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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 12, 2023 |
| Title |
mouse uterus, BPAF, rep3 |
| Sample type |
SRA |
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| Source name |
uterus
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| Organism |
Mus musculus |
| Characteristics |
tissue: uterus
strain: CD-1 (ICR)
Sex: female
genotype: WT
treatment: BPAF
time: 28 days
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| Treatment protocol |
BPB/BPAF (300 μg/kg body weight (bw)/day) or corn oil (control) were continuously given by gavage for 28 days.
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| Growth protocol |
Female CD-1 (ICR) mice aged seven to eight weeks were purchased from Beijing Vital River Laboratory Animal Technology Co., Ltd. (Beijing, China). The animals were acclimatized for one week in a controlled environment (temperature: 22 ± 2°C, relative humidity: 40–60%), with light-dark cycles of 12 h. To limit the interference from background bisphenol, the mice were placed in standard cages containing corncob bedding and provided with estrogen-free food (Beijing Vital River Laboratory Animal Technology Co., Ltd.) and filtered water (water bottles with rubber plugs and metal sippers).
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNAiso Plus Total RNA extraction reagent (Cat 9109, TAKARA) was used to extract total RNA from uterus samples.1.3 ug of total RNA was used for the construction of sequencing libraries.
Agilent Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA, US) was used for quality inspection to evaluate thAgilent Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA, US) was used for quality inspection to evaluate the integrity of RNA. After passing the quality inspection, total RNA was purified using RNAClean XP Kit (Cat A63987, Beckman Coulter, Inc.Kraemer Boulevard Brea, CA, USA) and RNase-Free DNase Set (Cat 79254, QIAGEN, GmBH, Germany). According to the manufacturer's protocol (VAHTS Stranded mRNA-seq Library Prep Kit for Illumina, Illumina, USA), mRNA isolation, fragmentation, cDNA synthesis, end repair, 3′ adenylation, adapter ligation, and cDNA templates enrichment were carried out to complete library construction. The concentration of the library was detected by Qubit® 2.0 Fluorometer and Qubit™ dsDNA HS kit, and the library was inspected by Agilent 2100 Bioanalyzer.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Data processing |
The quality of the original sequencing data was evaluated and filtered with Seqtk (https://github.com/lh3/seqtk) to remove unqualified reads. To compare gene expression levels quantitatively, reads were transformed into Fragments Per Kilobase of exon model per Million mapped reads (FPKM) for standardization.
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
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| Submission date |
Jan 22, 2023 |
| Last update date |
May 12, 2023 |
| Contact name |
Xiaoyun Wu |
| E-mail(s) |
202023902017@email.sxu.edu.cn
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| Organization name |
Shanxi University
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| Street address |
Wucheng Road 92, Xiaodian District
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| City |
Taiyuan |
| State/province |
Shanxi |
| ZIP/Postal code |
030006 |
| Country |
China |
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| Platform ID |
GPL17021 |
| Series (1) |
| GSE223464 |
Bisphenol B and bisphenol AF exposure enhances uterine diseases risks in mouse |
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| Relations |
| BioSample |
SAMN32871362 |
| SRA |
SRX19140407 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6956627_mouse_uterus_BPAF3.txt.gz |
265.9 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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