{"id":"W3089452289","doi":"10.1101/2020.09.30.320465","title":"Negative controls of chemical probes can be misleading","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Click Chemistry and Applications","field":"Chemistry","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Structural Genomics Consortium; University of Toronto","funders":"Ministero dello Sviluppo Economico; Fundação de Amparo à Pesquisa do Estado de São Paulo; Ontario Ministry of Economic Development and Innovation; Ontario Genomics Institute; European Federation of Pharmaceutical Industries and Associations; Novartis Pharma; Wellcome Trust; Genome Canada; Ontario Genomics; Natural Sciences and Engineering Research Council of Canada; Pfizer","keywords":"Phenotype; Computational biology; Gene; Ligand (biochemistry); Confounding; Chemical biology; Function (biology); Biology; Target protein; Loss function; Genetics; Negative control; Chemistry; Receptor; Medicine","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.003409075,0.000960491,0.0008176986,0.001113975,0.0007453006,0.001438564,0.0008326057,0.001721465,0.01561879],"category_scores_gemma":[0.006600775,0.0005796042,0.0005567431,0.000646515,0.002247177,0.0009718756,0.0007772978,0.001918757,0.005679263],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001025988,"about_ca_system_score_gemma":0.0005146259,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007310364,"about_ca_topic_score_gemma":0.0009074161,"domain_scores_codex":[0.9945452,0.001553546,0.0003687551,0.0009629551,0.002280576,0.0002890078],"domain_scores_gemma":[0.9910516,0.004092998,0.001190009,0.002015652,0.001376391,0.0002734106],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0006041077,0.00009272539,0.001002399,0.00054952,0.00004426616,0.0004687977,0.000130419,0.0005050123,0.9507889,0.008873307,0.008348363,0.02859221],"study_design_scores_gemma":[0.00006925863,0.0003512209,0.002467282,0.0001054152,0.00005350253,0.001039957,0.0000995045,0.001965094,0.9207677,0.003921363,0.06911892,0.00004082231],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.3688711,0.01063061,0.4864399,0.009313442,0.007318439,0.001538842,0.005612026,0.01596305,0.09431256],"genre_scores_gemma":[0.7078977,0.003927414,0.2203689,0.009867052,0.0003331221,0.002004006,0.004673334,0.003088632,0.04783974],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01561879,"threshold_uncertainty_score":0.05225009,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02122445277969168,"score_gpt":0.2363639131645986,"score_spread":0.2151394603849069,"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."}}