Peripheral clonal expansion of T lymphocytes associates with tumour infiltration and response to cancer immunotherapy
Single-cell RNA-seq · human · 32 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
- 32 samples
- 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 GSE139555_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 PRJNA580251. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 32 more — browse all 32 samples with per-sample file links →
- GSE253173 Coupling of response biomarkers between tumour and peripheral blood in patients undergoing chemoimmunotherapy II 100 samples shares immunotherapy, peripheral
- GSE315928 Differential T cell clonal dynamics underlie outcomes to frontline chemoimmunotherapy in advanced gastric cancer [paired scRNA/TCR-seq] 94 samples shares immunotherapy, clonal
- GSE296954 Differentiation of tumor-infiltrating GZMK+ effector memory T cells associates with response to neoadjuvant immunotherapy in head and neck cancer 44 samples shares immunotherapy, associates
- GSE300475 Single cell RNA sequencing for longitudinal human peripheral blood from HR+ breast cancer patients treated with immunotherapy 32 samples shares immunotherapy, peripheral
- 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 lymphocytes, peripheral
- GSE296867 Post-treatment peripheral-blood T cells from HNSCC patients undergoing neoadjuvant immunotherapy treatment. 22 samples shares immunotherapy, peripheral
- GSE264695 Neoadjuvant anti-PD1 immunotherapy for surgically accessible recurrent glioblastoma: clinical and molecular outcomes of a stage 2 single-arm expansion cohort 20 samples shares immunotherapy, expansion
- GSE208111 Transcriptome of human peripheral blood regulatory T cells with distinct ex vivo expansion profile 19 samples shares peripheral, expansion
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.