Supplement dataset and code for "Functional Unknomics of SAR11 clade using bioinformatics approaches"

dataset_for_visualization.zip (65.54 MB)Contains all datasets used to generate figures in the manuscript, including annotation tables, structural similarity search results, genomic-context outputs, and intermediate processed files. visualization_code_R.ipynb (4.94 MB)R notebook used to generate all visualizations included in this study. All necessary raw datasets are provided in dataset_for_visualization.zip. aai_cleaned_comp50_contam10.tsv (580.95 KB)AAI calculation results for SAR11 genomes. SonicParanoid2_ortholog_groups.tsv (7.94 MB)Orthologous group assignments generated using SonicParanoid2. Tara_metaT_og.tsv (208.17 MB)Metatranscriptome read-mapping results of SAR11 ortholog groups from the Tara Oceans dataset. TMHMM2_result.tsv (14.68 MB)Predicted transmembrane regions for SAR11 proteins (TMHMM 2.0). all_SAR11_defense_finder_genes.tsv (21.27 KB)all_SAR11_defense_finder_hmmer.tsv (525.50 KB)all_SAR11_defense_finder_systems.tsv (6.90 KB)DefenseFinder outputs, including predicted defense genes, HMMER matches, and system-level classifications.