RNA-seq Data of Liver Tissue and Tumors

Oncogenic mutations accumulating in many chromatin-associated proteins have been identified in different tumor types. With a mutation rate from 10 to 57%, ARID1A has been widely considered a tumor suppressor gene. However, whether this role is mainly due to its transcriptional-related activities or its ability to preserve genome integrity is still a matter of intense debate. Here, we show that ARID1A is largely dispensable for preserving enhancer-dependent transcriptional regulation, being ARID1B sufficient and required to compensate for ARID1A loss. We provide in vivo evidence that ARID1A is mainly required to preserve genomic integrity in adult tissues. ARID1A loss primarily results in DNA damage accumulation, interferon type I response activation, and chronic inflammation leading to tumor formation. Our data suggest that in healthy tissues, the increased genomic instability that follows ARID1A mutations and the selective pressure imposed by the microenvironment might result in the emergence of aggressive, possibly immune-resistant, tumors. RNA was extracted from whole liver tissue and isolated tumors. The genotypes of the study are the follow: WT, Arid1a KO, Arid1a/b DKO mice, Arid1a KO/BcatEXON (liver tumor samples). Mouse liver samples were collected at two different time points (at 9 days and 30 days from Tamoxifen injection). A set of mice were also injected with an NR1L3 agonist (referred as TC in the file names). 2 biological replicates per condition.