HuBMAP-wide data products contain consolidated data for all datasets of a particular assay type and tissue, across all datasets, assay variants, and data providers. RNA-seq data products are added as both raw and processed versions: 'raw' features gene expression count matrices from the HuBMAP RNA-seq pipeline, and 'processed' versions are the results of secondary analysis (normalization, filtering, dimensionality reduction, clustering) applied to the raw matrix.

Tissue TypeCreation TimeAssay TypeNumber of DatasetsTotal Raw CellsNumber Raw Cell TypesTotal Processed CellsNumber Processed Cell TypesRaw Data Product DownloadProcessed Data Product DownloadShiny App(All Versions)
Bladder Oct. 17, 2024, 3:09 p.m. rna-seq 14 170943 NA 163848 NA Raw H5AD Processed H5AD Shiny App All versions of Bladder
Fallopian Tube (Left) Nov. 22, 2024, 9:31 p.m. multiome-rna-atac 4 32329 NA 17397 NA Raw h5mu Processed h5mu NA All versions of Fallopian Tube (Left)
Fallopian Tube (Left) Nov. 13, 2024, 2:53 p.m. rna-seq 11 34935 NA 14668 NA Raw H5AD Processed H5AD Shiny App All versions of Fallopian Tube (Left)
Fallopian Tube (Right) Nov. 26, 2024, 6:51 p.m. multiome-rna-atac 14 91339 NA 46054 NA Raw h5mu Processed h5mu NA All versions of Fallopian Tube (Right)
Fallopian Tube (Right) Nov. 13, 2024, 2:53 p.m. rna-seq 21 34931 NA 15944 NA Raw H5AD Processed H5AD Shiny App All versions of Fallopian Tube (Right)
Heart Oct. 17, 2024, 3:09 p.m. rna-seq 24 1007679 21 39181 19 Raw H5AD Processed H5AD Shiny App All versions of Heart
Kidney (Left) Oct. 31, 2024, 5:32 p.m. rna-seq 106 2532334 48 942124 48 Raw H5AD Processed H5AD Shiny App All versions of Kidney (Left)
Kidney (Right) Dec. 2, 2024, 3:35 p.m. rna-seq 108 3717162 48 831730 48 Raw H5AD Processed H5AD Shiny App All versions of Kidney (Right)
Knee (Left) Oct. 31, 2024, 5:32 p.m. rna-seq 2 21926 NA 13254 NA Raw H5AD Processed H5AD Shiny App All versions of Knee (Left)
Knee (Right) Oct. 31, 2024, 5:32 p.m. rna-seq 11 128767 NA 88585 NA Raw H5AD Processed H5AD Shiny App All versions of Knee (Right)
Large Intestine Oct. 7, 2024, 3 p.m. atac 38 258178 NA 0 NA Raw h5mu NA All versions of Large Intestine
Large Intestine Nov. 6, 2024, 3:26 p.m. codex 67 922074 NA 0 NA Raw H5AD NA All versions of Large Intestine
Large Intestine Oct. 31, 2024, 5:32 p.m. rna-seq 45 172947 NA 98524 NA Raw H5AD Processed H5AD Shiny App All versions of Large Intestine
Liver Oct. 31, 2024, 5:32 p.m. rna-seq 5 7916 NA 4652 NA Raw H5AD Processed H5AD Shiny App All versions of Liver
Lung (Left) Dec. 2, 2024, 3:35 p.m. rna-seq 34 1750102 47 259875 45 Raw H5AD Processed H5AD Shiny App All versions of Lung (Left)
Lung (Right) July 22, 2024, 7:36 p.m. rna-seq 34 1750102 48 259875 48 Raw H5AD Processed H5AD Shiny App All versions of Lung (Right)
Lymph Node Nov. 7, 2024, 3:06 p.m. codex 64 2770708 NA 0 NA Raw H5AD NA All versions of Lymph Node
Lymph Node Oct. 31, 2024, 5:32 p.m. rna-seq 5 27383 NA 24228 NA Raw H5AD Processed H5AD Shiny App All versions of Lymph Node
Ovary (Left) Nov. 26, 2024, 6:51 p.m. multiome-rna-atac 15 81924 NA 44972 NA Raw h5mu Processed h5mu NA All versions of Ovary (Left)
Ovary (Left) Nov. 13, 2024, 2:53 p.m. rna-seq 43 139637 NA 84675 NA Raw H5AD Processed H5AD Shiny App All versions of Ovary (Left)
Ovary (Right) Nov. 26, 2024, 6:51 p.m. multiome-rna-atac 18 85659 NA 41203 NA Raw h5mu Processed h5mu NA All versions of Ovary (Right)
Ovary (Right) Nov. 13, 2024, 2:53 p.m. rna-seq 26 39799 NA 18457 NA Raw H5AD Processed H5AD Shiny App All versions of Ovary (Right)
Small Intestine Oct. 7, 2024, 3:17 p.m. atac 41 450494 NA 0 NA Raw h5mu NA All versions of Small Intestine
Small Intestine Nov. 7, 2024, 3:06 p.m. codex 68 1331626 NA 0 NA Raw H5AD NA All versions of Small Intestine
Small Intestine Oct. 31, 2024, 5:32 p.m. rna-seq 43 146988 NA 105499 NA Raw H5AD Processed H5AD Shiny App All versions of Small Intestine
Spleen Nov. 7, 2024, 3:06 p.m. codex 65 3939679 NA 0 NA Raw H5AD NA All versions of Spleen
Spleen Oct. 31, 2024, 5:32 p.m. rna-seq 16 108929 NA 80832 NA Raw H5AD Processed H5AD Shiny App All versions of Spleen
Thymus Nov. 6, 2024, 3:26 p.m. codex 36 1525572 NA 0 NA Raw H5AD NA All versions of Thymus
Uterus Nov. 22, 2024, 5:57 p.m. multiome-rna-atac 15 112096 NA 40013 NA Raw h5mu Processed h5mu NA All versions of Uterus
Uterus Nov. 13, 2024, 2:53 p.m. rna-seq 39 119689 NA 62568 NA Raw H5AD Processed H5AD Shiny App All versions of Uterus