|
Status |
Public on Oct 02, 2020 |
Title |
Type I interferome in human gut CD4 T cells |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing
|
Summary |
Rationale: Humans encode 12 different IFNa proteins. All of them, except IFNa1 (only binds with IFNAR1), bind with IFNAR1 and IFNAR2 to activate their downstream functions. Currently in the field, it is still a debate whether there are qualitative difference between different IFNa subtypes or the differences are merely quantitative. The current study was set out to elucidate the question. Methods: CD4 T cells purified from LPMCs from gut biopsies from 3 donors, subsequently were mock treated or with ISRE activity normalized IFNa1, IFNa2, IFNa5, IFNa8, IFNa14, or IFNb. RNAs were extracted from cells after 18 hrs of incubation. RNASeq libraries were generated using Lexogen Quant Seq 3’ mRNA-Seq library Prep Kit. RNASeq were performed on Illumina HiSeq 2500. Results: An average of 11.4 million gene counts were identified for each donor/treatment. A total of 31,465 genes were mapped, and among them 1,981 genes were differentially expressed due to type I interferon treatments. Each of IFNa subtypes or IFNb has their specifically regulated genes. Conclusion: There are qualitative differences between type I interferons.
|
|
|
Overall design |
Transcriptomic profiles of CD4 T cells treated with different Type I interferons.
|
|
|
Contributor(s) |
Guo K, Kibbie J, Gonzalez T, Santiago M |
Citation(s) |
- Guo K, Shen G, Kibbie J, Gonzalez T et al. Qualitative Differences Between the IFNα subtypes and IFNβ Influence Chronic Mucosal HIV-1 Pathogenesis. PLoS Pathog 2020 Oct;16(10):e1008986. PMID: 33064743
|
BioProject |
PRJNA558974 |
|
Submission date |
Aug 25, 2020 |
Last update date |
Jun 30, 2023 |
Contact name |
Kejun Guo |
E-mail(s) |
Kejun.guo@cuanschutz.edu
|
Phone |
3037245291
|
Organization name |
University of Colorado Anschutz Medical Campus
|
Department |
Division of Infectious Diseases
|
Street address |
12700 E 19th Ave, Rm 11420D
|
City |
Aurora |
State/province |
Colorado |
ZIP/Postal code |
80045 |
Country |
USA |
|
|
Platforms (1) |
GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
|
Samples (21)
|
|
Relations |
SRA |
SRP217465 |