{"id":"W2127335219","doi":"10.1093/jxb/erv269","title":"Effects of<i>PHENYLALANINE AMMONIA LYASE</i>(<i>PAL</i>) knockdown on cell wall composition, biomass digestibility, and biotic and abiotic stress responses in<i>Brachypodium</i>","year":2015,"lang":"en","type":"article","venue":"Journal of Experimental Botany","topic":"Plant Gene Expression Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":220,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Biological and Environmental Research; Biotechnology and Biological Sciences Research Council; Great Lakes Bioenergy Research Center; Agricultural Research Service; Office of Science; U.S. Department of Agriculture; U.S. Department of Energy","keywords":"Brachypodium distachyon; Brachypodium; Phenylpropanoid; Phenylalanine ammonia-lyase; Biology; Lignin; Cell wall; Arabidopsis; Monolignol; Expansin; Botany; Phyllosphere; Cinnamyl-alcohol dehydrogenase; Secondary cell wall; Abiotic stress; Biochemistry; Mutant; Gene; Phenylalanine; Gene expression; Biosynthesis; Genetics","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0002946344,0.0002173918,0.0003761463,0.0001518676,0.00004088494,0.00003357251,0.0001647665,0.0001268303,0.000002758375],"category_scores_gemma":[0.00008801392,0.0001817533,0.00008774346,0.0001177876,0.0001460199,0.00001676424,0.0001390256,0.0001269313,0.000001253299],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000446112,"about_ca_system_score_gemma":0.00006498133,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000390374,"about_ca_topic_score_gemma":0.0000135607,"domain_scores_codex":[0.9985293,0.0002388656,0.0004832959,0.0002786255,0.0002745885,0.0001952924],"domain_scores_gemma":[0.9990056,0.0001075641,0.0003323439,0.000201818,0.00009378774,0.0002588889],"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":[0.001295319,0.0006797715,0.01734155,0.00003224931,0.00005447432,0.00008022326,0.0002375133,0.000006370427,0.9795005,0.000002077054,0.0007160734,0.00005393097],"study_design_scores_gemma":[0.002594568,0.001615642,0.01088571,0.0001499378,0.00005369285,0.0001415286,0.0002014726,0.00004978009,0.9838955,0.00001267091,0.0002189971,0.0001805476],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9885494,0.01095097,0.00002331373,0.0001121658,0.000109119,0.000142902,0.00002788575,0.000003824587,0.00008046343],"genre_scores_gemma":[0.9985444,0.0003060107,0.0008446074,0.0001457364,0.00006484141,0.000001883762,0.0000104538,0.00001723869,0.00006484063],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01064496,"threshold_uncertainty_score":0.7411685,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007909552169533412,"score_gpt":0.2469542637396032,"score_spread":0.2390447115700698,"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."}}