 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jan 01, 2024 |
| Title |
lo-GelMA |
| Sample type |
SRA |
| |
|
| Source name |
skin wound+hydrogel
|
| Organism |
Mus musculus |
| Characteristics |
tissue: skin wound+hydrogel
genotype: c57bl/6
treatment: lo-GelMA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PWD5 wound tissue was dissected from the surrounding edge and healthy tissue, minced with scissors, and then dissociated with 10 ml solution of 2.7 mg/mL collagenase P (Sigma), 1mM pyruvate, 10 mM HEPES, in RPMI basal media at 37°C for 2 hours at 37C, triturating every 15 minutes. Digestion was halted with the addition of 2ml 2% FBS and live cells were isolated using Miltenyi dead cell separation kit and MS columns, per manufacturer’s instructions. Cells were finally suspended in 1ml 0.04% BSA and kept on ice until processed for library preparation.
RNA library was prepared using a 10X Chromium V3.1 kit and sequenced with NovaSeq on an S4 flow cell (UCI Genomic High Throughput Facility).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
10X Chromium sequencing FASTQ output files were aligned using Cell Ranger
Assembly: mm10
Supplementary files format and content: tab separated values and matrix
|
| |
|
| Submission date |
Nov 23, 2023 |
| Last update date |
Jan 01, 2024 |
| Contact name |
Sergei Butenko |
| Organization name |
University of California, Irvine
|
| Street address |
Irvine
|
| City |
Irvine |
| State/province |
CA |
| ZIP/Postal code |
92617 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE248524 |
Hydrogel crosslinking modulates macrophages, fibroblasts, and their communication, during wound healing |
|
| Relations |
| BioSample |
SAMN38391795 |
| SRA |
SRX22629193 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7916354_2_combined_files.tar.gz |
116.9 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
