RNA-sequencing comparing the transcriptome of adventitial LepR+ fibroblasts versus their interstitial LepR- counterparts. [mouse RNA-Seq]
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × CF_P7_Cre vs 3 × CF_P7_Cre+ vs 3 × CF_P56_Cre vs 3 × CF_P56_Cre+Groups 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 GSE253547_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 PRJNA1066271 and SRA study SRP484639. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8022971 CF_P7_Cre-_rep1 CF_P7_Cre
- GSM8022972 CF_P7_Cre-_rep2 CF_P7_Cre
- GSM8022973 CF_P7_Cre-_rep3 CF_P7_Cre
- GSM8022974 CF_P7_Cre+_rep1 CF_P7_Cre+
- GSM8022975 CF_P7_Cre+_rep2 CF_P7_Cre+
- GSM8022976 CF_P7_Cre+_rep3 CF_P7_Cre+
- GSM8022977 CF_P56_Cre-_rep1 CF_P56_Cre
- GSM8022978 CF_P56_Cre-_rep2 CF_P56_Cre
- GSM8022979 CF_P56_Cre-_rep3 CF_P56_Cre
- GSM8022980 CF_P56_Cre+_rep1 CF_P56_Cre+
- GSM8022981 CF_P56_Cre+_rep2 CF_P56_Cre+
- GSM8022982 CF_P56_Cre+_rep3 CF_P56_Cre+
- GSE306514 Chemokine receptor expression patterns delineate distinct interstitial macrophage subsets in the lung and define a trajectory from monocytes to mature macrophages, bulk RNA-sequencing data 24 samples shares rna-sequencing, interstitial, rna-seq
- GSE81905 Single cell RNA-sequencing of retinal bipolar cells 683 samples shares rna-sequencing, rna-seq
- GSE74534 Parallel single-cell bisulfite- and RNA-sequencing link transcriptional and epigenetic heterogeneity [RNA-seq] 96 samples shares rna-sequencing, rna-seq
- GSE86310 Single-cell RNA-sequencing of murine atrioventricular node macrophages 76 samples shares rna-sequencing, rna-seq
- 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, rna-seq
- GSE285071 Bulk muscle RNA-sequencing of mice co-exposed to simvastatin and 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) 60 samples shares rna-sequencing, rna-seq
- GSE296507 Longitudinal single cell RNA-sequencing reveals evolution of micro- and macro-states in chronic myeloid leukemia 53 samples shares rna-sequencing, rna-seq
- GSE254121 Time-Course Analysis of Hepatic Single-Nuclei RNA-Sequencing in Mice Treated with 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) 42 samples shares rna-sequencing, 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.