GEO series

Selecting specific bio-markers and researching mechanisms of immune regulation from inhalation injury (ILI) and traumatic lung injury (TLI) based on single cell RNA sequencing technology

GSE220699 Homo sapiens (human) Single-cell RNA-seq 21 samples Submitted 2025/11/11 Platform GPL24676

At a glance

Single-cell RNA-seq · human · 21 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: 21 samples: 21 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.

Summary (written by the submitters)

To profile the circulating immunological traits of patients with traumatic lung injury (TLI) and inhalation injury (ILI),providing a new direction for the depth research of the pathogenesis, and providing new immune-related targets for diagnosis of the severity of lung injury and treatment, we performed scRNA-seq of neutrophil and PBMCs from fresh circulating blood from 3 patients with TLI and 3 patients with ILI at longitudinal timepoints,as well as peripheral blood from 3

Read the full summary ↓

health controls(HCs).We conclude that at different stages of the course of TLI or ILI, there are differences in the proportion of immune cell subsets. PMN function is disordered in the acute stage and the progressive stage, and immature neutrophil subsets of different degrees appear which indicates acute myeloid cells are generated. At the same time, the interactions among the subpopulations of myeloid cells are significantly enhanced during the acute phase, which synergistically promote the development of TLI or ILI.

This dataset

Open GSE220699 in finder → Find more human RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE220699_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA911198 and SRA study SRP412614. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

21 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 21 sample titles: 21 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.

Samples in this study

GSM6809920 II-A-1, Human, inhalation injury, acute stage, day 1 post hospital admission, M1 and N1
GSM6809921 Healthy-1, Human, healthy, M1 and N1
GSM6809922 TLI-A-1, Human, traumatic lung injury, acute stage, day 1 post hospital admission, M1 and N1
GSM6809923 TLI-A-2，Human, traumatic lung injury, acute stage, day 1 post hospital admission, M2 and N2
GSM6809924 Healthy-2, Human, healthy, M2 and N2
GSM6809925 Healthy-3, Human, healthy, M3 and N3
GSM6809926 Human, traumatic lung injury, progressive stage, day 3 post hospital, M2 and N2
GSM6809927 Human, inhalation injury, progressive stage, day 3 post hospital, M1 and N1
GSM6809928 Human, traumatic lung injury, progressive stage, day 3 post hospital, M1 and N1
GSM6809929 Human, inhalation injury, convalescence, the day before discharged, M1 and N1
GSM6809930 Human, traumatic lung injury, convalescence, the day before discharged, M1 and N1
GSM6809931 Human, inhalation injury, acute stage, day 1 post hospital admission, M2 and N2
GSM6809932 Human, inhalation injury, progressive stage, day 3 post hospital, M2 and N2
GSM6809933 Human, traumatic lung injury, convalescence, the day before discharged, M2 and N2
GSM6809934 Human, inhalation injury, convalescence, the day before discharged, M2 and N2
GSM6809935 Human, traumatic lung injury, acute stage, day 1 post hospital admission, M3 and N3
GSM6809936 Human, traumatic lung injury, progressive stage, day 3 post hospital, M3 and N3
GSM6809937 Human, traumatic lung injury, convalescence, the day before discharged, M3 and N3
GSM6809938 Human, inhalation injury, acute stage, day 1 post hospital admission, M3 and N3
GSM6809939 Human, inhalation injury, progressive stage, day 3 post hospital, M3 and N3
GSM6809940 Human, inhalation injury, convalescence, the day before discharged, M3 and N3

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