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Transcriptomic profiling of lung adenocarcinoma associated alleles in A549s

ABSTRACT: Based on the previous eVIP study (Cancer Cell, 2016), we profiled the transcriptomes of lung adenocarcinoma cell lines expressing oncogenes to compare methods and investigate the effects of these oncogenes on the cells' whole transcriptomes, differential expression, and alternative splicing

ORGANISM(S): Homo sapiens

PROVIDER: GSE207511 | GEO | 2022/07/10

REPOSITORIES: GEO

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Transcriptomic profiling of oncogenic KRAS and TP53 in lung adenocarcinoma cells

Project description:Based on the previous eVIP study (Cancer Cell, 2016), we profiled the transcriptomes of lung adenocarcinoma cell lines expressing oncogenic KRAS and TP53 to compare methods and investigate the effects of these oncogenes on the cells' whole transcriptomes.

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Single-cell RNA sequencing of lung adenocarcinoma patient-derived cells

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Next-generation sequencing identifies mRNAs targets that experience significant changes in alternative splicing upon PQBP1 knockdown in mouse embryonic cortical neurons

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PP2A inhibition instructs spliceosome phosphorylation patterns to create splicing vulnerability in colon adenocarcinoma

Project description:Protein phosphatase 2A (PP2A) is a promiscuous enzyme affecting cellular physiology. It is unclear however, which of the cellular processes are most perturbed upon PP2A inhibition and how such perturbations could be exploited therapeutically. Here, we report an unanticipated sensitivity of the splicing machinery to phosphorylation changes in response to PP2A inhibition by LB-100 in colorectal adenocarcinoma. We observe enrichment for differentially phosphorylated sites within cancer-critical splicing nodes of U2 snRNP, SRSF and hnRNP proteins. Changed phosphorylation endows LB-100 treated colorectal adenocarcinoma cells with differential splicing patterns. Over 1000 exon skipping and intron retention events in PP2A-inhibited cells affect predominantly regulators of genomic integrity. Finally, LB-100-evoked alternative splicing is predicted to be a source of neoantigens that can improve cancer treatment responses to immune modulators. Our findings provide a potential explanation for the pre-clinical and clinical observations that PP2A inhibition sensitizes cancer cells to immune checkpoint blockade and genotoxic agents.

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Gene expression and alternative splicing in pancreatic ductal adenocarcinoma (PDAC) [exon level]

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Gene expression and alternative splicing in pancreatic ductal adenocarcinoma (PDAC) [gene level]

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2019-09-30 | BIOMD0000000827 | BioModels

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