A single-cell atlas revealing cellular heterogeneity across healthy and diseased human thymus
Single-cell RNA-seq · human · 10 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
- 10 samples: 4 × TTH vs 2 × B1_Thymoma vs 2 × Thymic_CarcinomaGroups 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
- A single-cell atlas revealing cellular heterogeneity across healthy and diseased human thymusNature communications · 2026
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 GSE228033_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 PRJNA947904 and SRA study SRP428954. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 3 replicated groups read from 10 sample titles; they account for 8 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.
- GSM7113040 B1_Thymoma_1 B1_Thymoma
- GSM7113041 B1_Thymoma_2 B1_Thymoma
- GSM7113042 B2_Thymoma
- GSM7113043 B2_B3_Thymoma
- GSM7113044 TTH1 TTH
- GSM7113045 TTH2 TTH
- GSM7113046 TTH3 TTH
- GSM7113047 TTH4 TTH
- GSM7113048 Thymic_Carcinoma_1 Thymic_Carcinoma
- GSM7113049 Thymic_Carcinoma_2 Thymic_Carcinoma
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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.