCA embedding. densematrix float32 1087 × 50
pca_loadings The PCA loadings matrix. densematrix float64 15099 × 50
counts Raw counts sparsematrix float32 1087 × 15099
normalized Normalised expression values sparsematrix float32 1087 × 15099
dataset_description Long description of the dataset. atomic str 1
dataset_id A unique identifier for the dataset. This is different from the obs.dataset_id field, which is the identifier for the dataset from which the cell data is derived. atomic str 1
dataset_name A human-readable name for the dataset. atomic str 1
dataset_organism The organism of the sample in the dataset. atomic str 1
dataset_reference Bibtex reference of the paper in which the dataset was published. atomic str 1
dataset_summary Short description of the dataset. atomic str 1
dataset_url Link to the original source of the dataset. atomic str 1
knn Supplementary K nearest neighbors data. dict 3
normalization_id Which normalization was used atomic str 1
pca_variance The PCA variance objects. dict 2


10x Genomics. 2018. “1k PBMCs from a Healthy Donor (V3 Chemistry).” https://www.10xgenomics.com/resources/datasets/1-k-pbm-cs-from-a-healthy-donor-v-3-chemistry-3-standard-3-0-0.