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5' gene expression (GEX) single-cell RNA sequencing of four (4) Hodgkin Lymphoma patient tumor biopsies

ABSTRACT: 5' gene expression (GEX) single-cell RNA sequencing of four (4) Hodgkin Lymphoma patient tumor biopsies

PROVIDER: PRJNA973706 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24627032_1.fastq.gz	Fastqsanger.gz
	SRR24627032_2.fastq.gz	Fastqsanger.gz
	SRR24627033_1.fastq.gz	Fastqsanger.gz
	SRR24627033_2.fastq.gz	Fastqsanger.gz
	SRR24627034_1.fastq.gz	Fastqsanger.gz

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5' gene expression (GEX) single-cell RNA sequencing of four (4) Hodgkin Lymphoma patient tumor biopsies

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Project description:BACKGROUND: Classical Hodgkin lymphoma is dominated by the nonneoplastic microenvironment, while the neoplastic Hodgkin-Reed-Sternberg cells compose only a minority of cells in the lymphoma tissue. Both, the Hodgkin-Reed-Sternberg cells due to their expression of CD30 and PD-L1 and the microenvironment with abundant T-cells and expression of PD1 are specifically targeted by new treatment concepts. AIM: We aimed to understand the dynamics of therapeutic targets in patients treated with conventional chemotherapy. METHODS: We analyzed sequential biopsy specimens obtained at diagnosis and at relapse from the same patient for morphology, immunophenotype and microenvironmental components. RESULTS: The morphological subtype changed between primary and relapse biopsy in 20% of cases. The immunophenotype was stable with respect to CD30, CD3 and LMP1 but variable with respect to CD15 and CD20 expression. Gene expression revealed 8 up- and 20 down-regulated genes at relapse (p≤0.05) with a consistent logarithmic fold change direction in at least 75% of all cases. For PD1, we found discrepant results between gene expression analysis (decrease at relapse) and number of PD1 positive cells assessed by immunohistochemistry (unchanged at relapse). PD-L1 in the neoplastic cells appeared unchanged between primary diagnosis and relapse. CONCLUSION: The expression of the therapeutic targets CD30, PD1 and PD-L1 can reliably be assessed in tumor specimen at first diagnosis and are unchanged under conventional chemotherapy. We used digital multiplexed gene expression (DMGE) with FFPE derived RNA to analyze sequential biopsy specimens obtained at diagnosis and at relapse from the same patient for morphology, immunophenotype and microenvironmental components.

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