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RBM24 regulates apoptosis rates by modulating global transcriptome profile in CAL27 cells [iRIP-seq]

ABSTRACT: RNA binding proteins (RBPs) are key factors regulating post-transcriptional events. Categorized as RBPs, RBM24 expression levels have been shown to be a prognosis-related pivotal gene in oral squamous cell carcinoma. We analyzed the binding targets and regulated post-transcriptional events of RBM24 in RBM24-overexpressing cell lines and controls using iRIP-seq and RNA-seq. RBM24-overexpressing cells showed significant changes in gene expression, which are involved in biological pathways related to apoptosis and immune inflammation. RBM24-regulated genes that undergo alternative splicing are primarily engaged in biological processes related to DNA damage repair and RNA metabolism. More notably, we found that RBM24 binds to lncRNAs in addition to pre-mRNAs. These results indicated that RBM24 could play a key role in cancer progression by finding clinical therapeutic targets for Oral squamous cell carcinoma.

ORGANISM(S): Homo sapiens

PROVIDER: GSE283216 | GEO | 2025/04/16

REPOSITORIES: GEO

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RBM24 regulates apoptosis rates by modulating global transcriptome profile in CAL27 cells [RNA-seq]

Project description:RNA binding proteins (RBPs) are key factors regulating post-transcriptional events. Categorized as RBPs, RBM24 expression levels have been shown to be a prognosis-related pivotal gene in oral squamous cell carcinoma. We analyzed the binding targets and regulated post-transcriptional events of RBM24 in RBM24-overexpressing cell lines and controls using iRIP-seq and RNA-seq. RBM24-overexpressing cells showed significant changes in gene expression, which are involved in biological pathways related to apoptosis and immune inflammation. RBM24-regulated genes that undergo alternative splicing are primarily engaged in biological processes related to DNA damage repair and RNA metabolism. More notably, we found that RBM24 binds to lncRNAs in addition to pre-mRNAs. These results indicated that RBM24 could play a key role in cancer progression by finding clinical therapeutic targets for Oral squamous cell carcinoma.

2025-04-16 | GSE283217 | GEO

RBM24 regulates apoptosis rates by modulating global transcriptome profile in CAL27 cells [iRIP-seq]

Project description:RBM24 regulates apoptosis rates by modulating global transcriptome profile in CAL27 cells [iRIP-seq]

| PRJNA1192525 | ENA

Induced of RBM24 expression effect on nasopharyngeal carcinoma cells

Project description:RNA-binding proteins (RBPs) are key components in the determination of miRNA function, as they control different stages of miRNA biogenesis and their localization, degradation and activity. To further investigate the underlying mechanisms of RBM24 in nasopharyngeal carcinoma (NPC) carcinogenesis, we compared the miRNA expression profiles in RBM24 induced and control cells by using human miRNA microarray. Microarray analysis identified 11 commonly upregulated and 12 commonly downregulated miRNAs in RBM24 induced cells. Among the 23 miRNAs, miR-25 ranked highest of all the commonly upregulated genes sorted in ascending order according to fold change values. RBM24 expression was controlled by tetracycline-off system in NPC cells. microRNA profiling of RBM24 expression induced cells vs. repressed cells: The expression of RBM24 in HONE-1, 5-8F, and CNE-2 cells was induced by removing doxycycline or repressed by adding doxycycline.

2016-03-13 | E-GEOD-66878 | biostudies-arrayexpress

Induced of RBM24 expression effect on nasopharyngeal carcinoma cells

2016-03-13 | GSE66878 | GEO

AAV9 mediated overexpression of Rbm24 in wildtype C57/Bl6 mice

Project description:The RNA-binding protein Rbm24 has recently been identified as a pivotal splicing factor in the developing heart. Loss of Rbm24 in mice disrupts cardiac development by governing a large number of muscle- specific splicing events. Since Rbm24 knockout mice are embryonically lethal, the role of Rbm24 in the adult heart remained unexplored. Here, we used adeno-associated viruses (AAV9) to investigate the effect of increased Rbm24 levels in adult mouse heart. Using high-resolution microarrays, we found 893 differentially expressed genes and 1102 differential splicing events in 714 genes in hearts overexpressing Rbm24. We found splicing differences in cardiac genes, such as PDZ and Lim domain 5, Phospholamban, and Titin, but did not find splicing differences in previously identified embryonic splicing targets of Rbm24, such as skNAC, αNAC, and Coro6. Gene ontology enrichment analysis demonstrated increased expression of extracellular matrix (ECM)-related and immune response genes. Moreover, we found increased expression of Tgfβ-signaling genes, suggesting enhanced Tgfβ-signaling in these hearts. Ultimately, this increased activation of cardiac fibroblasts, as evidenced by robust expression of Periostin in the heart, and extensive cardiac fibrosis. These results indicate that Rbm24 may function as a regulator of cardiac fibrosis, potentially through the regulation of TgfβR1 and TgfβR2 expression.

2018-07-16 | GSE110991 | GEO

microRNA-222 regulates muscle alternative splicing through Rbm24 during differentiation of skeletal muscle cells

Project description:A number of microRNAs have been shown to regulate skeletal muscle development and differentiation. MicroRNA-222 is downregulated during myogenic differentiation and its overexpression leads to alteration of muscle differentiation process and specialized structures. By using RNA induced silencing complex (RISC) pulldown followed by RNA sequencing, combined with in silico microRNA target prediction, we have identified two new targets of microRNA-222 involved in the regulation of myogenic differentiation, Ahnak and Rbm24. Specifically, the RNA binding protein Rbm24 is a major regulator of muscle specific alternative splicing and its downregulation by microRNA-222 results in defective exon inclusion impairing the production of muscle-specific isoforms of Coro6, Fxr1 and NACA transcripts. Reconstitution of normal levels of Rbm24 in cells overexpressing microRNA-222 rescues muscle-specific splicing. In conclusion, we have identified a new function of microRNA-222 leading to alteration of myogenic differentiation at the level of alternative splicing, and we provide evidence that this effect is mediated by Rbm24 protein. We built linear models using 2 different experiments and two conditions (miR222 over expression (n=1) and control siRNA(n=2)) with the linear formula (~condition + experiment).

2016-08-22 | E-GEOD-75981 | biostudies-arrayexpress

microRNA-222 regulates muscle alternative splicing through Rbm24 during differentiation of skeletal muscle cells

2016-08-22 | GSE75981 | GEO

Alternative Splicing Mediated by RNA-binding Protein RBM24 Facilitates Cardiac Myofibrillogenesis in a Differentiation Stage-Specific Manner

Project description:We ablated RBM24 from human embryonic stem cells (hESCs) using CRISPR/Cas9 techniques. Although RBM24-/- hESCs still differentiated into sarcomere-hosting cardiomyocytes, they exhibited disrupted sarcomeric structures with punctate Z-lines due to impaired myosin replacement during early myofibrillogenesis. Transcriptomics revealed >4000 genes regulated by RBM24. Among them, core myofibrillogenesis proteins (e.g. ACTN2, TTN, and MYH10) were misspliced. Consequently, MYH6 cannot replace non-muscle myosin MYH10, leading to myofibrillogenesis arrest at the early premyofibril stage and causing disrupted sarcomeres. Intriguingly, we found that the actin-binding domain (ABD; encoded by exon 6) of the Z-line anchor protein ACTN2 is predominantly excluded from early cardiac differentiation, whereas it is consistently included in human adult heart. CRISPR/Cas9-mediated deletion of exon 6 from ACTN2 in hESCs, as well as forced expression of full-length ACTN2 in RBM24-/- hESCs, further corroborated that inclusion of exon 6 is critical for sarcomere assembly. Overall, we have demonstrated that RBM24-facilitated inclusion of exon 6 in ACTN2 at distinct stages of cardiac differentiation is evolutionarily conserved and crucial to sarcomere assembly and integrity.

2021-11-22 | GSE186518 | GEO

Gene expression profiles in human oral squamous cell carcinoma tissues and cell lines

Project description:Common overexpressing genes were identified in all human oral squamous cell carcinoma tissues and/or cultured cells. Ten oral squamous cell carcinoma tissues and 10 human oral squamous cell carcinoma cell lines were analyzed. Three normal oral mucosa tissues and a human non-neoplastic keratinocyte cell lines were used as control samples.

2012-09-30 | E-GEOD-36090 | biostudies-arrayexpress

Expression data from oral squamous cell carcinoma cell line Cal27 after lentivirus shIL-1beta transfection

Project description:Oral squamous cell carcinoma cell line Cal27 was transfected with lentiviral shIL-1beta or scrambled shRNA. We used microarrays to detail the global program of gene expression during this process.

2016-05-17 | GSE70301 | GEO

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