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Transcriptomic effects of combined AZD4573 and SMAP-2 treatment in resting and anti-CD3/CD28-activated primary human CD4+ T cells

GSE342431 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2026/08/05 Platform GPL34284
At a glance

RNA-seq (gene expression) · human · 12 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Homo sapiens (human)
Samples
12 samples: 3 × Resting CD4 T cell, DMSO, 24h, vs 3 × Resting CD4 T cell, 5 nM AZD4573 + 5 μM SMAP-2, 24h, vs 3 × Activated CD4 T cell, DMSO, 24h, vs 3 × Activated CD4 T cell, 5 nM AZD4573 + 5 μM SMAP-2, 24h,Groups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Summary (written by the submitters)
This study characterized the effects of combined CDK9 inhibition and PP2A activation on host gene expression in primary human CD4+ T cells. In the broader study, the CDK9 inhibitor AZD4573 and the PP2A activator SMAP-2 cooperatively suppressed HIV transcription and promoted durable transcriptional silencing. The RNA-seq experiment was performed to determine whether this drug combination caused broad or selective host-transcriptome changes in uninfected primary CD4+ T cells under resting and T-cell receptor-activated conditions.
Read the full summary ↓
Primary CD4+ T cells from three independent HIV-negative donors were either maintained without stimulation or activated for 48 h with plate-bound anti-CD3 and anti-CD28 antibodies. Resting and activated cells were subsequently treated for 24 h with either 0.1% DMSO or a combination of 5 nM AZD4573 and 5 μM SMAP-2. Within each activation state, drug-treated samples were compared with donor-matched DMSO controls. The transcriptional response to AZD4573 plus SMAP-2 was dependent on T-cell activation state. Resting CD4+ T cells exhibited a larger number of differentially expressed transcripts, many corresponding to unannotated protein-coding loci or long non-coding RNAs, with the P-TEFb-responsive gene MYC among the annotated downregulated genes. Activated CD4+ T cells exhibited fewer transcriptional changes; among these, HEXIM1 was downregulated and the transcriptional corepressor SLFN5 was upregulated. These data define the host-transcriptome effects of combined AZD4573 and SMAP-2 treatment in resting and activated primary human CD4+ T cells.
This dataset
Open GSE342431 in finder → Find more human RNA-seq datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE342431_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1507849 and SRA study SRP724313. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × Resting CD4 T cell, DMSO, 24h, vs 3 × Resting CD4 T cell, 5 nM AZD4573 + 5 μM SMAP-2, 24h, vs 3 × Activated CD4 T cell, DMSO, 24h, vs 3 × Activated CD4 T cell, 5 nM AZD4573 + 5 μM SMAP-2, 24h,

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study
Datasets on a similar topic

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Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.