 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jan 11, 2023 |
| Title |
CEBPB adipose specific KO BAT mRNAseq after 4h cold stress, rep5 |
| Sample type |
SRA |
| |
|
| Source name |
BAT
|
| Organism |
Mus musculus |
| Characteristics |
tissue: BAT
genotype: adipose specific CEBPB KO
treatment: 4h cold stress
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with PureLink RNA mini kit (Invitrogen)
Libraries were prepared by the Van Andel Genomics Core from 500 ng of total RNA using the KAPA Stranded mRNA-Seq Kit (v4.17) (Kapa Biosystems, Wilmington, MA USA). RNA was sheared to 300-400 bp. Prior to PCR amplification, cDNA fragments were ligated to IDT for Illumina TruSeq UD Indexed adapters (Illumina Inc, San Diego CA, USA).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Reads were trimmed with TrimGalore! v0.6.0.
Using STAR v2.7.8a, trimmed reads were aligned to the GRCm38.p6 reference genome from GENCODE vM24 and gene counts were obtained.
Assembly: mm10
Supplementary files format and content: Tab delimited files containing gene counts.
|
| |
|
| Submission date |
Sep 18, 2022 |
| Last update date |
Jan 11, 2023 |
| Contact name |
Ning Wu |
| E-mail(s) |
ning@omnispacemail.com
|
| Organization name |
Van Andel Institute
|
| Street address |
333 Bostwick Ave NE
|
| City |
Grand Rapids |
| State/province |
MI |
| ZIP/Postal code |
49503 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE213599 |
PPARg and C/EBPa response to acute cold stress in brown adipose tissue [RNA-seq] |
| GSE213601 |
PPARg and C/EBPa response to acute cold stress in brown adipose tissue |
|
| Relations |
| BioSample |
SAMN30914467 |
| SRA |
SRX17619027 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6589600_AKOco5.ReadsPerGene.out.tab.gz |
324.1 Kb |
(ftp)(http) |
TAB |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
