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Smarcb1 Loss Results in a Deregulation of esBAF Binding and Impacts the Expression[...]
Materials and Methods
Cell Culture
Materials and Methods
Generation of the 81K1 ESC Line
Cell Culture
RT-qPCR
Western Blot
Co-IP Experiments
Evaluation of Cell Growth and Cell Viability: MTT Assay and Doubling Time
RNA-Seq
ChIP-Seq for Ezh2, H3K27ac and H3K4me3
ChIP-Seq for Smarca4 and H3K27me3
Analysis of ChIP-Seq Data—Alignment and Peak Calling
ChIP-Seq Visualisation in Peak Profiles
Gene Ontology (GO) Analysis
Comparison of Smarca4 and Smarcb1 Knockdown Data
Combining RNA-Seq and ChIP-Seq Data
Permutation Tests and Antibody Enrichment
Enhancer Analysis
Results
Smarcb1 Regulates Gene Networks Involved in the Development of the Nervous System, Cell Organisation and Adhesion
The Regulation of Nervous System-Related Genes Is More Dependent on Smarcb1 Than on Smarca4 Function
Upon Smarcb1 kd, Smarca4 Binding and Histone Marks Change in Gene Regions Connected to Nervous System, Cell Organisation and Adhesion
A Subset of Downregulated Genes with Smarca4 INCREASE after Smarcb1 kd Show an Unexpected Binding Pattern
Smarcb1 Loss Results in Changes in Enhancer Occupancy, Particularly in Regions Regulating Nervous System-, Cell Organisation-, Adhesion- and Chromosome Organisation-Related Genes
Discussion
Conclusions
References
Aufsatz in einer Zeitschrift
Smarcb1 Loss Results in a Deregulation of esBAF Binding and Impacts the Expression of Neurodevelopmental Genes
Entstehung
15.4.2022
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