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| Status |
Public on Feb 28, 2021 |
| Title |
nc.F1.G rep1 |
| Sample type |
SRA |
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| Source name |
ovary
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| Organism |
Gallus gallus |
| Characteristics |
breed: White Leghorns
tissue: follicle
cell type: granulosa
development stage: F1
treatment: nc
age: 35-40 week
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| Treatment protocol |
All experimental hens (35-40 weeks of age) were obtained from Wuhan 458 Xintianmu Agricultural Science and Technology Development Co. Ltd. (Hubei, China). For the androgen receptor-related drug experiment, chickens were randomly divided into 7 groups (10 hens/group). The androgen receptor antagonist-treated groups (3 groups) were fed 5 mg, 10 mg, and 15 mg of bicalutamide (AbMole, M1960) respectively, and the androgen agonist-treated groups (3 groups) were fed 1 mg, 10 mg, and 100 mg of mestanolone (AbMole, M3748) respectively, and the blank group (1 group) was fed with water as control. All drugs were fed for 4 days, and follicles were collected after 1 day of drug withdrawal. All hens were freely fed and watered.
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Granulosa cells and theca cells were isolated from fresh follicular tissue of hens and were sent to Novogene Co., Ltd. (Beijing, China) for RNA extraction, library construction, and sequencing.
The sequencing library was generated under the instruction manual with NEB Next UltraTM RNA Library Prep Kit for Illumina (NEB, USA). Obtained cDNA libraries were sequenced on an Illumina Nova platform and generated paired-end reads.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Reads were filtered by removing adapters, low quality reads and unknown bases
Clean reads were mapped to Gallus_gallus-5.0 of ensembl using HISAT2 v2.1.0
Genes expression level were quantified by a software package: stringtie v1.3.4d
Differentially expressed genes were calculated by Deseq2 v1.26.0
Genome_build: Gallus_gallus-5.0
Supplementary_files_format_and_content: tab-delimited gtf files include "cov", "FPKM", "TPM" values for each Sample, which generated by stringtie
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| Submission date |
Dec 27, 2020 |
| Last update date |
Mar 01, 2021 |
| Contact name |
Ying Huang |
| E-mail(s) |
ying.huang@webmail.hzau.edu.cn
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| Organization name |
Huazhong Agricutural University
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| Street address |
No.1,Shizishan Street · Hongshan District · Wuhan · Hubei Province
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| City |
Wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430070 |
| Country |
China |
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| Platform ID |
GPL26853 |
| Series (2) |
| GSE163890 |
Comparative analysis among different species reveals that androgen receptor is a core transcriptional factor regulating the chicken follicular selection and ovulation [RNA-Seq] |
| GSE163891 |
Comparative analysis among different species reveals that the androgen receptor regulates chicken follicle selection through species-specific genes related to follicle development |
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| Relations |
| BioSample |
SAMN17168650 |
| SRA |
SRX9738747 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM4989475_nc-2-G-F1_FRAS202062110-1a_1.abund.gtf.gz |
9.1 Mb |
(ftp)(http) |
GTF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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