{"id":"W4388230158","doi":"10.1101/2023.10.31.564978","title":"Genes acquired by horizontal gene transfer share common regulatory patterns in <i>Photorhabdus laumondii</i>","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Entomopathogenic Microorganisms in Pest Control","field":"Agricultural and Biological Sciences","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Concordia University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Sinorhizobium meliloti; Photorhabdus; Gene; Natural product; Biology; Horizontal gene transfer; Gene product; Genetics; Enhancer; Psychological repression; Biosynthesis; Gene transfer; Gene expression; Biochemistry; Genome; Mutant","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0007921353,0.0009247928,0.001019284,0.0001083991,0.0002328986,0.000301798,0.001549309,0.001135168,0.0003020769],"category_scores_gemma":[0.00005583454,0.0005682081,0.000362427,0.0007262616,0.0001249522,0.0001848968,0.0006769738,0.0007617039,0.0001397827],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004441837,"about_ca_system_score_gemma":0.0001253958,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008511689,"about_ca_topic_score_gemma":0.0007442792,"domain_scores_codex":[0.9951153,0.0003374242,0.0009864554,0.001762284,0.000686645,0.001111837],"domain_scores_gemma":[0.9982718,0.0001609748,0.0002648013,0.0006962413,0.0002085764,0.0003976261],"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":[0.00003820815,0.0001789504,0.04862851,0.00009940819,0.00007230366,0.0001825054,0.00001136261,0.000006447762,0.9501426,0.00002215831,0.0005758133,0.00004178115],"study_design_scores_gemma":[0.000529247,0.0001167229,0.3085027,0.0003125367,0.0000746485,8.638221e-8,0.000009707296,0.0000408683,0.6851319,0.000003099339,0.004155431,0.001123049],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9857599,0.003409292,0.0000354904,0.0004000395,0.001192162,0.001226423,0.007192413,0.0007812538,0.000003036208],"genre_scores_gemma":[0.9973704,0.00083885,0.0001211725,0.0003459917,0.0007902753,0.0004352866,0.00002966974,0.00004837269,0.00002004867],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2650106,"threshold_uncertainty_score":0.9996769,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01338779890387364,"score_gpt":0.1959899581872707,"score_spread":0.1826021592833971,"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."}}