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| Status |
Public on Mar 30, 2024 |
| Title |
Ovary, miRNA, month 4, individual 5 |
| Sample type |
SRA |
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| Source name |
Ovary
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| Organism |
Capra hircus |
| Characteristics |
tissue: Ovary
timepoint: month 4
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from 20 uterine tissue and 20 ovarian tissues samples with TRIzol (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s protocol. The RNA concentration, purity and integrity were calculated and checked by a NanoDrop 2000 spectrophotometer (Thermo Scientific, Wilmington, DE, USA) and an Agilent 5400 Bioanalyzer (Agilent, Santa Clara, CA).
miRNA sequencing libraries were prepared for sequencing using standard Illumina protocols.
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| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
O_M4_5
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| Data processing |
The raw reads were filtered using Cutadapt 1.16.
Using the Bowtie 1.0.1 filter out repeated sequences and ncRNAs based on RepeatMasker and Rfam. Next, clean reads were aligned to the reference genome (Capra hircus, ARS1.2) using BLAST 2.7.1.
MiRNAs were identified using miREvo 1.1 and miRDeep2 2.0.0.7.
MiRNA expression levels were normalized with RSEM 1.3.0
Assembly: Capra hircus, ARS1.2
Supplementary files format and content: Txt files includes read counts of all samples.
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| Submission date |
Mar 23, 2024 |
| Last update date |
Mar 30, 2024 |
| Contact name |
Chao Tianle |
| E-mail(s) |
chaotianle@sdau.edu.cn
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| Phone |
15153876133
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| Organization name |
6/5000 Shandong Agricultural University
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| Street address |
Daizong street, no. 61, 6/5000 Shandong Agricultural University
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| City |
Tai’an |
| State/province |
Shandong |
| ZIP/Postal code |
538 |
| Country |
China |
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| Platform ID |
GPL27106 |
| Series (1) |
| GSE262296 |
miRNA transcriptomic data of Jining gray goat ovarian and uterine tissues during sexual maturation |
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| Relations |
| BioSample |
SAMN40588620 |
| SRA |
SRX24031411 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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