{"id":"W4378651302","doi":"10.3390/plants12112139","title":"Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests","year":2023,"lang":"en","type":"article","venue":"Plants","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Food Inspection Agency","funders":"FOD Volksgezondheid, Veiligheid van de Voedselketen en Leefmilieu; Javna Agencija za Raziskovalno Dejavnost RS","keywords":"Biology; RNA; Virus; Plant virus; Computational biology; RNA-Seq; DNA sequencing; Plant species; Virology; Gene; Genetics; Botany; Transcriptome; Gene expression","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.03660174,0.001802924,0.002653243,0.00498682,0.001447633,0.006768911,0.003974684,0.004103038,0.0008072747],"category_scores_gemma":[0.06394105,0.001118888,0.001983959,0.003902443,0.005261264,0.008427254,0.004179842,0.006777178,0.0008462612],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001622697,"about_ca_system_score_gemma":0.002169495,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003163638,"about_ca_topic_score_gemma":0.005263246,"domain_scores_codex":[0.982582,0.007146717,0.0009886388,0.006247964,0.002501084,0.0005335527],"domain_scores_gemma":[0.9209331,0.05305521,0.003797181,0.008948609,0.01006447,0.003201475],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001184986,0.0005039275,0.1711113,0.01024456,0.002617029,0.002338758,0.01564824,0.0226214,0.1895717,0.0166472,0.01810948,0.5494014],"study_design_scores_gemma":[0.0002279395,0.001506319,0.1646536,0.005469332,0.001446509,0.007225884,0.01765404,0.175213,0.1177687,0.3325884,0.1751659,0.001080425],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.3464676,0.0914136,0.5111367,0.03634175,0.002450716,0.000427336,0.004415245,0.002352874,0.004994108],"genre_scores_gemma":[0.4293388,0.02264071,0.5265855,0.01179795,0.002098078,0.0002609024,0.004807554,0.001256397,0.00121419],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.03660174,"threshold_uncertainty_score":0.1935708,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1807535767501763,"score_gpt":0.3144540838734149,"score_spread":0.1337005071232387,"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."}}