Tracing immunological interaction in trimethylamine N-oxide hydrogel-derived zwitterionic microenvironment during promoted diabetic wound regeneration
Single-cell RNA-seq · mouse · 12 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
- Mus musculus (mouse)
- Samples
- 12 samples: 12 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.
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 GSE267890_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 PRJNA1112591 and SRA study SRP508266. 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 12 sample titles: 12 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.
- GSM8281185 A1, replicate1, scRNA-seq
- GSM8281186 A2, replicate2, scRNA-seq
- GSM8281187 A3, replicate1, scRNA-seq
- GSM8281188 A4, replicate2, scRNA-seq
- GSM8281189 B1, replicate1, scRNA-seq
- GSM8281190 B2, replicate1, scRNA-seq
- GSM8281191 B3, replicate2, scRNA-seq
- GSM8281192 B4, replicate3, scRNA-seq
- GSM8281193 C1, replicate1, scRNA-seq
- GSM8281194 C2, replicate1, scRNA-seq
- GSM8281195 C3, replicate2, scRNA-seq
- GSM8281196 C4, replicate3, scRNA-seq
- GSE304653 Exercise suppresses breast cancer and reprograms the immune tumor microenvironment, cancer cell intrinsic features, and their interaction 23 samples shares microenvironment, interaction
- GSE218178 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance 183 samples shares microenvironment
- GSE218173 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance [acid] 150 samples shares microenvironment
- GSE259380 TG6050, an oncolytic vaccinia virus encoding interleukin-12 and anti-CTLA-4 antibody induces tumor regression through profound tumor microenvironment remodeling and strong antitumor adaptive immune response [RNA-seq] 149 samples shares microenvironment
- GSE305266 The cortical microenvironment drives early immune organization and controls early osteoclastogenesis in bone healing 90 samples shares microenvironment
- GSE316139 Studying the role of humanized-TLR8 on immune cell dynamics in the placental microenvironment in a spontaneous mouse model of aPL-induced pregnancy loss 57 samples shares microenvironment
- GSE310560 Deep profiling of multiple mouse tumor microenvironments using scRNAseq 56 samples shares microenvironment
- GSE270744 Single Cell Analysis Reveals The Essential Role of TGFbeta Pathway in Shaping Immune-suppressive Microenvironment and Promoting CRPC Development 48 samples shares microenvironment
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.