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| Status |
Public on Dec 25, 2023 |
| Title |
B1_DLD1 |
| Sample type |
SRA |
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| Source name |
DLD1
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| Organism |
Homo sapiens |
| Characteristics |
cell line: DLD1
cell type: CRC cell lines
passages: P5
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| Growth protocol |
All of the cells were cultured at 37°C in Dulbecco’s Modified Eagle Medium (DMEM; Gibco, Thermo Fisher Scientific, St Peters, MO, USA) supplemented with 10% fetal bovine serum (FBS; Gibco, Thermo Fisher Scientific, St Peters, MO, USA) in a 5% CO2 atmosphere.
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| Extracted molecule |
total RNA |
| Extraction protocol |
prefrontal cortex were rharvested , flash frozen on dry ice, and RNA was harvested using Trizol reagent.
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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| Description |
R20021317-NBC20200605-A-DLD1
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| Data processing |
We applied the reads filtering towards the raw reads after sequencing to achieve the clean data following the criteria: a)10% base quality <15 b) 13% base quality <20.
Hisat2 2.0.4 mapping to reference genome
count counting
Genome_build: GRCh38
Supplementary_files_format_and_content: TXT file contain counts for each sample
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| Submission date |
Dec 25, 2020 |
| Last update date |
Dec 25, 2023 |
| Contact name |
Zhenxing Liang |
| E-mail(s) |
1051322781@qq.com
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| Organization name |
The Sixth Affiliated Hospital, Sun Yat-sen University
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| Street address |
26 Yuancun Erheng Rd
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| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510655 |
| Country |
China |
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| Platform ID |
GPL20795 |
| Series (1) |
| GSE163868 |
Next Generation Sequencing of normal human intestinal epithelial cell lines, CRC cell lines and CRC cell lines with hypoxia treatment |
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| Relations |
| BioSample |
SAMN17159360 |
| SRA |
SRX9735405 |
| 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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