2026-10-12T09:08:21Z https://api.figshare.com/v2/oai

oai:figshare.com:article/34000904 2026-09-25T18:20:07Z category_7 category_8 category_13 category_21 category_24 category_272 category_39 category_734 category_64 category_132 category_134 portal_5 item_type_3 month_year_09_2026

<p>Scoary results.</p> Jocelyn A. Hammond (25111760) Rachel L. Ehrlich (8293938) Ariel Gonzalez (22389474) Begoña Euba (563215) Kevin M. Raible (25111763) Jill M. Lawrence (25111766) Ari B. Gordon (25111769) Evangeline Williams (11024931) Mary C. Marino (25111772) Jason Limbo (25111775) Steven Lang (7532681) Bhaswati Sen (4599163) Sergey V. Balashov (25111778) Azad Ahmed (121246) Junkal Garmendia (217415) Joris Beld (136102) Garth D. Ehrlich (60143) Michael E. Pichichero (7880588) Ravinder Kaur (1871197) Joshua Chang Mell (7490840) Medicine Microbiology Genetics Biotechnology Evolutionary Biology Environmental Sciences not elsewhere classified Ecology Biological Sciences not elsewhere classified Cancer Infectious Diseases Virology sought new insights predicted functions consistent informed association tests candidate “ anti infected middle ears conferred alkaline sensitivity commonly afflicts children middle ear washes om ” operon div >< p clustered homologous genes bacterial disease burden haemophilus influenzae </ om disease pathogenesis middle ear prone children alkaline tolerance influenzae </ vitro </ spef </ prevalent om om pathogens om disease om arises om ), 12 om significant difference selective advantage polyamine metabolism ph homeostasis persistent colonization otitis media nitrogen metabolism laboratory strain genome sequenced gene absences fold increase distinct lineages clonal lineages associated bacterium across assemblies 9 healthy <p>Scoary was run using Roary outputs for each of three comparisons depending on clinical isolation source: NP vs. ME, healthy vs. sick subject, OP vs. NOP subject (only OP subjects had <i>H. influenzae</i> isolates from ME or sick but both had healthy and NP isolates). Results were filtered to those with Fisher’s exact test FDR adjusted p-value < 0.05 and Best_pairwise_comp_p < 0.05. “Scoary-collapsed” refers to testing genes with identical distributions across strains together, separated by triple hyphens to clarify co-inheritance and minimize unnecessary tests. Odds ratios are reported with the first listed isolation source as the numerator.</p> <p>(XLSX)</p> 2026-09-25T17:56:18Z Dataset Dataset 10.1371/journal.ppat.1014649.s003 https://figshare.com/articles/dataset/_p_Scoary_results_p_/34000904 CC BY 4.0