Lupus neutrophils transcriptome
RNA-seq (gene expression) · human · 27 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
- 27 samples: 15 × sle_pmn vs 12 × hc_pmnGroups 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 GSE261866_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 PRJNA1089226 and SRA study SRP496226. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 27 samples.
How we read this: 2 replicated groups read from 27 sample titles; they account for 27 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.
- GSM8153228 sle_pmn1 sle_pmn
- GSM8153229 sle_pmn2 sle_pmn
- GSM8153230 sle_pmn3 sle_pmn
- GSM8153231 sle_pmn4 sle_pmn
- GSM8153232 sle_pmn5 sle_pmn
- GSM8153233 sle_pmn6 sle_pmn
- GSM8153234 sle_pmn7 sle_pmn
- GSM8153235 sle_pmn8 sle_pmn
- GSM8153236 sle_pmn9 sle_pmn
- GSM8153237 sle_pmn10 sle_pmn
- GSM8153238 sle_pmn11 sle_pmn
- GSM8153239 sle_pmn12 sle_pmn
- GSM8153240 sle_pmn13 sle_pmn
- GSM8153241 sle_pmn14 sle_pmn
- GSM8153242 sle_pmn15 sle_pmn
- GSM8153243 hc_pmn1 hc_pmn
- GSM8153244 hc_pmn2 hc_pmn
- GSM8153245 hc_pmn3 hc_pmn
- GSM8153246 hc_pmn4 hc_pmn
- GSM8153247 hc_pmn5 hc_pmn
- GSM8153248 hc_pmn6 hc_pmn
- GSM8153249 hc_pmn7 hc_pmn
- GSM8153250 hc_pmn8 hc_pmn
- GSM8153251 hc_pmn9 hc_pmn
- GSM8153252 hc_pmn10 hc_pmn
- GSM8153253 hc_pmn11 hc_pmn
- GSM8153254 hc_pmn12 hc_pmn
- GSE293224 RNAseq analysis of human neutrophils from healthy controls and from people with systemic lupus eruthematosus 35 samples shares neutrophils, lupus
- GSE226147 Modeling of Clinical Phenotypes in Systemic Lupus Erythematosus Based on the Platelet Transcriptome and FCGR2a Genotype 69 samples shares lupus
- GSE237690 Lupus dermal fibroblasts hyper-respond to inflammatory cytokines and exhibit a pro-fibrotic phenotype to TGF-β in patients with scarring skin disease 317 samples shares lupus
- GSE288904 Transcriptome Sequencing Data of Peripheral Blood Neutrophils in Multiple Sclerosis Patients and Healthy Volunteers 37 samples shares neutrophils
- GSE277909 Epigenetic attenuation of interferon signaling drives aging-related improvements in systemic lupus 271 samples shares lupus
- GSE334369 Paradoxical Phenotype of Fibromyalgia Neutrophils: Elevated Baseline Inflammation but Blunted Response to Stimulation 206 samples shares neutrophils
- GSE322527 Single-cell transcriptomes and T cell receptor sequences of CD4 or CD8 single positive T lymphocytes from peripheral blood or urine of lupus nephritis patients at flare. 26 samples shares lupus
- GSE275823 Uncovering the Dynamics of Immune Cell Populations in the First Week of Life: The Interplay of Neutrophils and Breastfeeding 178 samples shares neutrophils
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.