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| Status |
Public on Jun 01, 2024 |
| Title |
Effect of 4-HDHA during TNF-induced HT-29 cells apoptosis |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Ulcerative colitis (UC) is an inflammatory disease characterized by an uncontrolled inflammatory response. Previous study showed that the immunological impairment elicted the alteration of inflammatory mediators, and ferroptosis was implicated with the lethal accumulation of reactive oxygen species (ROS).We performed lipidomics sequencing of TNF-a treated cell line mimicking the colitis in vivo.Surprisingly, we found that 4-HDHA,an autoxidation product of docosahexaenoic acid (DHA),had anti-apoptosis effect on colon epithelial cell line.To evaluate the underlying mechanism of the specific lipid perioxidin’s anti-apoptosis effect, we performed the experiment using high-throughput sequencing and get data to explain the reason why 4-HDHA could decrease TNF-induced cell apoptosis.
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| Overall design |
To investigate the reason why 4-HDHA could rescue TNF-a induced cell death, we use human recombinate TNF-a to induce HT-29 cell apoptosis.At the same time, we treat the TNF-a induced cell line with 4-HDHA (the concentration is 600nm)for 72h.To exclude the effect of 4-HDHA on normal steady state cell, we treat the normal cell line with 4-HDHA(the same concentration as TNF-a treated group)Then we collect cells to extract RNA and perform sequencing for next step.We perform gene expression profiling analysis using data obtained from RNA-seq of 2 control groups and 2 treated groups:control,control+4-HDHA,TNF-a,TNF-a +4-HDHA.Each group has 3 technical replicates.
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| Contributor(s) |
Li R |
| Citation missing |
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| Submission date |
Dec 11, 2023 |
| Last update date |
Jun 01, 2024 |
| Contact name |
Yanqing Li |
| E-mail(s) |
liyanqing@sdu.edu.cn
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| Phone |
0531-82166095
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| Organization name |
Shandong University
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| Department |
Gastroenterology
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| Lab |
Translational Gastroenterology
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| Street address |
No. 44 Wenhua West Road，Lixia district,
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| City |
Jinan |
| State/province |
Shandong province |
| ZIP/Postal code |
250012 |
| Country |
China |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (12)
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| GSM7966201 |
HT-29 cells,control+4-HDHA,replicate1 [CH1] |
| GSM7966202 |
HT-29 cells,control+4-HDHA,replicate2 [CH2] |
| GSM7966203 |
HT-29 cells,control+4-HDHA,replicate3 [CH3] |
| GSM7966204 |
HT-29 cells,TNF-a,replicate1 [T1] |
| GSM7966205 |
HT-29 cells,TNF-a,replicate2 [T2] |
| GSM7966206 |
HT-29 cells,TNF-a,replicate3 [T3] |
| GSM7966207 |
HT-29 cells,TNF-a+4-HDHA,replicate1 [TH1] |
| GSM7966208 |
HT-29 cells,TNF-a+4-HDHA,replicate2 [TH2] |
| GSM7966209 |
HT-29 cells,TNF-a+4-HDHA,replicate3 [TH3] |
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| This SubSeries is part of SuperSeries: |
| GSE249872 |
Protective effect and mechanism of lipid perioxide in TNF-a induced apoptosis of intestinal epithelial cells in IBD. |
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| Relations |
| BioProject |
PRJNA1051062 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE249870_1_genes_fpkm_expression.xlsx |
14.8 Mb |
(ftp)(http) |
XLSX |
| GSE249870_gene_count_matrix.xlsx |
3.1 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
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