UMAP Construction

by applying umap dimensionality reduction, high dimensional single cell expression profiles are projected into a low dimensional space that preserves both local and global transcriptional relationships this approach facilitates the visualization of cellular heterogeneity and highlights context specific gene expression within the same biological context at the cell type resolution the umap visualizations were generated from one representative single cell dataset corresponding to the same tissue type as that used for the displayed network for gene expression visualization, the expression data was normalized and scaled to equal variance and zero mean the umap visualizations were generated from one representative dataset from the cz cellxgene collection ( 1 docid\ chhswcmhvimtnogva8cjr ) corresponding to the same tissue type as that used for the displayed network for gene expression visualization, the expression data was normalized and scaled to equal variance and zero mean table 1 information on the datasets used for umap creations, for the different network within mavatar discovery tissue collection dataset source plot blood/pbmc tabula sapiens blood explore https //cellxgene cziscience com/e/983d5ec9 40e8 4512 9e65 a572a9c486cb cxg/ bone marrow tabula sapiens bone marrow explore https //cellxgene cziscience com/e/4f1555bc 4664 46c3 a606 78d34dd10d92 cxg/ brain human brain cell atlas v1 0 dissection cerebral cortex (cx) inferior frontal gyrus (ifg) ventrolateral prefrontal cortex a44 a45 explore https //cellxgene cziscience com/e/6ed0bb6c a9e3 4ba6 9436 7c8fd4e206f0 cxg/ breast human breast cancer single cell atlas global atlas explore https //cellxgene cziscience com/e/de5416ef bbfa 41f3 99d4 01a3554173f5 cxg/ gastrointestinal a proximal to distal survey of healthy adult human small intestine and colon epithelium by single cell transcriptomics explore https //cellxgene cziscience com/e/019c7af2 c827 4454 9970 44d5e39ce068 cxg/ large intestine tabula sapiens large intestine explore https //cellxgene cziscience com/e/7357cee7 9f7f 4ab0 8cec 90de8f047e38 cxg/ liver tabula sapiens liver explore https //cellxgene cziscience com/e/6d41668c 168c 4500 b06a 4674ccf3e19d cxg/ lung tabula sapiens lung explore https //cellxgene cziscience com/e/0d2ee4ac 05ee 40b2 afb6 ebb584caa867 cxg/ multi tissue tabula sapiens immune explore https //cellxgene cziscience com/e/c5d88abe f23a 45fa a534 788985e93dad cxg/ ovary tabula sapiens ovary explore https //cellxgene cziscience com/e/bb78adbb 1428 4468 bad0 63602bb974e9 cxg/ pancreas automatic cell type harmonization and integration across human cell atlas datasets pancreas explore https //cellxgene cziscience com/e/31f657dc 1875 4c4b a5ca ce63b3ef3a82 cxg/ prostate tabula sapiens prostate explore https //cellxgene cziscience com/e/d77ec7d6 ef2e 49d6 9e79 05b7f8881484 cxg/ skin tabula sapiens skin explore https //cellxgene cziscience com/e/0041b9c3 6a49 4bf7 8514 9bc7190067a7 cxg/ small intestine tabula sapiens small intestine explore https //cellxgene cziscience com/e/a357414d 2042 4eb5 95f0 c58604a18bdd cxg/ read more on how to interpret the umap in mavatar discovery under cell type explorer docid\ xfu1ggawgnttln4ypfw0v references cz cellxgene discover cellular visualization tool (available at https //cellxgene cziscience com/ https //cellxgene cziscience com/ )