Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [scRNA-seq]
Single-cell RNA-seq · human · 3 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 3 samples
- 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
- Metabolic reprogramming through histone lactylation in microglia and macrophages recruits CD8(+) T lymphocytes and aggravates spinal cord injuryNeuron · 2025
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 GSE254355_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1070003 and SRA study SRP486310. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 3 more — browse all 3 samples with per-sample file links →
- GSE295173 Multi-modal single-cell sequencing reveals network transition in circulating monocytes that aligns with faster recovery in trauma patients and favors a response to M-CSF [scRNA-Seq] 30 samples shares csf, scrna-seq
- GSE279392 Single-cell RNA and TCR sequencing from skin, blood and cerebral spinal fluid (CSF) samples from Degos disease patients 116 samples shares csf, spinal
- GSE285118 Single-cell profiling of blood and cerebrospinal fluid in tuberculous meningitis 11 samples shares cerebrospinal, spinal
- GSE283715 Cerebrospinal fluid-linked periventricular gradient pathology in multiple sclerosis associates with ependymal cell reactivity and cell adhesion disruption 18 samples shares cerebrospinal, spinal
- GSE330891 Spatial and cell type specific molecular genetic investigations of inflammatory myopathies with selective perifascicular injury. 301 samples shares sci
- GSE278723 Differential Roles of Astrocytic CSF1 in Alzheimer's Disease and Cerebral Amyloid Angiopathy: Insights from Transcriptomic Analysis 248 samples shares csf
- GSE308973 Localized PD-1 CAR T therapy reprograms neuroinflammation - human CSF data. 88 samples shares csf
- GSE327243 A CSF Disease-Associated Macrophage Signature defines Progressive Multiple Sclerosis [Frozen] 25 samples shares csf
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.