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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 01, 2023 |
| Title |
ABIN1 is a negative regulator of effector functions in cytotoxic T cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The main objective of the data analysis presented here is the investigation of the role of ABIN1 in antigenic responses of primary T cells. For this purpose, T cells from ABIN1-deficient mouse strain (GTKO) and WT mice were analyzed under different activation conditions. The effect of P38 MAPK inhibitor SB203580 (p38 inhibitor/p38i) was also analyzed. The results suggest that ABIN1 is a negative regulator of TCR-mediated activation and expression of the key effector molecules in primary CD8+ T cells, at least partly via the inhibition of the p38 pathway.
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| Overall design |
Two RNAseq experiments were made. The first one compares the activation of CD8+ T cells in WT and ABIN1 GTKO mice under different conditions (anti-CD3ε/CD28 beads at 1:1 or 4:1 beads-to-cell ratios or without beads). The second one compares the effect of p38 inhibitor (P38 MAPK inhibitor SB203580) on activated of CD8+ T cells in WT and ABIN1 GTKO mice. The first experiment concerns replicates 6-9, the second one replicates 17-19.
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| Contributor(s) |
Janusova S, Michalik J, Stepanek O |
| Citation(s) |
38877170 |
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| Submission date |
Oct 15, 2023 |
| Last update date |
Sep 12, 2024 |
| Contact name |
Juraj Michalik |
| E-mail(s) |
juraj.michalik@img.cas.cz
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| Organization name |
Institute of Molecular Genetics of the Czech Academy of Sciences
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| Lab |
Lab of Adaptive Immunity
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| Street address |
Vídeňská 1083
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| City |
Prague |
| ZIP/Postal code |
14220 |
| Country |
Czech Republic |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (30)
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| GSM7841985 |
GTKO, activated, beads 4:1, rep6 |
| GSM7841986 |
GTKO, activated, beads 4:1, rep7 |
| GSM7841987 |
GTKO, activated, beads 4:1, rep8 |
| GSM7841988 |
GTKO, non-activated, rep7 |
| GSM7841989 |
GTKO, non-activated, rep8 |
| GSM7841990 |
GTKO, non-activated, rep9 |
| GSM7841991 |
WT, activated, beads 1:1, rep6 |
| GSM7841992 |
WT, activated, beads 1:1, rep7 |
| GSM7841993 |
WT, activated, beads 1:1, rep8 |
| GSM7841994 |
WT, activated, beads 4:1, rep6 |
| GSM7841995 |
WT, activated, beads 4:1, rep7 |
| GSM7841996 |
WT, activated, beads 4:1, rep8 |
| GSM7841997 |
WT, non-activated, rep7 |
| GSM7841998 |
WT, non-activated, rep8 |
| GSM7841999 |
WT, non-activated, rep9 |
| GSM7842000 |
WT, activated, beads 1:1, rep17 |
| GSM7842001 |
WT, activated, beads 1:1, rep18 |
| GSM7842002 |
WT, activated, beads 1:1, rep19 |
| GSM7842003 |
WT, activated, beads 1:1 + p38i, rep17 |
| GSM7842004 |
WT, activated, beads 1:1 + p38i, rep18 |
| GSM7842005 |
WT, activated, beads 1:1 + p38i, rep19 |
| GSM7842006 |
GTKO, activated, beads 1:1, rep17 |
| GSM7842007 |
GTKO, activated, beads 1:1, rep18 |
| GSM7842008 |
GTKO, activated, beads 1:1, rep19 |
| GSM7842009 |
GTKO, activated, beads 1:1 + p38i, rep17 |
| GSM7842010 |
GTKO, activated, beads 1:1 + p38i, rep18 |
| GSM7842011 |
GTKO, activated, beads 1:1 + p38i, rep19 |
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| Relations |
| BioProject |
PRJNA1028272 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE245397_GTKO_activation_assay_raw_counts.csv.gz |
807.5 Kb |
(ftp)(http) |
CSV |
| GSE245397_p38i_inhibition_assay_raw_counts.csv.gz |
656.3 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
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