|
| Status |
Public on May 29, 2024 |
| Title |
PEL_3d-1 |
| Sample type |
SRA |
| |
|
| Source name |
Hypothalamus
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Hypothalamus
treatment: Pituitary stalk electrical lesion (PEL)
time: Day 3
|
| Growth protocol |
Brain tissue was removed and stored in liquid nitrogen
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Apr 16, 2023 |
| Last update date |
May 29, 2024 |
| Contact name |
guangsen wu |
| E-mail(s) |
wgsensen@sina.com
|
| Phone |
15521009401
|
| Organization name |
Southern Medical University Nanfang Hospital
|
| Street address |
广东省广州市广州大道北1838号南方医科大学南方医院
|
| City |
guangzhou |
| ZIP/Postal code |
051000 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE229838 |
Effect of pituitary stalk electrical lesion (PEL) and growth hormone (GH) treatment on hypothalamic and hippocampal gene expression |
|
| Relations |
| BioSample |
SAMN34209501 |
| SRA |
SRX19983807 |
