Bulk RNA-sequencing of synovial macrophages (Fcgr2b-KO mice)
RNA-seq (gene expression) · mouse · 17 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
- 17 samples: 17 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
- Macrophages and nociceptor neurons form a sentinel unit around fenestrated capillaries to defend the synovium from circulating immune challengeNature immunology · 2024
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 GSE247476_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 PRJNA1038752 and SRA study SRP471247. 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 17 sample titles: 17 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.
- GSM7890552 IAIE_Healthy_1 [Jointmac13450994]
- GSM7890553 CD11c_Healthy_1 [Jointmac13450995]
- GSM7890554 Lyve1_Healthy_1 [Jointmac13450996]
- GSM7890555 IAIE_Healthy_2 [Jointmac13450997]
- GSM7890556 CD11c_Healthy_2 [Jointmac13450998]
- GSM7890557 Lyve1_Healthy_2 [Jointmac13450999]
- GSM7890558 IAIE_Healthy_3 [Jointmac13451000]
- GSM7890559 CD11c_Healthy_3 [Jointmac13451001]
- GSM7890560 Lyve1_Healthy_3 [Jointmac13451002]
- GSM7890561 IAIE_IC_1 [Jointmac13451003]
- GSM7890562 CD11c_IC_1 [Jointmac13451004]
- GSM7890563 Lyve1_IC_1 [Jointmac13451005]
- GSM7890564 IAIE_IC_2 [Jointmac13451006]
- GSM7890565 CD11c_IC_2 [Jointmac13451007]
- GSM7890566 Lyve1_IC_2 [Jointmac13451008]
- GSM7890567 IAIE_IC_3 [Jointmac13451009]
- GSM7890568 Lyve1_IC_3 [Jointmac13451011]
- GSE272970 Bulk liver RNA-sequencing of mice co-exposed to simvastatin and 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 60 samples shares rna-sequencing, bulk
- GSE331360 Bulk RNA sequencing of bone marrow-derived macrophages from WT and Ch25h-KO mice under different treatment conditions 24 samples shares macrophages, bulk
- GSE268828 Transcriptomic profile of monocytes/ macrophages from injured bone, muscle, skin or heart tissues of Treg-depleted mice 56 samples shares macrophages
- GSE313869 Impact of Fc engineering on the transcriptional profile of monocytes and interstitial macrophages in the lungs of Hu-FcgR Tg mice after MA30 infection 36 samples shares macrophages
- GSE272755 Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia 263 samples shares macrophages
- GSE244320 RNA-sequencing analysis of colon RNA from mice with compound mutations of XBP1, caspase-8, TNFR1 and MLKL. 30 samples shares rna-sequencing
- GSE276773 Magnesium supplementation modifies synovial and splenic transcriptomic signatures and biologic pathways in arthritis mice 26 samples shares synovial
- GSE319684 Timecourse of FACS sorted Ly6C+ monocytes, tissue resident alveolar macrophages (trAMs), monocyte derived alveolar macrophages (bmAMs) and epithelial cells from SARS-CoV-2 (maVie16) vs. IAV (PR8) infected mouse lungs 176 samples shares macrophages
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.