{"id":"W2527201338","doi":"10.21769/bioprotoc.1270","title":"Design of a Transcription-based Secretion Activity Reporter (TSAR) for the Type III Secretion Apparatus of Shigella flexneri and Uses Thereof","year":2014,"lang":"en","type":"article","venue":"BIO-PROTOCOL","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Canadian Institutes of Health Research; Howard Hughes Medical Institute","keywords":"Shigella flexneri; Secretion; Shigella; Green fluorescent protein; Cell biology; Microbiology; Effector; Type three secretion system; Biology; Vacuole; Flow cytometry; Bacteria; Virulence; Cytoplasm; Salmonella; Molecular biology; Escherichia coli; Biochemistry; Gene","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008589636,0.0007452857,0.0006279597,0.0004045062,0.0003236907,0.0006364977,0.0007182953,0.0005948481,0.001227501],"category_scores_gemma":[0.0004855194,0.0004818998,0.001063627,0.0003682367,0.0005930247,0.0003883562,0.0004211676,0.001288235,0.001552252],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007026367,"about_ca_system_score_gemma":0.0008377754,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005670594,"about_ca_topic_score_gemma":0.0004825383,"domain_scores_codex":[0.9993089,0.0001445422,0.0001079975,0.000142386,0.0002192726,0.00007677164],"domain_scores_gemma":[0.9996201,0.00006233956,0.0001209254,0.00006557049,0.00006821367,0.00006281418],"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":[0.00009337387,0.00004805568,0.0001002631,0.00007532642,0.00000480442,0.00003904597,0.00003940309,0.0004613435,0.9968382,0.0004179833,0.00005920952,0.001822949],"study_design_scores_gemma":[0.00002066486,0.000240713,0.0001977528,0.000009714943,0.00001093537,0.00007902589,0.0000274527,0.001818042,0.9935247,0.00005426353,0.004002705,0.0000141799],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"protocol","genre_scores_codex":[0.6813532,0.001303308,0.3052417,0.0009715226,0.000320075,0.002038073,0.003216132,0.001662312,0.003893771],"genre_scores_gemma":[0.7071192,0.001195799,0.2735037,0.0002030556,0.00005996036,0.001277253,0.00659507,0.0003580059,0.009687995],"genre_candidate":"protocol","genre_consensus":null,"teacher_disagreement_score":0.001227501,"threshold_uncertainty_score":0.005097985,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04580683177604532,"score_gpt":0.3345449190814376,"score_spread":0.2887380873053923,"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."}}