Bulk RNAseq in control and LACTB KD human THP1 macrophages
RNA-seq (gene expression) · human · 10 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
- 10 samples: 10 samples, each with a distinct title — no replicated groupsGroups 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
- Reduced LACTB expression in myeloid cells is associated with elevated succinylcarnitine and reduced Alzheimer's disease riskResearch square · 2026
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE323383_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1432734 and SRA study SRP681211. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 10 sample titles: 10 distinct titles with little repetition. 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.
- GSM9564679 THP1 macrophages, scrambled, differentiation a
- GSM9564680 THP1 macrophages, scrambled, differentiation b
- GSM9564681 THP1 macrophages, scrambled, differentiation c
- GSM9564682 THP1 macrophages, scrambled, differentiation d
- GSM9564683 THP1 macrophages, scrambled, differentiation e
- GSM9564684 THP1 macrophages, LACTB KD, differentiation a
- GSM9564685 THP1 macrophages, LACTB KD, differentiation b
- GSM9564686 THP1 macrophages, LACTB KD, differentiation c
- GSM9564687 THP1 macrophages, LACTB KD, differentiation d
- GSM9564688 THP1 macrophages, LACTB KD, differentiation e
- GSE323984 MEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [bulkRNAseq_WTC11_iMGL] 48 samples shares macrophages, control, bulk
- GSE281471 Targeting CD206+ macrophages disrupts the establishment of a key anti-tumor immune axis [Bulk RNA-seq] 243 samples shares macrophages, bulk
- GSE300680 A streamlined and comprehensive protocol for the generation and multi-omic analysis of human monocyte-derived macrophages [bulk RNA-Seq] 20 samples shares macrophages, bulk
- GSE298244 Bulk RNA-seq of iPSC-derived macrophages exposed to disease-relevant stimuli 30 samples shares macrophages, bulk
- GSE328351 Bulk RNA-seq of dorsolateral prefrontal cortex tissue collected during deep brain stimulation neurosurgery in obsessive-compulsive disorder and neurological controls 10 samples shares control, bulk
- GSE330780 Dissection of innate-immune-ligand- and interferon-protein-mediated transcriptional responses in human THP1 cell states 117 samples shares thp1
- GSE323981 MEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [ATAC-seq] 8 samples shares macrophages, control
- GSE292338 RNAseq analysis of human neutrophils from healthy controls, people with frailty and people with rheumatoid arthritis 39 samples shares control
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.