Krüppel-like Factor family members control expression of genes required for serous cavity and alveolar macrophage identities [RNA-seq]
RNA-seq (gene expression) · mouse · 19 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
- Mus musculus (mouse)
- Samples
- 19 samples: 9 conditions, mostly in duplicateGroups 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
- KLF family members control expression of genes required for tissue macrophage identitiesThe Journal of experimental medicine · 2025
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 GSE288281_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 PRJNA1216670 and SRA study SRP560489. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 19 samples.
How we read this: 9 replicated groups read from 19 sample titles; they account for 19 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.
- GSM8763466 KLF2 WT BMM, day 0, rep 1 KLF2 WT BMM, day 0,
- GSM8763467 KLF2 KO BMM, day 0, rep 1 KLF2 KO BMM, day 0,
- GSM8763468 KLF2 KO BMM, day 0, rep 2 KLF2 KO BMM, day 0,
- GSM8763469 KLF2 WT BMM, day 0, rep 2 KLF2 WT BMM, day 0,
- GSM8763470 KLF2 WT BMM, day 7, rep 1 KLF2 WT BMM, day 7,
- GSM8763471 KLF2 WT BMM, day 7, rep 2 KLF2 WT BMM, day 7,
- GSM8763472 KLF2 WT BMM, day 7, rep 3 KLF2 WT BMM, day 7,
- GSM8763473 KLF2 KO BMM, day 7, rep 1 KLF2 KO BMM, day 7,
- GSM8763474 KLF2 KO BMM, day 7, rep 2 KLF2 KO BMM, day 7,
- GSM8763475 WT BMM, EV, rep 1 WT BMM, EV,
- GSM8763476 WT BMM, EV, rep 2 WT BMM, EV,
- GSM8763477 WT BMM, KLF2 OE, rep 1 WT BMM, KLF2 OE,
- GSM8763478 WT BMM, KLF2 OE, rep 2 WT BMM, KLF2 OE,
- GSM8763479 WT BMM, GATA6 OE, rep 1 WT BMM, GATA6 OE,
- GSM8763480 WT BMM, GATA6 OE, rep 2 WT BMM, GATA6 OE,
- GSM8763481 KLF4 WT AM, rep 1 KLF4 WT AM,
- GSM8763482 KLF4 KO AM, rep 1 KLF4 KO AM,
- GSM8763483 KLF4 WT AM, rep 2 KLF4 WT AM,
- GSM8763484 KLF4 KO AM, rep 2 KLF4 KO AM,
- GSE303772 Ontogenically distinct alveolar macrophages mediate cigarette smoke-induced inflammation and damage [RNA-Seq] 24 samples shares macrophage, alveolar, rna-seq
- GSE269191 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [in vivo] 145 samples shares macrophage, control
- GSE280514 Spatially-restricted and ontogenically-distinct hepatic macrophages are required for tissue repair. 48 samples shares macrophage, required
- GSE268774 Lymph node macrophages drive immune tolerance and resistance to cancer therapy by expression of the immune-regulatory cytokine IL-33 [RNA-seq] 48 samples shares macrophage, rna-seq
- GSE325329 Transcriptomic profiling of macrophages that phagocytosed apoptotic Treg or conventional CD4⁺ T (Tconv) cells under different polarization conditions [RNA-Seq] 28 samples shares macrophage, rna-seq
- GSE237783 Complex interaction of tumor-derived factors instructs the niche specific phenotypes of tumor-associated macrophages [RNA-Seq] 28 samples shares macrophage, rna-seq
- GSE245648 The Heme-regulated transcriptional repressor, BACH1 safeguards macrophage enhancer selection, activation andtissue adaptation [RNA-seq_BMDM] 24 samples shares macrophage, rna-seq
- GSE314207 Alveolar Macrophages Undergo a Postnatal Transition from a Hyperphagocytic and Proinflammatory Profile to a Tolerogenic Profile 24 samples shares macrophage, alveolar
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.