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Status |
Public on Aug 23, 2017 |
Title |
Tfcp2l1 shRNA |
Sample type |
SRA |
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Source name |
HES_Tfcp2l1 shRNA
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Organism |
Homo sapiens |
Characteristics |
cell line: HES2 cell type: human embryonic stem cells infected with: Tfcp2l1 knockdown lentivirus
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Extracted molecule |
total RNA |
Extraction protocol |
Culture medium were removed, washed by PBS, and RNA was harvested using Trizol reagent. BGISEQ-500 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 |
BGISEQ-500 |
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Data processing |
Integrative Genomcs Viewer software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Hg19 whole genome using bowtie v0.12.2 with parameters -q -p 4 -e 100 -y -a -m 10 --best --strata Fragment Per Kilobase of exon model per Million mapped reads(FPKM) were calculated using a standard protocol from BGI company. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library of BGI. Genome_build: Hg19 Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...
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Submission date |
Aug 18, 2017 |
Last update date |
May 15, 2019 |
Contact name |
shoudong ye |
Organization name |
Anhui University
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Department |
Cell Biology
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Street address |
No 111, Jiu Long Road
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City |
Hefei |
ZIP/Postal code |
230601 |
Country |
China |
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Platform ID |
GPL23227 |
Series (1) |
GSE102798 |
RNA-seq Analysis of the effect of Tfcp2l1 knockdown on Human ESC maintenace |
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Relations |
BioSample |
SAMN07518815 |
SRA |
SRX3102655 |
Supplementary data files not provided |
SRA Run Selector![Help](/coreweb/images/long_help4.gif) |
Raw data are available in SRA |
Processed data are available on Series record |
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