Interleukin-11 causes alveolar type 2 cell dysfunction and prevents alveolar regeneration [RNA-seq]
Single-cell RNA-seq · human · 13 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 13 samples: 13 samples, each with a distinct title — no replicated groupsGroups 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
- Interleukin-11 causes alveolar type 2 cell dysfunction and prevents alveolar regenerationNature communications · 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 GSE218386_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 PRJNA903473 and SRA study SRP408797. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 13 sample titles: 13 distinct titles with little repetition. 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.
- GSM6744045 HPEpiC, Untreated, Biol rep1, Tube1
- GSM6744046 HPEpiC, TGFβ1-treated, Biol rep1, Tube1
- GSM6744047 HPEpiC, IL11-treated, Biol rep1, Tube1
- GSM6744048 HPEpiC, Untreated, Biol rep2, Tube2
- GSM6744049 HPEpiC, TGFβ1-treated, Biol rep2, Tube2
- GSM6744050 HPEpiC, IL11-treated, Biol rep2, Tube2
- GSM6744051 HPEpiC, Untreated, Biol rep3, Tube3
- GSM6744052 HPEpiC, TGFβ1-treated, Biol rep3, Tube3
- GSM6744053 HPEpiC, IL11-treated, Biol rep3, Tube3
- GSM6744054 HPEpiC, Untreated, Biol rep4, Tube4
- GSM6744055 HPEpiC, TGFβ1-treated, Biol rep4, Tube4
- GSM6744056 HPEpiC, IL11-treated, Biol rep4, Tube4
- GSM6744057 HPEpiC, Untreated, Biol rep5, Tube4
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- GSE277575 Large B-cell lymphoma imprints a dysfunctional immune phenotype that persists years after treatment 62 samples shares dysfunction, type
- GSE292970 Spatially organizing million callus cells identify the core-network enable tomato shoot regeneration [RNA-Seq] 54 samples shares regeneration, rna-seq
- GSE235738 Alveolar Soft Part Sarcoma is driven by ASPSCR1::TFE3-dependent and therapeutically targetable transcriptional programs [RNA-Seq] 35 samples shares alveolar, rna-seq
- GSE231628 Dysfunctional effector memory CD8 T cells in the bronchoalveolar compartment of people living with HIV 33 samples shares dysfunction, alveolar
- GSE199345 Siglec-1−/FSClow alveolar macrophages exhibit pro-inflammatory phenotypes in chronic obstructive pulmonary disease 24 samples shares alveolar, type
- GSE318418 Immunosuppressive monocytes are enriched in hepatocellular carcinoma patients with liver dysfunction in a phase II trial of combination sorafenib and nivolumab [scRNA-Seq] 16 samples shares dysfunction, 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.