|
| Status |
Public on Jun 14, 2023 |
| Title |
week 10 aERKO-DES seminal vesicles |
| Sample type |
SRA |
| |
|
| Source name |
week 10 aERKO mouse SVs DES group
|
| Organism |
Mus musculus |
| Characteristics |
tissue: seminal vesicles
genotype: aERKO
treatment: DES
age: week 10
strain: C57BL/6
antibody: H3K27ac
|
| Treatment protocol |
For neonatal treatment, male or female pups were treated by subcutaneous injection with DES (Sigma Aldrich), dissolved in corn oil at 2 µg/pup/day on days 1-5 (day of birth = 1) (DES group) or an equal volume of corn oil (control group).
|
| Growth protocol |
The mouse SV or uterus tissues were colleclted from WT and aERKO mice in the control and DES groups.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Pooled genomic DNA samples were sent to ACTIVE MOTIF for the assay
It was performed at ACTIVE MOTIF fllowing their protocol
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
The raw ChIP-Seq reads were initially processed by filtering with average quality scores greater than 20.
Then the reads were aligned to the mouse reference genome (mm10; Genome Reference Consortium Mouse Build 38 from December 2011) using Bowtie version 1.1.2 with unique mapping and up to 2 mismatches for each read (-m 1 -v 2)
The duplicated reads with the same sequence were discarded
Genome_build: mm10
Supplementary_files_format_and_content: biWig files were generated from normalized bedgraph files using bedGraphToBigWig; Scores represent normalized mapped read coverage
|
| |
|
| Submission date |
Jun 15, 2020 |
| Last update date |
Jun 14, 2023 |
| Contact name |
Yin Li |
| E-mail(s) |
liy4@niehs.nih.gov
|
| Organization name |
NIEHS
|
| Street address |
111 TW alexander Drive
|
| City |
RTP |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE152524 |
Histone H3K27ac modification profiling by ChIP-Seq in the mouse seminal vesicles (SVs) and uterus (U) following neonatal DES exposure |
| GSE152526 |
RNA-Seq and H3K27ac ChIP-Seq in the mouse seminal vesicles (SVs) and uterus (U) following neonatal DES exposure |
|
| Relations |
| BioSample |
SAMN15239694 |
| SRA |
SRX8550719 |
