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Integrative single-cell analysis reveals the transcriptional and epigenetic regulatory features of clear cell renal cell carcinoma

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posted on 2022-12-14, 05:59 authored by Zhenyuan YuZhenyuan Yu

Clear cell renal cell carcinoma (ccRCC) frequently features a high level of tumor heterogeneity. Elucidating the chromatin landscape of ccRCC at the single-cell level could provide a deeper understanding of the functional states and regulatory dynamics underlying the disease. Here, we performed single-cell RNA sequencing (scRNA-seq) and single-cell assay for transposase-accessible chromatin using sequencing (scATAC-seq) on 19 ccRCC samples, and whole-exome sequencing was used to understand the heterogeneity between individuals. Single-cell transcriptome and chromatin accessibility maps of ccRCC were constructed to reveal the regulatory characteristics of different tumor cell subtypes in ccRCC. Two lncRNAs (RP11-661C8.2 and CTB-164N12.1) were identified that promoted the invasion and migration of ccRCC, which was validated with in vitro experiments. Taken together, this study comprehensively characterized the gene expression and DNA regulation landscape of ccRCC, which could provide new insights into the biology and treatment of ccRCC.


Funding

National Natural Science Foundation of China (81770759)

National Key R&D Program of China (2017YFC0908000)

Major Project of Guangxi Innovation Driven (AA18118016)

Guangxi key Laboratory for Genomic and Personalised Medicine [grant number 16-380-54, 17-259-45, 19-050-22, 19-185-33, 20-065-33]

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