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| Status |
Public on Jan 11, 2023 |
| Title |
CEBPB adipose specific KO BAT mRNAseq at RT, rep2 |
| Sample type |
SRA |
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| Source name |
BAT
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| Organism |
Mus musculus |
| Characteristics |
tissue: BAT
genotype: adipose specific CEBPB KO
treatment: RT
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| 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).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| 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.
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| Submission date |
Sep 18, 2022 |
| Last update date |
Jan 11, 2023 |
| Contact name |
Ning Wu |
| E-mail(s) |
ning@omnispacemail.com
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| Organization name |
Van Andel Institute
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| Street address |
333 Bostwick Ave NE
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| City |
Grand Rapids |
| State/province |
MI |
| ZIP/Postal code |
49503 |
| Country |
USA |
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| 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 |
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| Relations |
| BioSample |
SAMN30914465 |
| SRA |
SRX17619029 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6589602_AKORT2.ReadsPerGene.out.tab.gz |
325.5 Kb |
(ftp)(http) |
TAB |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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