Summary from GEO: "The knockdown of Tmod, an actin-capping protein, decreases the expression of proteasomal degradation genes and increase expression of oxidative metabolism genes. It is also critical for the correct expression of larval actin isoforms." Overall design from GEO: "Performed gene expression profiling analysis using data obtained from RNA-seq of 2 experimental groups (tmodRNAi vs...

Summary from GEO: "Transcriptome analysis of prostate cancer patient derived organoid MKS-PCa3 upon knockdown of FOSL1, YAP, TAZ, or YAP/TAZ mediated by siRNAs." Overall design from GEO: "Transcriptome analysis was performed in MSK-PCa3 cells treated with siFOSL1, siYAP, siTAZ, or siYAP/TAZ for 48 hours."

Summary from GEO: "Transcriptome analysis of prostate cancer patient derived organoid DU145 cell line upon knockdown of YAP, TAZ, or YAP/TAZ mediated by siRNAs" Overall design from GEO: "Transcriptome analysis was performed in DU145 cell line treated with siYAP, siTAZ, or siYAP/TAZ for 48 hours."

Summary from GEO: "Chromatin accessibility of DU145 cell line upon knock down of YAP, and TAZ." Overall design from GEO: "Chromatin accessibility analysis was performed in DU145 cell line knock down of YAP, YAP/TAZ," TAZ

Summary from GEO: "Chromatin accessibility of MSKPCa3 organoids upon knock down of YAP, and TAZ." Overall design from GEO: "Chromatin accessibility analysis was performed in MSKPCa3 organoid knock down of YAP, YAP/TAZ, TAZ."

Description from Harvard Dataverse: "Deletion of caudal/cdx genes alters hox gene expression and causes defects in posterior tissues and hematopoiesis. Yet, the defects in hox gene expression only partially explain these phenotypes. To gain deeper insight into Cdx4 function, we performed ChIP-seq combined with gene expression profiling in zebrafish, and identified the transcription factor spalt-like...

Summary from GEO: "The mechanisms underlying oncogenesis in desmoid-type fibromatosis are poorly understood. This project sought to understand how β-catenin may function to promote desmoid formation and how external signaling by PDGFRβ modulates this activity. To examine this question, RNA-seq was performed on CTNNB1 knock-downs. Gene set enrichment analysis suggested that the oncogene controlled...

Summary from GEO: "The mechanisms underlying oncogenesis in desmoid-type fibromatosis are poorly understood. This project sought to understand how β-catenin may function to promote desmoid formation and how external signaling by PDGFRβ modulates this activity. To examine this question, RNA-seq was performed on CTNNB1 knock-downs. Gene set enrichment analysis suggested that the oncogene controlled...

Summary from GEO: "Unsupervised clustering of desmoid tumors and normal mesenchymal tissues was performed using henes associated with HIF1 activity. This accurately distiguished neoplastic tissues from normal controls. The study sought to identify genes differentially expressed in desmoid-type fibromatosis as opposed to normal mesenchymal tissues. We noted that beta-catenin, the central driver in...

Summary from GEO: "Ars2 is a component of the nuclear cap-binding complex that is required for cellular proliferation and contributes to microRNA biogenesis. Arrays were performed to determine the repertoire of microRNAs that change following knock-down of Ars2. Knock-down of DGCR8 was also performed to determine which microRNAs were expressed and had half-lives short enough to significantly decrease...