Regional epithelial cell diversity in the small intestine of pigs
Single cell suspensions enriched for epithelial cells were obtained from duodenum, jejunum, and ileum of a 7.5-week-old pig and subjected to single-cell RNA sequencing (scRNA-seq). scRNA-seq was performed to provide transcriptomic profiles of epithelial cells, with 695 cells annotated into 6 cell types. Deeper interrogation of data revealed previously undescribed cells in porcine intestine, and region-specific gene expression profiles within specific cell subsets. Data herein includes a .h5seurat files of the epithelial cell subsets analyzed. Files may be used to reconstruct different analyses and perform further data query. Scripts for original data analyses are found at https://github.com/USDA-FSEPRU/scRNAseqEpSI_Pilot. Raw data are available at GEO accession GSE208613. Data are available for online query at https://singlecell.broadinstitute.org/single_cell/study/SCP1936/regional-epithelial-cell-diversity-in-the-small-intestine-of-pigs. Resources in this dataset:Resource Title: .h5Seurat object - epithelial cells. File Name: EpithelialCells.tarResource Description: Epithelial cells used for data analysis, available in .h5Seurat file format. Untar file before use.
Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[
"005:18"
]
|
| contactPoint |
{
"fn": "Loving, Crystal",
"hasEmail": "mailto:crystal.loving@usda.gov"
}
|
| description | <p>Single cell suspensions enriched for epithelial cells were obtained from duodenum, jejunum, and ileum of a 7.5-week-old pig and subjected to single-cell RNA sequencing (scRNA-seq). scRNA-seq was performed to provide transcriptomic profiles of epithelial cells, with 695 cells annotated into 6 cell types. Deeper interrogation of data revealed previously undescribed cells in porcine intestine, and region-specific gene expression profiles within specific cell subsets. Data herein includes a .h5seurat files of the epithelial cell subsets analyzed. Files may be used to reconstruct different analyses and perform further data query. Scripts for original data analyses are found at <a href="https://github.com/USDA-FSEPRU/scRNAseqEpSI_Pilot">https://github.com/USDA-FSEPRU/scRNAseqEpSI_Pilot</a>. Raw data are available at GEO accession GSE208613. Data are available for online query at <a href="https://singlecell.broadinstitute.org/single_cell/study/SCP1936/regional-epithelial-cell-diversity-in-the-small-intestine-of-pigs">https://singlecell.broadinstitute.org/single_cell/study/SCP1936/regional-epithelial-cell-diversity-in-the-small-intestine-of-pigs</a>. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: .h5Seurat object - epithelial cells.</p> <p>File Name: EpithelialCells.tar</p><p>Resource Description: Epithelial cells used for data analysis, available in .h5Seurat file format. Untar file before use.</p></li></ul><p></p> |
| distribution |
[
{
"@type": "dcat:Distribution",
"title": "EpithelialCells.tar",
"format": "tar",
"mediaType": "application/octet-stream",
"downloadURL": "https://ndownloader.figshare.com/files/44532434"
}
]
|
| identifier | 10.15482/USDA.ADC/1527979 |
| keyword |
[
"ARS",
"BEST4",
"NP108",
"Pig",
"data.gov",
"enterochromaffin",
"enterocyte",
"enteroendocrine",
"epithelial",
"epithelium",
"intestine",
"scRNA-seq",
"single-cell",
"single-cell RNA sequencing"
]
|
| license | https://creativecommons.org/licenses/by-sa/4.0/ |
| modified | 2025-11-21 |
| programCode |
[
"005:040"
]
|
| publisher |
{
"name": "Agricultural Research Service",
"@type": "org:Organization"
}
|
| spatial |
"{"type": "Polygon", "coordinates": [[[-93.581439973495, 42.034851789973], [-93.581439973495, 42.053922832501], [-93.569766999863, 42.053922832501], [-93.569766999863, 42.034851789973], [-93.581439973495, 42.034851789973]]]}"
|
| temporal | 2019-09-26/2019-09-26 |
| title | Regional epithelial cell diversity in the small intestine of pigs |
