Branch Site Analysis: Positive Selection Sites in TLR4 Protein

MEME analysis results identifying codon positions under positive selection in the TLR4 protein. The dataset includes JSON files for visualization in HyPhy Vision and CSV files used to generate graphs with custom MATLAB scripts. Author Zijun He published this 345.1 KB dataset on figshare under a CC-BY-4.0 license.

Use Cases

• Visualizing the distribution of positively selected sites along a protein sequence based on the MEME analysis output.
• Comparing selection patterns between different biological groups (e.g., agricultural vs. companion) using the dual-file graphing script.
• Quantifying the number of evolutionary branches under selection at specific codon sites using the branch analysis script.

Strengths

• Data is directly linked to specific, reproducible bioinformatics workflows (aBSREL, MEME, HyPhy Vision).
• Includes 345.1 KB of analysis outputs and custom MATLAB scripts for generating visualizations.
• Published under a permissive CC-BY-4.0 license, facilitating reuse.

Limitations

• Row count and column-level documentation are unknown, requiring manual inspection after download.
• The description does not specify the number of sequences analyzed or their exact source organisms.
• Freshness should be verified as the last update is dated 2026-06-04.

Provenance

Source

Sequences obtained from BetaEnsembl and NCBI GeneBank.

Collection Method

Sequences were aligned in Aliview and analyzed with Datamonkey's aBSREL and MEME tools.

Freshness

Last updated 2026-06-04 18:54:49.