RNA-seq for iPSC-derived macrophages with/without Lipopolysaccharide (LPS) stimulation.
RNA-seq (gene expression) · human · 8 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
- 8 samples: 8 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.
Read the full summary ↓
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 GSE237489_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 PRJNA995504 and SRA study SRP449835. 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 8 sample titles: 8 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.
- GSM7622140 S1_WT
- GSM7622141 S2_WT_LPS
- GSM7622142 S3_Mut
- GSM7622143 S4_Mut_LPS
- GSM7622144 S5_WT
- GSM7622145 S6_WT_LPS
- GSM7622146 S7_Mut
- GSM7622147 S8_Mut_LPS
- GSE328566 LPS stimulation reveals male and female dimorphism in human iPSC-derived macrophages 24 samples shares lps, ipsc-derived, macrophages, stimulation
- GSE317449 Effect of depletion of TSPAN6 on Biliary Epithelial Cells with and without LPS stimulation mirroring liver disease. 20 samples shares lps, stimulation, without
- GSE298244 Bulk RNA-seq of iPSC-derived macrophages exposed to disease-relevant stimuli 30 samples shares ipsc-derived, macrophages, rna-seq
- GSE261696 Transcriptional characteristics of human primary, bone marrow-derived and iPSC-derived monocytes and macrophages [RNA-Seq] 19 samples shares ipsc-derived, macrophages, rna-seq
- GSE184487 RNA-sequencing of PBMC cultured with PolyI:C or LPS, from a pediatric cohort who received OM85 or placebo. 193 samples shares lps, rna-seq
- GSE327840 RNA-seq profiling of LPS tolerance in monocytes, THP-1, fibroblasts, smooth muscle cells, and endothelial cells 58 samples shares lps, rna-seq
- GSE281679 Effects of ENO1 knockdown and LPS+Lactate stimulation on EA.HY926 cells 12 samples shares lps, stimulation
- GSE281471 Targeting CD206+ macrophages disrupts the establishment of a key anti-tumor immune axis [Bulk RNA-seq] 243 samples shares macrophages, rna-seq
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.