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| Status |
Public on Jun 30, 2021 |
| Title |
Characterization of the epitranscriptomic landscape of HIV-infected cells II |
| Organism |
Human immunodeficiency virus |
| Experiment type |
Methylation profiling by high throughput sequencing
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| Summary |
In this study, we used a productive HIV infection model, consisting of the CD4+ SupT1 T cell line infected with a VSV-G pseudotyped HIVeGFP-based vector, to explore the transcriptomic and m6A/m5C epitranscriptomic lansdcape upon HIV infection, and compare it to mock-treated cells at 12h, 24h, and 36h post infection.
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| Overall design |
SupT1 cells were either infected with 1 µg/10^6 cells p24 equivalent of HIV_GFP virus or left uninfected, divided into aliquots of 5*106 cells/ tube and spinoculated for 90 minutes at 1500 g and 20°C to allow nearly universal infection. Cells were then resuspended at a concentration of 10^6 cells/ml and further incubated. At 12, 24 and 36h post–infection, RNA was extracted from each cellular sample and virus-containing supernatant and further processed for RNA-Seq to investigate gene expression, MeRIP-Seq and BS-Seq to investigate m6A and m5C epitranscriptomic marks.
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| Contributor(s) |
Cristinelli S, Angelino P, Janowczyk A, Delorenzi M, Ciuffi A |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Aug 31, 2020 |
| Last update date |
Jul 02, 2021 |
| Contact name |
Paolo Angelino |
| E-mail(s) |
paolo.angelino@unil.ch, paolo.angelino@sib.swiss
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| Organization name |
SIB Swiss Institute of Bioinformatics
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| Department |
BCF
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| Street address |
Quartier Sorge, Bâtiment Génopode
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| City |
Lausanne |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
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| Platforms (1) |
| GPL26648 |
Illumina HiSeq 2000 (Human immunodeficiency virus) |
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| Samples (9)
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| This SubSeries is part of SuperSeries: |
| GSE157193 |
Characterization of the epitranscriptomic landscape of HIV-infected cells |
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| Relations |
| BioProject |
PRJNA660417 |
| SRA |
SRP279447 |
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