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Sample GSM5136449 Query DataSets for GSM5136449
Status Public on Mar 04, 2024
Title Ovary-VC treated- rep1
Sample type SRA
 
Source name ovary 16h post-hCG
Organism Mus musculus
Characteristics strain: CBA x C57BL/6 F1
age: 21days old; 10-12 grams
treatment: 7.5% DMSO
Treatment protocol mice were injected i.p either with CRS or 7.5% DMSO vehicle on days 21, 22, 23 and 24
Growth protocol 21 days old mice; 10-12grams
Extracted molecule total RNA
Extraction protocol one ovary from each mice was processed for RNA extraction using RNeasy Mini Kit (Qiagen) and Dnase-treated.
Total RNA was converted to strand specific Illumina compatible sequencing libraries using the Nugen Universal Plus mRNA mRNA-Seq library kit from Tecan (Mannedorf, Switzerland) as per the manufacturers instructions (MO1442 v2). 75bp SR sequencing using Illumina NextSeq500 High output mode and v2.5 chemistry. Illumina Protocol 15069765 v06, July 2019.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description mice were injected i.p eCG on day 22 and hCG on day 24
Data processing FASTQ files checked with FastQC.
Quasi-alignment to GRCm38.p6 (M25) transcript assembly and count quanticiation using Salmon.
Differential expression analyses were performed using DESeq2.
Genome_build: Genome Reference Consortium Mouse Build 38 patch release 6
Supplementary_files_format_and_content: Tabular list of raw and normalised (TPM) counts generated from Salmon
 
Submission date Mar 05, 2021
Last update date Mar 04, 2024
Contact name Thao Dinh
E-mail(s) doan.dinh@adelaide.edu.au
Organization name University of Adelaide
Street address North Terrace
City Adelaide
State/province South Australia
ZIP/Postal code 5000
Country Australia
 
Platform ID GPL19057
Series (1)
GSE168348 Gene expression analyses of whole ovaries from mice that were treated with N-Cadherin antagonist CRS-006
Relations
BioSample SAMN18153606
SRA SRX10244259

Supplementary file Size Download File type/resource
GSM5136449_ovary_16hhcg_VC1.tabular.txt.gz 654.7 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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