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Sample GSM2597431 Query DataSets for GSM2597431
Status Public on Jun 01, 2018
Title WT_7
Sample type SRA
 
Source name ovary
Organism Mus musculus
Characteristics strain: C57BL/6
age: 6 months
genotype: Wild type
tissue: ovary
Treatment protocol Mice used for the experiment were initially primed with PMSG at the dose of 5 IU/mouse. Forty-six hours later, they were euthanized, and their ovariaies were collected and lysed in 350ul RLT buffer for RNA extraction.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with RNeasy Mini Kit (Qiagen, Germantown, MD, USA) according to manufacturer's instructions, and 500 ng was then taken out from each of them and subjected to mRNA isolation using NEBNext Poly (A) mRNA Magnetic Isolation Module (NEB, Ipswich, MA, USA).
The mRNA library was constructed using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, Ipswich, MA) according to the instruction manual, which includes sequential RNA fragmentation, reverse transcription using random primers, second strand cDNA synthesis, end repair, dA-tailing, adapter ligation, U excision, and PCR enrichment.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
 
Description WT_70
Data processing All RNA-seq reads passed filter were trimmed to remove low-quality bases and adaptor sequences. Reads then were aligned to the mm10 reference genome using tophat2 (v2.0.13)
Reads aligned to genes are counted by cufflinks (v2.2.1). The FPKMs are normalized usingcuffnorm. Differentially expressed genes are calculated using cuffdiff.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample ...
 
Submission date May 03, 2017
Last update date May 15, 2019
Contact name You-Qiang Su
E-mail(s) youqiang.su@njmu.edu.cn
Organization name Nanjing Medical University
Department State Key Laboratory of Reproductive Medicine
Street address 140 Hanzhong Road
City Nanjing
State/province Jiangsu
ZIP/Postal code 210029
Country China
 
Platform ID GPL21273
Series (1)
GSE98497 Comparing the Transcriptomes of Wild Type and Mtor-Gdf9-Cre mediated Oocyte-Conditional Knockout Mouse ovaries by RNA-Seq Analysis
Relations
BioSample SAMN06885919
SRA SRX2780356

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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