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| Status |
Public on Nov 15, 2019 |
| Title |
piPSCs-1 |
| Sample type |
SRA |
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| Source name |
porcine fetal fibroblasts
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| Organism |
Sus scrofa |
| Characteristics |
type: Induced pluripotent stem cells
passages: 15-25
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| Growth protocol |
Using a serum-free culture system, we directly derived porcine extraembryonic endoderm like cells (pXEN-like cells) fom day 6-7 blastocysts ,The piPSCswas cultured in pEPSCM medium
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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 |
Nov 14, 2019 |
| Last update date |
Nov 20, 2019 |
| Contact name |
Yan Li |
| E-mail(s) |
liyan217@neau.edu.cn
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| Phone |
18745075053
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| Organization name |
Northeast Agriculture University
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| Street address |
,600 Changjiang Road,Xiangfang District
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| City |
Harbin |
| ZIP/Postal code |
150030 |
| Country |
China |
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| Platform ID |
GPL22918 |
| Series (1) |
| GSE140414 |
Derivation of Porcine Extraembryonic Endoderm-like Cells from from Blastocysts |
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| Relations |
| BioSample |
SAMN13286360 |
| SRA |
SRX7141548 |
| 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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