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| Status |
Public on Oct 29, 2019 |
| Title |
te-2 |
| Sample type |
SRA |
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| Source name |
in vivo embryo
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| Organism |
Sus scrofa |
| Characteristics |
developmental stage: blastocyst-trophoblast
cell type: blastomere
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| Growth protocol |
in vivo embryos
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| Extracted molecule |
total RNA |
| Extraction protocol |
Retinas were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Data processing |
Smart-Seq2 method was used to amplify the single cell sample. The reaction system for the first cDNA strand synthesis comprised the reverse transcription enzyme, buffer, TSO primers and oligo-dT primers with common sequence. For the second strand synthesis, added PCR amplification reagent and ISPCR primer with common sequence to the first strand products. The sample cDNA was fragmented into 300bp by Bioruptor®Sonication System (Diagenode Inc.), and then performed terminal repair, addition of A, and ligation of sequencing adapters, and amplified. The PCR amplification product with 350-450bp was extracted. Then, the concentration was measured by Qubit 2.0 Flurometer (Life Technologies, CA, USA). The integrity of the amplified products was detected by Agilent 2100 High Sensitivity DNA Assay Kit (Agilent Technologies, CA, USA). The libraries were sequenced by an Illumina HiSeq X Ten platform.
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
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| Submission date |
Oct 28, 2019 |
| Last update date |
Feb 25, 2022 |
| Contact name |
xu yangx |
| E-mail(s) |
yangxu217@neau.edu.cn
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| Organization name |
neau
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| Street address |
mucai 59
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| City |
harbin |
| ZIP/Postal code |
150030 |
| Country |
China |
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| Platform ID |
GPL22918 |
| Series (1) |
| GSE139512 |
Lineage specification and pluripotency revealed by transcriptome analysis from oocyte to blastocyst in pig |
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| Relations |
| Reanalyzed by |
GSM5917800 |
| BioSample |
SAMN13149060 |
| SRA |
SRX7066594 |
| 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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