Clonal replacement of tumor-specific T cells following PD-1 blockade [single cells]
Immunotherapies that block inhibitory checkpoint receptors on T cells have transformed the clinical care of cancer patients. However, the clonal origin of tumor-specific T cells following checkpoint blockade in patients remains unclear. Here, we performed paired single-cell RNA- and T cell receptor (TCR)- sequencing on site-matched tumors from patients with basal cell carcinoma (BCC) pre- and post-anti-PD-1 therapy. Tracking TCR clonotypes and transcriptome phenotypes revealed a coupling of tumo...
Provenance — who produced it, who reused it
Linked to 21 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.
- Integrated analysis of single-cell and bulk RNA sequencing data... 2022 · 280 cites
- A gene expression signature of TREM2hi macrophages and γδ T cell... 2020 · 246 cites
19 further papers cite this accession but reuse could not be confirmed.
Deep data QC
93/100 · AStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
High-quality human RNA-seq with 26 bp reads achieving 99% Q20 and 96.5% Q30 across 3.5 billion bases suggests small-RNA or microRNA profiling rather than whole transcriptome sequencing. The exceptional basecall fidelity (mean quality 38.7) and negligible adapter contamination support confident miRNA quantification; minimal expected to see fragmented or degraded transcripts.
The A grade is a transparent weighted average. Each metric below scored from 0–100% against the published bulk-RNA-seq thresholds, weighted by its importance; nothing is hidden or subjective.
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0
Scientific quality
Based on hands-on reproduction of the papers that use this dataset. A reproducible paper that stands on this data is positive evidence; a flagged one is a prompt to look closer — never a verdict on the dataset itself without the evidence.