Single-Cell Transcriptomic Analysis of Kaposi Sarcoma

Summary: Single-cell transcriptome analysis of skin and blood samples from individuals with Kaposi's sarcoma

Aims: Elucidate the cellular composition and gene expression profiles of Kaposi sarcoma herpesvirus (KSHV) infected cells and non-infected tumor infiltrating cells, and peripheral blood samples from the same individuals, with or without specific therapies, such as antiretroviral therapy for HIV, immunotherapies (such as immune checkpoint inhibitors and immune modulator drugs like pomalidomide), or angiogenesis inhibitory agents.

Population: Age 18 and older, both genders, including individuals from North America and other areas of the world (including Africa). Individuals with or without HIV are included.

Molecular Technologies: Single-cell RNAseq using 10x Genomics

Principal Findings:

1. Two distinct populations of endothelial cells were found infected with KSHV, one CD34+ and one CD34-
2. Both clusters include lytic and latent KSHV gene expression
3. The KSHV infected cell clusters differ in expression of housekeeping genes, proliferative markers, ribosomal and secretory vesicle genes
4. Biomarkers of KSHV infected cells were identified, including sodium channel SCN9A
5. Changes in cell composition with therapy are noted
6. Clonal amplification of TCR+ T-cells were noted in the skin and blood

Data Available through dbGaP: scRNA-seq data

version 2 of this study adds data for a single case (KS14) that was submitted for publication as a case report.

• Study Design:
  • Case Set
• Study Type:
  • Case Set
  • RNA Sequencing
  • Transcriptome Analysis
  • Transcriptome Sequencing
• Total number of consented subjects: 17
• Subject Sample Telemetry Report (SSTR)

Subjects included have Kaposi's sarcoma of various subtypes including epidemic, classical, endemic, or iatrogenic. They have agreed to skin biopsy and/or peripheral blood collection.

All samples were acquired since 2021.

• Primary Phenotype: Sarcoma, Kaposi
• AIDS-related Kaposi sarcoma
• Herpesvirus 8, Human
• Single-Cell Gene Expression Analysis

• Principal Investigator
  • Lee Ratner. St. Louis, MO, USA.
• Sequencing Center
  • Washington University. St. Louis, MO, USA.