Virus Dataset Detail

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Dataset Information
Accession GSE227708
Status 2023/4/1
Title Cancer-specific CD8 T cell frequency at baseline in blood correlates with response to PD-1 blockade in Merkel cell carcinoma
Organism Homo sapiens
Experiment type Other
Summary Understanding immunotherapy resistance is challenging due to difficulty identifying cancer-specific T cells. Merkel cell carcinoma (MCC) is typically driven by Merkel cell polyomavirus (MCPyV), facilitating identification of cancer-specific T cells across patients. We characterized cancer-specific T cells in 35 MCC patients, including participants in a neoadjuvant anti-PD-1 trial. Higher MCPyV-specific CD8 T-cell frequency in pre-treatment blood (but not tumors) correlated with response (p=0.005). Single-cell transcriptomics revealed MCPyV-specific CD8 T cells in blood had increased stem/memory signatures and decreased exhaustion signatures relative to their intratumoral counterparts. While frequency of peripheral cancer-specific T cells was associated with response to initial PD-(L)1 blockade, longitudinal study of acquired resistance revealed immune evasion by tumor-cell MHC-I downregulation despite cancer-specific T cell expansion to 0.5% in blood. Blood thus appears to be an important reservoir of cancer-specific CD8 T cells and adoptive cell therapies may be particularly effective in patients without such cells.
Samples
GSM ID Sample info Characteristics Description
GSM7105868 Gene Expression and surface protein counts from patient Z1082 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1082_GEX
GSM7105869 Gene Expression and surface protein counts from patient Z1210 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1210_GEX
GSM7105870 Gene Expression and surface protein counts from patient Z1227 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1227_GEX
GSM7105871 Gene Expression and surface protein counts from patient Z1249 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1249_GEX
GSM7105872 Gene Expression and surface protein counts from patient Z1308 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1308_GEX
GSM7105873 Gene Expression and surface protein counts from patient Z1493 (a tech rep at a later date to increase the no. of cells) tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1493B_GEX
GSM7105874 Gene Expression and surface protein counts from patient Z1493 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);Z1493_GEX
GSM7105875 Gene Expression and surface protein counts from patient w876 tissue:Tumor & Blood; library type:GEX/ADT Antibody or MHC multimer-derived oligonucleotide (ADT);w876_GEX
GSM7105876 single cell V(D)J (T cell receptor) library from patient Z1082 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1082_TCR
GSM7105877 single cell V(D)J (T cell receptor) library from patient Z1210 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1210_TCR
GSM7105878 single cell V(D)J (T cell receptor) library from patient Z1227 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1227_TCR
GSM7105879 single cell V(D)J (T cell receptor) library from patient Z1249 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1249_TCR
GSM7105880 single cell V(D)J (T cell receptor) library from patient Z1308 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1308_TCR
GSM7105881 single cell V(D)J (T cell receptor) library from patient Z1493 (a tech rep at a later date to increase the no. of cells) tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1493B_TCR
GSM7105882 single cell V(D)J (T cell receptor) library from patient Z1493 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;Z1493_TCR
GSM7105883 single cell V(D)J (T cell receptor) library from patient w876 tissue:Tumor & Blood; library type:TCR V(D)J TCR library;w876_TCR
Platform GPL24676  : Illumina NovaSeq 6000 (Homo sapiens)
Literature 38340723  
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scRNA-seq UMAP