2026-10-12T22:21:50Z https://api.figshare.com/v2/oai

oai:figshare.com:article/33070076 2026-09-16T11:12:25Z category_24370 category_24310 category_24169 category_24208 item_type_3 month_year_09_2026

Data accompanying the PhD thesis: "Determinants of capsular specificity in Klebsiella temperate phages: from genome-wide association to capsule chemistry". Janusz Koszucki (20975093) Microbiology not elsewhere classified Genomics Structural biology (incl. macromolecular modelling) Bioinformatics and computational biology not elsewhere classified Klebsiella pneumoniae capsular serotypes bacteriophages bacteriophages host range determinant Accompanying studyThis dataset accompanies the PhD thesis "Determinants of capsular specificity in Klebsiella temperate phages: from genome-wide association to capsule chemistry" (Jagiellonian University in Kraków, Małopolska Centre of Biotechnology), and complements the data already deposited alongside the manuscript "Capsular specificity in temperate phages of Klebsiella pneumoniae is driven by diverse receptor-binding enzymes" (Otwinowska, Koszucki et al. 2026, PLOS Biology), available at: https://doi.org/10.6084/m9.figshare.29181188 For convenience, the subset of data from the publication used throughout the thesis is bundled into this archive's input data. Input data descriptionThe first part contains the raw input into the thesis pipeline: prophage sequences and metadata, the raw GWAS pipeline output (Otwinowska, Koszucki et al. 2026, PLOS Biology), and supplementary tables, data, figures underlying both the PLOS Biology manuscript and the thesis itself.<ul><li>input/data-gwas/2_PROPHAGES/: 8,105 predicted prophage sequences per bacterial isolate along with protein coding sequences (CDS), clustering results, functional annotation and summary metadata.</li><li>input/data-gwas/3_GWAS/: full GWAS output with functional annotation, raw pyseer association results and processing (subset of data from Otwinowska, Koszucki et al. 2026, PLOS Biology)</li><li>input/supplementary-otwinowska/: supplementary tables, data, figures and texts accompanying the PLOS Biology manuscript, reused as reference data throughout the thesis</li><li>input/supplementary-thesis/: PhD thesis supplementary tables and data, and figures</li></ul>Output data descriptionThe second part contains the processed tables and structural analyses generated by the thesis pipeline underlying every figure in Chapters 2, 3 and 4.<ul><li>output/processing/: processed tables output/rbp_*, cps_*/: canonical protein-sets tables underlying Chapters 2, 3 and 4</li><li>output/other/: itermediate data processing</li></ul> 2026-09-16T11:12:25Z Dataset Dataset 10.6084/m9.figshare.33070076.v2 https://figshare.com/articles/dataset/Data_accompanying_the_PhD_thesis_Determinants_of_capsular_specificity_in_i_Klebsiella_i_temperate_phages_from_genome-wide_association_to_capsule_chemistry_/33070076 CC BY 4.0