|
| Status |
Public on Aug 03, 2023 |
| Title |
GD3.5 mouse uterine transcriptome, control 1 |
| Sample type |
SRA |
| |
|
| Source name |
Uterus
|
| Organism |
Mus musculus |
| Characteristics |
pregnancy day: Gestation day 3.5
tissue: uterus
genotype: WT
strain: C57B6/J
|
| Treatment protocol |
No treatment
|
| Growth protocol |
C57B6/J female mice were mated at 8 weeks old whose uterus were collected at Pregnancy day 3.5
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using TRIzol according to manufacturer's instructions
RNA libraries were prepared for sequencing using Illumina TruSeq RNA Library Prep kit v2.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
WTxRep1
|
| Data processing |
Filter reads of Qual score <20
Remove reads carrying adaptor sequences using cutadapt (v1.12).
Agilgn reads to mm10 genome using STAR aligner (V2.5.2b)
Count reads mapped to each gene using featureCounts ( v1.5.0-p1) function in Subread program
Assembly: mm10
Supplementary files format and content: FPKM was calculated for each gene in each sample by using Cufflinks version 2.0.2.
|
| |
|
| Submission date |
May 15, 2023 |
| Last update date |
Aug 03, 2023 |
| Contact name |
Franco Demayo |
| E-mail(s) |
[email protected]
|
| 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) |
| GSE232580 |
Uterine transcriptomic profiles of Nr2f2 deficiency in Pgr-expressing cells at gestation day 3.5 |
| GSE232583 |
Nr2f2 deficiency in Pgr-expressing cells; NR2F2 genome occupancy and the H3K4me1 histone mark; uterus at gestation day 3.5 |
|
| Relations |
| BioSample |
SAMN35099191 |
| SRA |
SRX20355807 |
