Rebecca Young from the Texas Data Repository provides R scripts for differential expression analysis. The scripts compare monogamous and non-monogamous species across evolutionary clades and subgroups. The data was last updated on March 18, 2024.
Use Cases
- Identify differentially expressed genes between monogamous and non-monogamous species based on the described comparative analysis.
- Generate Rank Rank Hypergeometric Overlap (RRHO) plots and lists of up/down-regulated genes based on the provided R script.
- Perform DESeq2 analysis on evolutionary subgroups and create volcano plots based on the described methodology.
- Integrate Log2 fold difference, DESeq2 results, and RRHO outputs to create a heatmap of novel candidate genes.
Strengths
- Includes multiple analytical approaches (RRHO and DESeq2) for cross-validation of results.
- Focuses on a specific, comparative biological question regarding monogamy across species.
- Provides executable R scripts for reproducibility of the analysis workflow.
Limitations
- Description metadata is limited; actual data quality requires manual inspection after download.
- Column-level documentation is absent; field semantics must be inferred after download.
- Row count is unknown, which may limit suitability assessment.
Provenance
- Source
- Texas Data Repository Harvested Dataverse
- Collection Method
- Analysis scripts for differential expression, likely applied to underlying transcriptomic data.
- Time Range
- null
- Freshness
- Last updated 2024-03-18 05:33:36; freshness should be verified.
- Geography
- null