Fig. 3: Hnrnpu mutant cortices display changes in mRNA expression and alternative splicing of genes critical for brain development and function.
From: Heterogeneous nuclear ribonucleoprotein U (HNRNPU) safeguards the developing mouse cortex
A Hierarchical clustering of the expression of 1556 cortical DE genes in E13 control (Hnrnpu+/+Emx1Cre), Mutant (Hnrnpufl/fl Emx1Cre/+) and Heterozygous (Het, Hnrnpufl/+ Emx1Cre/+) E13 mouse cortices. The expression values are represented by the log-normalized read count after the Zscore transformation. Each row is a gene. B Ingenuity analysis of RNA-seq highlighting multiple affected pathways and upstream regulators (Shape code: pentagon- function, flower- canonical pathway, ellipsoid- upstream regulator, triangle- kinase, square- growth factor, circle- other. Color code: light blue- downregulation, Red- strong activation, Pink- activation. lines represent interconnections between components in the network. color code: light blue- downregulation, Red- strong activation, Pink- activation). C Verification of differential expression of selected genes by qPCR in E13 cortices of control, Mutant, and Het embryos (n = 3 biological repeats (each measured in triplicates). Error bars ± SEM. D Dysregulation of alternative splicing landscape in Hnrnpu mutant mice identified by MAJIQ. The volcano plot depicts the comparison between the mutant (Hnrnpufl/flEmx1Cre) and the wildtype (Hnrnpu+/+Emx1Cre). Enriched cellular components are indicated. E Splice variant-specific PCR primers detect alternative isoforms of DCC, Siva1, and MDM2, in cDNA prepared from E13 embryo cortices of mutant (Hnrnpufl/flEmx1Cre) and control (Hnrnpu+/+Emx1Cre) littermates. Source data are provided as a Source Data file.
