← BioTransfer GEO Dataset Finder
GEO series

Effect of depletion of MALAT1 on gene expression during LPS stimulation on THP-1 derived differentiated macrophages

GSE281531 Homo sapiens (human) RNA-seq (gene expression) 24 samples Submitted 2026/02/09 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 24 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
24 samples: 8 conditions, mostly in triplicateGroups 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.
Paper
MALAT1 regulates human macrophage metabolism by interacting with HADHBiScience · 2026
Summary (written by the submitters)
Long non-coding RNAs (lncRNAs) are known for their diverse roles in regulating gene expression, cellular functions, and metabolic pathways. Among them, metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) has been extensively studied in cancer and inflammation. Here, we report a newly discovered interaction between MALAT1 and HADHB—a key enzyme in mitochondrial fatty acid oxidation (FAO)—which reveals additional regulatory roles for MALAT1 in human macrophages.
Read the full summary ↓
Our findings show that MALAT1 binds to hydroxyacyl-CoA dehydrogenase trifunctional multienzyme complex subunit beta (HADHB), significantly enhancing its thiolase activity and its expression during the inflammation.By targeting HADHB, MALAT1 influences both inflammatory and metabolic pathways, providing insights into its potential as a therapeutic target for modulating macrophage activity and metabolic balance in chronic inflammatory diseases. This study not only identifies HADHB as a new target of MALAT1 but also underscores the conserved functional roles of lncRNAs across species, particularly in immune and metabolic regulation.
Published in
MALAT1 regulates human macrophage metabolism by interacting with HADHB
Liu Y, Nakayama Y, Sugita J et al. · iScience 2026 · PMID 41816300 · doi:10.1016/j.isci.2026.115107
This dataset
Open GSE281531 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 GSE281531_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 PRJNA1184334 and SRA study SRP544322. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41816300) ↗
Study design
8 conditions, mostly in triplicate
THP-1 derived macrophages, siControl, LPS 0H, ×3 THP-1 derived macrophages, siMALAT1, LPS 0H, ×3 THP-1 derived macrophages, siControl, LPS 12H, ×3 THP-1 derived macrophages, siMALAT1, LPS 12H, ×3 THP-1 derived macrophages, siControl, LPS 24H, ×3 THP-1 derived macrophages, siMALAT1, LPS 24H, ×3 THP-1 derived macrophages, siControl, LPS 48H, ×3 THP-1 derived macrophages, siMALAT1, LPS 48H, ×3

Supports a between-group comparison across 24 samples.

How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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

Search all human RNA-seq datasets in GEO →

Share this dataset

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.