{"id":"W4206343279","doi":"10.1038/s41522-021-00263-y","title":"Microbial co-occurrence network topological properties link with reactor parameters and reveal importance of low-abundance genera","year":2022,"lang":"en","type":"article","venue":"npj Biofilms and Microbiomes","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":223,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Alberta Innovates; China Scholarship Council; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Government of Canada","keywords":"Methanogenesis; Mesophile; Abundance (ecology); Microbial population biology; Relative species abundance; Betweenness centrality; Biology; Thermophile; Hydrolysis; Topology (electrical circuits); Ecology; Methane; Mathematics; Bacteria; Biochemistry; Enzyme; Statistics","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":[0.0001984311,0.0002236517,0.0002978511,0.00004175977,0.0002461246,0.00002880289,0.0001663554,0.0001032509,0.00002776208],"category_scores_gemma":[0.000009043199,0.0001749224,0.00005249096,0.0001213646,0.0004750524,0.000006825533,0.0002019209,0.00017846,7.044349e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001683334,"about_ca_system_score_gemma":0.0001262668,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005138441,"about_ca_topic_score_gemma":0.00003677162,"domain_scores_codex":[0.9986624,0.00007671802,0.0002903022,0.0005134668,0.00007004927,0.0003871128],"domain_scores_gemma":[0.9994113,0.00001038176,0.0001856743,0.0002516285,0.00004589306,0.00009504991],"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":[0.0002898909,0.00005606385,0.01943042,0.0001133303,0.00004131536,0.000005352286,0.0001012125,0.000008456416,0.9729095,0.00002905882,0.006340677,0.000674699],"study_design_scores_gemma":[0.002102245,0.00248372,0.01659377,0.000125076,0.00006018314,0.0006678118,0.0003696143,0.000009193096,0.8799924,0.00002242314,0.09669597,0.0008775915],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993302,0.005314661,0.0000134492,0.0003682101,0.000129095,0.0003062399,0.0005143445,0.00001262294,0.00003933617],"genre_scores_gemma":[0.9949957,0.0008135085,0.002568488,0.0007882971,0.0001053156,0.00002590932,0.0003960958,0.00001671984,0.0002899697],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09291712,"threshold_uncertainty_score":0.713313,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01357648972138982,"score_gpt":0.2305189552596946,"score_spread":0.2169424655383048,"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."}}