{"id":"W2031573548","doi":"10.1371/journal.pone.0019838","title":"The Sensitivity of Massively Parallel Sequencing for Detecting Candidate Infectious Agents Associated with Human Tissue","year":2011,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":61,"is_retracted":false,"has_abstract":true,"ca_institutions":"Child and Family Research Institute; University of British Columbia; BC Cancer Agency","funders":"BC Cancer Agency","keywords":"Massive parallel sequencing; Transcriptome; Biology; Deep sequencing; Computational biology; Massively parallel; RNA; RNA-Seq; DNA sequencing; Sequence analysis; Illumina dye sequencing; RNA extraction; Genetics; Gene; Genome; Computer science; Gene expression","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":[0.000202234,0.00007576605,0.0001117551,0.00001115038,0.0003450439,0.00001657234,0.00005761724,0.00003279963,0.0001190418],"category_scores_gemma":[0.00009284952,0.00005612921,0.00002432188,0.00006826136,0.00008408652,0.0001089137,0.0000502209,0.00008531164,0.00001799105],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001566903,"about_ca_system_score_gemma":0.000006890552,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003392689,"about_ca_topic_score_gemma":0.01302329,"domain_scores_codex":[0.9994305,0.00005454199,0.0001239209,0.0001282714,0.00008457369,0.000178158],"domain_scores_gemma":[0.9995814,0.00008659492,0.0001605474,0.0001128838,0.00002509273,0.00003346402],"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":[0.00001779948,0.0001604537,0.007768671,0.00000632877,0.0001049095,0.000003702176,0.0006289542,0.00001630295,0.990868,0.000005409417,0.0000195316,0.0003999102],"study_design_scores_gemma":[0.0004421299,0.0003485453,0.2773339,0.000120294,0.0001488121,0.000007312758,0.0001599411,0.0004719602,0.7206374,0.0001009943,0.00005657969,0.0001722095],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977995,0.000001823752,0.0004628318,0.00002014536,0.00002101486,0.0002714662,0.00001752121,0.00002526401,0.001380498],"genre_scores_gemma":[0.9986248,0.000003017685,0.0007282138,0.00002860478,0.00001176523,0.00002215647,0.000005591789,0.00001206674,0.0005637835],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2702307,"threshold_uncertainty_score":0.72673,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05667522239137706,"score_gpt":0.2421474813363371,"score_spread":0.1854722589449601,"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."}}