{"id":"W2763540102","doi":"10.1038/nbt.3960","title":"Towards standards for human fecal sample processing in metagenomic studies","year":2017,"lang":"en","type":"article","venue":"Nature Biotechnology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":904,"is_retracted":false,"has_abstract":false,"ca_institutions":"Western University; Canada's Michael Smith Genome Sciences Centre; University of British Columbia; University of Guelph","funders":"Agence Nationale de la Recherche","keywords":"Metagenomics; Microbiome; Comparability; DNA extraction; Biology; Human microbiome; Feces; Transferability; Computational biology; Computer science; Bioinformatics; Microbiology; Genetics; Polymerase chain reaction; Mathematics; Gene; Machine learning","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":["metaresearch"],"consensus_categories":[],"category_scores_codex":[0.0952176,0.002346717,0.002642345,0.006132652,0.003227676,0.008486873,0.005589986,0.007599613,0.0025631],"category_scores_gemma":[0.1111963,0.002250527,0.001901688,0.00379012,0.006623724,0.004256345,0.007613417,0.008755786,0.004573506],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001948311,"about_ca_system_score_gemma":0.007939834,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00204305,"about_ca_topic_score_gemma":0.004226369,"domain_scores_codex":[0.9194965,0.03686205,0.008478548,0.006356083,0.02644133,0.002365603],"domain_scores_gemma":[0.9089363,0.02313449,0.006645608,0.02596281,0.03362576,0.001695078],"domain_codex":null,"domain_gemma":"methods","domain_candidate":"methods","domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0007910882,0.0007985046,0.01648197,0.002576428,0.0003240201,0.0003477076,0.00185708,0.002847718,0.8284808,0.02154557,0.006863066,0.117086],"study_design_scores_gemma":[0.0001772711,0.001465678,0.02604095,0.002538321,0.0006111939,0.001038024,0.001785954,0.01200139,0.8339442,0.03173384,0.08841509,0.0002480847],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.0327,0.003271501,0.9500663,0.001975141,0.000991545,0.002034715,0.001770029,0.002258961,0.004931867],"genre_scores_gemma":[0.06021344,0.001998208,0.9245423,0.001730104,0.0003546462,0.003200924,0.00496015,0.0008530723,0.002147068],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.9047824,"threshold_uncertainty_score":0.5035648,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02758127924564581,"score_gpt":0.4048714250168709,"score_spread":0.3772901457712251,"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."}}