{"id":"W4401580310","doi":"10.1021/acs.jproteome.4c00255","title":"Comparative Cross-Kingdom DDA- and DIA-PASEF Proteomic Profiling Reveals Novel Determinants of Fungal Virulence and a Putative Druggable Target","year":2024,"lang":"en","type":"article","venue":"Journal of Proteome Research","topic":"Fungal Infections and Studies","field":"Medicine","cited_by":20,"is_retracted":false,"has_abstract":true,"ca_institutions":"Bruker (Canada); University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Government of Ontario; Canada Research Chairs; Canada Foundation for Innovation; Ministry of Colleges and Universities; University of Guelph","keywords":"Biology; Virulence; Cryptococcus neoformans; Druggability; Proteome; Proteomics; Pathogen; Infectivity; Fungal pathogen; Human pathogen; Computational biology; Cryptococcus gattii; Host–pathogen interaction; Microbiology; Cryptococcosis; Genetics; Bacteria; Gene","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.003217063,0.0001516663,0.0006353285,0.0005234219,0.0002564965,0.0001326513,0.00008509645,0.0000793287,0.0000118321],"category_scores_gemma":[0.0007597943,0.0001042971,0.00008276391,0.0005106842,0.0005419763,0.0003451937,0.000148062,0.0009417,0.000003938541],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001132192,"about_ca_system_score_gemma":0.0003949122,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005240542,"about_ca_topic_score_gemma":0.000002474733,"domain_scores_codex":[0.9979635,0.0001719665,0.0006047976,0.0002521359,0.0006538887,0.0003537451],"domain_scores_gemma":[0.9979629,0.0004706459,0.0001929134,0.0001101548,0.001087841,0.0001755414],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0010222,0.0002842839,0.1385622,0.003031332,0.0003332972,0.0003520405,0.003284104,0.00001732309,0.8519622,0.0003287239,0.0002267847,0.0005955212],"study_design_scores_gemma":[0.00298299,0.006723842,0.1527175,0.005323074,0.000138239,0.001903011,0.001770613,0.006130366,0.8184698,0.002967292,0.0005629035,0.000310341],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9926722,0.00486166,0.0003489383,0.000320089,0.00008076287,0.001319019,0.00003980067,0.000009326316,0.0003482071],"genre_scores_gemma":[0.9892195,0.000276331,0.009705137,0.000007552976,0.000170666,0.00008527558,6.563918e-7,0.00001624814,0.0005186608],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03349243,"threshold_uncertainty_score":0.4253114,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1579197526136605,"score_gpt":0.4813433784253489,"score_spread":0.3234236258116884,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}