GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE129218 Query DataSets for GSE129218
Status Public on Mar 10, 2020
Title Single-cell RNA-sequencing of full thickness mouse skin during anagen and telogen
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Despite the recent application of single-cell RNA-sequencing to aspects of mouse skin biology, the full cellular heterogeneity of the mouse skin (including both epidermis and skin stroma) and its relationship with the hair cycle is still uncharted. In order to systematically compare the cellular composition of mouse skin during rest and hair growth, we created single-cell RNA-sequencing libraries from full thickness mouse skin cell suspensions sampled during anagen (5w) and telogen (9w).
Overall design Full thickness skin cell suspensions (including both epidermal and stromal cells) were isolated from the dorsal skin of female wildtype C57bl/6 mice during anagen (5w, n = 3) and telogen (9w, n = 3). Single-cell cDNA libraries were created using the Chromium Single Cell 3’ kit (version1, 10X Genomics) and sequenced on an Illumina HiSeq2500 (main dataset). Note that one 9w replicate was removed from the analysis retroactively. For cluster validation, a second dataset (validation dataset) was created using the Chromium Single Cell 3’ kit (version3, 10X Genomics) and sequenced on an Illumina NovaSeq 6000. Note that cells for validation - 9w - replicate 2 and validation - 9w -replicate 3 were isolated from the same animal.
Contributor(s) Joost S, Sandberg R, Kasper M
Citation(s) 32109378
Submission date Apr 02, 2019
Last update date Mar 10, 2020
Contact name Simon Joost
Organization name Karolinska Institutet
Department BioNut
Lab Maria Kasper
Street address Blickagången 16
City Huddinge
ZIP/Postal code 141 57
Country Sweden
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (12)
GSM3702747 5w - replicate 1
GSM3702748 5w - replicate 2
GSM3702749 5w - replicate 3
BioProject PRJNA530551
SRA SRP191462

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE129218_RAW.tar 60.6 Mb (http)(custom) TAR (of H5)
GSE129218_assigned_barcodes.txt.gz 29.1 Kb (ftp)(http) TXT
GSE129218_barcodes_5w.tsv.gz 13.2 Kb (ftp)(http) TSV
GSE129218_barcodes_9w.tsv.gz 12.1 Kb (ftp)(http) TSV
GSE129218_genes_5w.tsv.gz 212.7 Kb (ftp)(http) TSV
GSE129218_genes_9w.tsv.gz 212.7 Kb (ftp)(http) TSV
GSE129218_matrix_5w.mtx.gz 15.6 Mb (ftp)(http) MTX
GSE129218_matrix_9w.mtx.gz 6.7 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap