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Status |
Public on Nov 20, 2018 |
Title |
Primary_follicle_B13O |
Sample type |
SRA |
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Source name |
Oocyte from primary follicle
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Organism |
Homo sapiens |
Characteristics |
tissue: Ovary developmental stage: Primary
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Extracted molecule |
total RNA |
Extraction protocol |
Each oocyte and 10 randomly selected granulosa cells were transferred into lysis buffer using a mouth pipette. The reverse transcription reaction was performed on the whole-cell lysate and terminal deoxynucleotidyl transferase was used to add a poly A tail to the 3′ end of the first-strand cDNAs, and then 20 cycles of PCR were performed to amplify the single-cell cDNA RNA libraries were prepared according to instructions of Kappa Hyper Prep Kit (Kappa Biosystems).
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
HiSeq X Ten |
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Description |
B13O
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Data processing |
Illumina bcl2fastq version 2.19 were used to the basecalling. Sequenced reads with 10% low quality bases, adapters and artificial sequences (including UP1, UP2, polyA sequences) introduced during the experimental processes were trimmed by in house scripts. The trimmed clean reads were aligned to the UCSC human hg19 reference using Tophat2 (v2.1.0) with default settings (Trapnell et al., 2009). Cufflinks (v2.2.1) with defualt settings was used to quantify transcription levels of annotated genes (Trapnell et al., 2010), and FPKM were calculated Genome_build: hg19 Supplementary_files_format_and_content: Tab-delimited text file includes FPKMs
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Submission date |
Dec 06, 2017 |
Last update date |
Apr 03, 2020 |
Contact name |
Zhiqiang Yan |
E-mail(s) |
zqyan@pku.edu.cn
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Organization name |
Peking University
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Street address |
No.5 Yiheyuan Road Haidian District
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City |
Beijing |
ZIP/Postal code |
100871 |
Country |
China |
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Platform ID |
GPL20795 |
Series (1) |
GSE107746 |
Transcriptome Landscape of Human Folliculogenesis Reveals Oocytes and Granulosa Cells Interactions |
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Relations |
BioSample |
SAMN08136559 |
SRA |
SRX3447192 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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