{"id":"W2087458340","doi":"10.1016/s0042-6822(03)00405-7","title":"Deletion of stem-loop 3 is compensated by second-site mutations within the Gag protein of human immunodeficiency virus type 1","year":2003,"lang":"en","type":"article","venue":"Virology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":16,"is_retracted":false,"has_abstract":false,"ca_institutions":"McGill University; Jewish General Hospital","funders":"Canadian Institutes of Health Research; Health Research Foundation","keywords":"RNA; Biology; Group-specific antigen; Mutation; Context (archaeology); Point mutation; Virology; Genetics; Virus; Molecular biology; Nucleic acid secondary structure; Stem-loop; Cell biology; 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":[0.0003228309,0.0001072877,0.0001692484,0.00003314676,0.00009477214,0.000004496228,0.0001586661,0.0001635335,0.0002505905],"category_scores_gemma":[0.00003174962,0.00008454864,0.00005492228,0.0001058714,0.0001600749,0.00000268744,0.00002903276,0.000072545,0.00001404735],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000004478175,"about_ca_system_score_gemma":0.00004498105,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006194058,"about_ca_topic_score_gemma":0.00003821291,"domain_scores_codex":[0.9990025,0.000283415,0.000296909,0.0001964717,0.00008226273,0.0001384159],"domain_scores_gemma":[0.9992965,0.00001534083,0.00023894,0.0003294111,0.00009966108,0.00002009715],"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":[0.00004829597,0.00006491478,0.00007656159,0.00001309322,0.00003344236,4.421983e-7,0.0001005151,0.00001205517,0.997061,0.002308876,0.0001303237,0.0001505262],"study_design_scores_gemma":[0.0002575982,0.0006670774,0.0001808047,0.000005872674,0.00001769461,0.000009322414,0.00006684331,0.00001527482,0.9957321,0.0005603802,0.00240108,0.0000859443],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9971792,0.0008982418,0.0006216452,0.0000521299,0.00006076276,0.0003041462,0.0000459631,0.00000532694,0.0008326469],"genre_scores_gemma":[0.9982141,0.00001322912,0.0002067369,0.0001548819,0.00000704723,0.00002767106,0.00005349903,0.00001375935,0.0013091],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002270757,"threshold_uncertainty_score":0.3447794,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01303056909131428,"score_gpt":0.240067012908029,"score_spread":0.2270364438167147,"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."}}