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TRIMs in the placental tissue of HIV-1 infection

GSE319583 Homo sapiens (human) RNA-seq (gene expression) 32 samples Submitted 2026/03/01 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 32 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
32 samples: 8 × placenta, decidua, CD vs 8 × placenta, villus, CV vs 8 × placenta, decidua, HD vs 8 × placenta, villus, HVGroups 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)
Innate immunity is a crucial mechanism for protecting the maternal-fetal interface, whereas little is known about the placenta in chronic HIV-1 infection in mothers treated with antiretroviral therapy (ART). The maternal-fetal interface, we previously observed an enrichment of antiviral factors and inflammatory components in HIV-1 infection.
Read the full summary ↓
TRIM family proteins are potent antagonists of viral replication; however, others can promote viral replication by ubiquitinating and degrading specific innate immune signalling proteins. We verified the expression of genes involved in innate immunity focusing on the TRIM gene profile in placental tissue (villus and decidua) from HIV-1-infected mothers. We conducted RNA sequencing of placental tissue (villus and decidua) from HIV-1 infected and control mothers. DEGs validation performed by the RT-qPCR method confirms the upregulation of TRIM21 and TRIM39 in both the decidua and the villus of HIV-1-infected samples.
This dataset
Open GSE319583 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 GSE319583_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 PRJNA1423782 and SRA study SRP677168. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
8 × placenta, decidua, CD vs 8 × placenta, villus, CV vs 8 × placenta, decidua, HD vs 8 × placenta, villus, HV

Supports a between-group comparison across 32 samples.

How we read this: 4 replicated groups read from 32 sample titles; they account for 32 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.