Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia
RNA-seq (gene expression) · mouse · 263 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
- 263 samples: 251 distinct titles, 4 of them repeatedGroups 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.
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 GSE272755_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 PRJNA1138670 and SRA study SRP691714. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 263 sample titles: 251 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.
- GSM8397816 DMSO, 1 hour, replicate 1 [HSA-000022243]
- GSM8397817 DMSO, 1 hour, replicate 2 [HSA-000022244]
- GSM8397818 DMSO, 1 hour, replicate 3 [HSA-000022245]
- GSM8397819 BafA1, 1 hour, replicate 1 [HSA-000022246]
- GSM8397820 BafA1, 1 hour, replicate 2 [HSA-000022247]
- GSM8397821 BafA1, 1 hour, replicate 3 [HSA-000022248]
- GSM8397822 DMSO, 7 hours, replicate 1 [HSA-000022249]
- GSM8397823 DMSO, 7 hours, replicate 2 [HSA-000022250]
- GSM8397824 DMSO, 7 hours, replicate 3 [HSA-000022251]
- GSM8397825 BafA1, 7 hours, replicate 1 [HSA-000022252]
- GSM8397826 BafA1, 7 hours, replicate 2 [HSA-000022253]
- GSM8397827 BafA1, 7 hours, replicate 3 [HSA-000022254]
- GSM8397828 DMSO, 14 hours, replicate 1 [HSA-000022255]
- GSM8397829 DMSO, 14 hours, replicate 2 [HSA-000022256]
- GSM8397830 DMSO, 14 hours, replicate 3 [HSA-000022257]
- GSM8397831 BafA1, 14 hours, replicate 1 [HSA-000022258]
- GSM8397832 BafA1, 14 hours, replicate 2 [HSA-000022259]
- GSM8397833 BafA1, 14 hours, replicate 3 [HSA-000022260]
- GSM8397834 DMSO, 22 hours, replicate 1 [HSA-000022261]
- GSM8397835 DMSO, 22 hours, replicate 2 [HSA-000022262]
- GSM8397836 DMSO, 22 hours, replicate 3 [HSA-000022263]
- GSM8397837 BafA1, 22 hours, replicate 1 [HSA-000022264]
- GSM8397838 BafA1, 22 hours, replicate 2 [HSA-000022265]
- GSM8397839 BafA1, 22 hours, replicate 3 [HSA-000022266]
- GSM8397985 DMSO, 1 hour, replicate 1 [HSA-000022153]
- GSM8397986 DMSO, 1 hour, replicate 2 [HSA-000022154]
- GSM8397987 DMSO, 1 hour, replicate 3 [HSA-000022155]
- GSM8397988 DMSO, 1 hour, replicate 4 [HSA-000022156]
- GSM8397989 DMSO, 1 hour, replicate 5 [HSA-000022157]
- GSM8397990 BafA1, 1 hour, replicate 1 [HSA-000022158]
- GSM8397991 BafA1, 1 hour, replicate 2 [HSA-000022159]
- GSM8397992 BafA1, 1 hour, replicate 3 [HSA-000022160]
- GSM8397993 BafA1, 1 hour, replicate 4 [HSA-000022161]
- GSM8397994 BafA1, 1 hour, replicate 5 [HSA-000022162]
- GSM8397995 U18666A, 1 hour, replicate 1 [HSA-000022163]
- GSM8397996 U18666A, 1 hour, replicate 2 [HSA-000022164]
- GSM8397997 U18666A, 1 hour, replicate 3 [HSA-000022165]
- GSM8397998 U18666A, 1 hour, replicate 4 [HSA-000022166]
- GSM8397999 U18666A, 1 hour, replicate 5 [HSA-000022167]
- GSM8398000 VPS34IN-1, 1 hour, replicate 1 [HSA-000022168]
+ 223 more — browse all 263 samples with per-sample file links →
- GSE331360 Bulk RNA sequencing of bone marrow-derived macrophages from WT and Ch25h-KO mice under different treatment conditions 24 samples shares marrow-derived, macrophages, bone
- GSE279117 HIF1α deletion promotes mitochondrial repurposing in bone marrow-derived macrophages, but not in tissue-resident alveolar macrophages 24 samples shares marrow-derived, macrophages, bone
- GSE201128 The response to lipopolysaccharide (LPS) of bone marrow derived macrophages treated with oxysterol binding protein (OSBP) inhibitors 30 samples shares macrophages, bone
- GSE290194 Repair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery [scRNA-Seq] 16 samples shares macrophages, microglia
- GSE302734 Single-Cell RNA Sequencing Unravels Interactions between Macrophages and Fibroadipogenic Progenitors during Ectopic Bone Formation in FOP Mice 12 samples shares macrophages, bone
- GSE304706 Persistent ER stress in macrophages fuels age-related inflammation and vulnerability to infection 8 samples shares macrophages, stress
- GSE290434 A stress response axis in tumor-associated macrophages dictates phenotype heterogeneity and immunotherapy evasion 21 samples shares macrophages, stress
- GSE296797 CD38+CD93+ microglia and macrophages drive neuroinflammation through glycolysis-histone lactylation axis in multiple sclerosis model mice 17 samples shares macrophages, microglia
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.