Mouse Memory Formation: qPCR Validation Data for Chromatin and Gene Expression

qPCR validation data from adult mice supports a genome-wide study of chromatin and gene expression during memory formation and maintenance. The data validates ChIP-seq library enrichment and differentially methylated genes across brain regions like CA1 and ACC under different memory conditions. Experiments were run on a Roche LightCycler 480 and analyzed with pyQPCR software.

Use Cases

• Validate ChIP-seq library enrichment based on qPCR values for histone modifications like H3K27ac and H3K4me3.
• Confirm differential DNA methylation in candidate genes such as Loxhd1 and Vrk1 mentioned in the description.
• Compare gene expression patterns between neuronal and non-neuronal cell populations in brain regions CA1 and ACC.
• Assess technical reproducibility of sequencing experiments using housekeeping genes like GAPDH and NeuN as controls.

Strengths

• Data validates multiple histone modifications (H3K27ac, H3K79me3, H3K4me3, H3, H3K27me3, H3K4me1, H3K9ac) across different experimental conditions.
• Specific target genes for validation are listed, including NeuN, cFOS, Loxhd1, Vrk1, Fgfr2, Nova1, and Reelin.
• qPCR analysis parameters are documented, including a 90% confidence interval and a maximum E(Ct) of 0.30.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Last update date is unknown; freshness unverified.

Provenance

Source

paperswithcode

Collection Method

qPCR experiments run on a Roche LightCycler 480, with data analyzed using pyQPCR software.