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| Status |
Public on Mar 05, 2024 |
| Title |
H9 cells, siHNRNPA1#1 |
| Sample type |
SRA |
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| Source name |
human embryonic stem cells (H9) treated by siHNRNPA1
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| Organism |
Homo sapiens |
| Characteristics |
cell line: H9
treatment: siHNRNPA1
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.4 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using Hieff NGS™ MaxUp Dual-mode mRNA Library Prep Kit for Illumina® following manufacturer's protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
FPKM(A1)
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| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: mm10
Supplementary files format and content: tab-delimited text file includes TPM, FPKM, Count values for each Sample
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| Submission date |
Jul 06, 2023 |
| Last update date |
Mar 05, 2024 |
| Contact name |
caiping ren |
| E-mail(s) |
rencaiping@csu.edu.cn
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| Phone |
13574872391
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| Organization name |
Central South University
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| Street address |
110 Xiangya Road,
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| City |
Changsha |
| ZIP/Postal code |
410078 |
| Country |
China |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE236745 |
ESRG regulates alternative splicing of TCF3 to maintain hESCs self-renewal and pluripotency |
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| Relations |
| BioSample |
SAMN36344331 |
| SRA |
SRX20927804 |
| 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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