Unstable EBV latency drives inflammation in multiple sclerosis patient derived spontaneous B cells [Batch2]
RNA-seq (gene expression) · human · 14 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
- Homo sapiens (human)
- Samples
- 14 samples: 4 × SLCL_AMS vs 3 × SLCL_SMS vs 2 × SLCL_HC vs 2 × HC_LCLGroups 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
- Multiple sclerosis patient-derived spontaneous B cells have distinct EBV and host gene expression profiles in active diseaseNature microbiology · 2024
Read the full summary ↓
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 GSE244313_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 PRJNA1022395 and SRA study SRP463837. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 4 replicated groups read from 14 sample titles; they account for 11 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.
- GSM7813411 SLCL_AMS1 SLCL_AMS
- GSM7813412 SLCL_AMS2 SLCL_AMS
- GSM7813413 SLCL_AMS3 SLCL_AMS
- GSM7813414 SLCL_AMS4 SLCL_AMS
- GSM7813415 SLCL_SMS1 SLCL_SMS
- GSM7813416 SLCL_SMS2 SLCL_SMS
- GSM7813417 SLCL_SMS3 SLCL_SMS
- GSM7813418 SLCL_HC1 SLCL_HC
- GSM7813419 SLCL_HC2 SLCL_HC
- GSM7813420 HC_LCL5_3
- GSM7813421 MS_LCL1_3
- GSM7813422 HC_LCL7 HC_LCL
- GSM7813423 HC_LCL8 HC_LCL
- GSM7813424 MS_LCL7
- GSE267750 TBX21+CD21loCXCR3+B cell expansion with an EBV-associated phenotype in clinically isolated syndrome conversion to multiple sclerosis 32 samples shares ebv, sclerosis, multiple
- GSE279972 Foamy microglia link oxylipins to disease progression in multiple sclerosis 109 samples shares sclerosis, multiple
- GSE330029 Temporal changes in metabolism guide oligodendrocyte precursor cell dynamics in aging and multiple sclerosis [BulkRNAseq] 108 samples shares sclerosis, multiple
- GSE283092 Distinct transcriptional changes distinguish efficient and poor remyelination in multiple sclerosis 96 samples shares sclerosis, multiple
- GSE290554 Mapping the Molecular Signature of Progressive Multiple Sclerosis 94 samples shares sclerosis, multiple
- GSE261258 Human regulatory memory B cells defined by expression of TIM-1 and TIGIT are dysfunctional in Multiple Sclerosis. 89 samples shares sclerosis, multiple
- GSE266132 Impact of the Multiple Sclerosis associated genetic variant CD226 Gly307Ser on human CD8 T cell functions 80 samples shares sclerosis, multiple
- GSE290450 Mapping the Molecular Signature of Progressive Multiple Sclerosis [194017] 78 samples shares sclerosis, multiple
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.