Spinal cord bulk RNA sequencing of an EAE mouse model of multiple sclerosis
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 6 × EAE_vehicle vs 6 × EAE_BTKi vs 4 × Naïve_vehicleGroups 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 GSE281907_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 PRJNA1186164 and SRA study SRP545258. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 3 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8632071 EAE_vehicle_1 EAE_vehicle
- GSM8632072 EAE_vehicle_2 EAE_vehicle
- GSM8632073 EAE_vehicle_3 EAE_vehicle
- GSM8632074 Naïve_vehicle_1 Naïve_vehicle
- GSM8632075 Naïve_vehicle_2 Naïve_vehicle
- GSM8632076 Naïve_vehicle_3 Naïve_vehicle
- GSM8632077 Naïve_vehicle_4 Naïve_vehicle
- GSM8632078 EAE_BTKi_1 EAE_BTKi
- GSM8632079 EAE_BTKi_2 EAE_BTKi
- GSM8632080 EAE_BTKi_3 EAE_BTKi
- GSM8632081 EAE_BTKi_4 EAE_BTKi
- GSM8632082 EAE_BTKi_5 EAE_BTKi
- GSM8632083 EAE_BTKi_6 EAE_BTKi
- GSM8632084 EAE_vehicle_4 EAE_vehicle
- GSM8632085 EAE_vehicle_5 EAE_vehicle
- GSM8632086 EAE_vehicle_6 EAE_vehicle
- GSE281176 Spinal cord single-nuclei RNA sequencing of an EAE mouse model of multiple sclerosis 16 samples shares eae, sclerosis, multiple, spinal, cord
- GSE304067 Single nuclei transcriptomics from lumbar spinal cord of EAE mice treated with MIF nuclease inhibitor PAANIB1 17 samples shares eae, spinal, cord
- GSE287324 Transcriptomic analysis of spinal cord in day 35 experimental autoimmune encephalomyelitis (EAE) model 10 samples shares eae, spinal, cord
- GSE271662 RNA-seq of Mouse Spinal Cord after Lateral Compression Spinal Cord Injury followed by Delayed Atorvastatin or Vehicle Treatment [Bulk RNA-seq of mice spinal cords] 16 samples shares spinal, cord, bulk
- GSE264171 Effects at the transcriptomic level after knockout of Eed, Ezh2, Brd8 or Nr6a1 in spinal cord neural progenitor differentiation [bulkRNAseq] 41 samples shares spinal, cord, bulk
- GSE254396 Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [TRAP-seq] 71 samples shares sclerosis, bulk
- GSE332646 Bulk RNA-seq of juvenile mouse liver following NDMA or saline treatment in WT and Mgmt-/- genotypes across multiple timepoints 214 samples shares multiple, bulk
- GSE205029 Single Cell Sequencing Data of Mouse Spinal Cord with Dorsal Column Lesion and Astrocyte-Specific Ryk conditional Knockout 16 samples shares spinal, cord
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.