{"meta":{"page":1,"per_page":50,"max_per_page":100,"total":25,"total_is_capped":false,"direct_labels_cover":0,"predictions_cover":25,"direct_label_status":"direct model label, unvalidated","prediction_status":"machine_predicted_unvalidated (Codex and Gemma teacher distillation)","score_status":"score_only:v0-immature-baseline (scores rank; they never assert a category)","snapshot":{"source":"OpenAlex, pinned release, all 482 partitions","release":"2026-06-24","frame_built":"2026-07-12","author_layer_release":"2026-06-26"},"query_hash":"e42e2cedb57c","filters":{"venue":"Applied Microbiology"}},"results":[{"id":"W3163798380","doi":"10.3390/applmicrobiol1010007","title":"Challenges Using Droplet Digital PCR for Environmental Samples","year":2021,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Environmental DNA in Biodiversity Studies","field":"Environmental Science","cited_by":71,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Ottawa; University of British Columbia, Okanagan Campus; University of British Columbia; Agriculture and Agri-Food Canada","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Digital polymerase chain reaction; Environmental DNA; Computational biology; Protocol (science); Soil water; Biology; Polymerase chain reaction; Computer science; Environmental science; Biological system; Ecology; Genetics; Pathology; Medicine","authors":[{"name":"Vasilis Kokkoris","is_ca":true},{"name":"Eric Vukicevich","is_ca":true},{"name":"Andrew Richards","is_ca":true},{"name":"Corrina Thomsen","is_ca":true},{"name":"Miranda M. Hart","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.0360644324971813,"gpt":0.2132145546208915,"spread":0.1771501221237102,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.04299544,0.001502092,0.002004872,0.002995361,0.001908202,0.006506306,0.004905187,0.004210527,0.005876086],"category_scores_gemma":[0.07174706,0.001658332,0.001512899,0.002036482,0.005266302,0.003255608,0.004779165,0.004129187,0.007026488],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001953793,"about_ca_system_score_gemma":0.002778677,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002338157,"about_ca_topic_score_gemma":0.004257536,"domain_scores_codex":[0.9235604,0.03321274,0.005146818,0.01002635,0.02674858,0.001305072],"domain_scores_gemma":[0.9183728,0.05011657,0.004717087,0.008309333,0.01749802,0.0009861297],"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":[0.0007822151,0.0004463295,0.02302495,0.01087234,0.0004226776,0.002184557,0.005499455,0.007396487,0.4876636,0.02475177,0.03549041,0.4014653],"study_design_scores_gemma":[0.00007980194,0.00101195,0.009789968,0.002450349,0.0003189847,0.005697317,0.003808483,0.02707924,0.461477,0.03559611,0.4523275,0.0003632893],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02551692,0.01707292,0.9213989,0.01212095,0.005272191,0.002975002,0.002005544,0.003309951,0.01032756],"genre_scores_gemma":[0.07137073,0.006689605,0.9000909,0.0082425,0.001148317,0.003176622,0.001863716,0.001065076,0.006352492],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.04299544,"threshold_uncertainty_score":0.2273843,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3187498411","doi":"10.3390/applmicrobiol1020023","title":"Overview of Approaches to Improve Rhizoremediation of Petroleum Hydrocarbon-Contaminated Soils","year":2021,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":63,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Montréal; Espace pour la vie","funders":"Natural Sciences and Engineering Research Council of Canada; King Saud University; Genome Canada","keywords":"Environmental remediation; Rhizobacteria; Environmental science; Microbial inoculant; Rhizosphere; Phytoremediation; Soil contamination; Biochemical engineering; Contamination; Soil water; Biology; Ecology; Engineering; Soil science; Bacteria","authors":[{"name":"Fahad Alotaibi","is_ca":true},{"name":"Mohamed Hijri","is_ca":true},{"name":"Marc St‐Arnaud","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.03563853681596069,"gpt":0.2145697683771118,"spread":0.1789312315611511,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004660129,0.001114389,0.001180844,0.002475313,0.0003606533,0.001002544,0.0006399323,0.0009947636,0.003305594],"category_scores_gemma":[0.000373783,0.0005160607,0.0013121,0.001779768,0.0002208204,0.001260509,0.0005179314,0.0009790615,0.001423498],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005012426,"about_ca_system_score_gemma":0.001101249,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001271394,"about_ca_topic_score_gemma":0.001758614,"domain_scores_codex":[0.999698,0.00003939396,0.00005059472,0.0000623011,0.0001082539,0.0000414348],"domain_scores_gemma":[0.9998209,0.00005848199,0.00004190247,0.000007690799,0.0000542039,0.00001676179],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0002124787,0.0003200205,0.0005816637,0.07598361,0.0003732825,0.0004772899,0.0002248653,0.002321563,0.1075677,0.005853366,0.009932892,0.7961513],"study_design_scores_gemma":[0.00004274974,0.0008410048,0.002964618,0.004643932,0.000653285,0.001302619,0.0001507031,0.000840917,0.03325583,0.002347905,0.9528617,0.00009482101],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.004314797,0.9833885,0.00481332,0.0004515128,0.0002425868,0.00009341378,0.0003475476,0.0001124576,0.006235837],"genre_scores_gemma":[0.01031375,0.9810303,0.005678893,0.0003163535,0.0001079607,0.00008786529,0.0003899396,0.00001579292,0.002059122],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.003305594,"threshold_uncertainty_score":0.01105827,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4393161012","doi":"10.3390/applmicrobiol4020041","title":"The Influence of Technological Shifts in the Food Chain on the Emergence of Foodborne Pathogens: An Overview","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Food Safety and Hygiene","field":"Agricultural and Biological Sciences","cited_by":20,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Manitoba","funders":"","keywords":"Food chain; Foodborne pathogen; Food science; Biotechnology; Biology; Listeria monocytogenes; Ecology; Bacteria; Genetics","authors":[{"name":"Saja Hamaideh","is_ca":false},{"name":"Amin N. Olaimat","is_ca":false},{"name":"Murad Al‐Holy","is_ca":false},{"name":"Ahmad Ababneh","is_ca":false},{"name":"Hafiz Muhammad Shahbaz","is_ca":false},{"name":"Mahmoud Abughoush","is_ca":false},{"name":"Anas A. Al‐Nabulsi","is_ca":false},{"name":"Tareq M. Osaili","is_ca":false},{"name":"Mutamed Ayyash","is_ca":false},{"name":"Richard A. Holley","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.03407108938620732,"gpt":0.2379610951721277,"spread":0.2038900057859204,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005819965,0.0007387559,0.0007948436,0.002232694,0.0003236944,0.001360774,0.0004145607,0.0008802367,0.001783435],"category_scores_gemma":[0.000811772,0.0002673449,0.0007634869,0.001800534,0.0003966533,0.001472162,0.0007105176,0.0009097041,0.0004230594],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007366913,"about_ca_system_score_gemma":0.001473786,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002084622,"about_ca_topic_score_gemma":0.00277461,"domain_scores_codex":[0.9996704,0.00007282945,0.00004441648,0.00006605672,0.00009594298,0.00005039646],"domain_scores_gemma":[0.999328,0.0003649294,0.00012127,0.00001341,0.0001414563,0.0000310419],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001821312,0.0001397271,0.005133125,0.05868367,0.0004339864,0.001093227,0.001024312,0.001955001,0.01242081,0.007866018,0.01450084,0.8965672],"study_design_scores_gemma":[0.000008618365,0.0007160203,0.01681988,0.01485387,0.0006579256,0.002855159,0.00119474,0.000609308,0.003789106,0.003989453,0.9544153,0.00009060572],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.003612322,0.9922455,0.0006481888,0.0006396012,0.0002692651,0.00001685052,0.00005619338,0.00001243877,0.002499774],"genre_scores_gemma":[0.00603987,0.9925151,0.00051228,0.0002287606,0.0001602937,0.000009607073,0.00003999822,0.000002081146,0.0004920125],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.002232694,"threshold_uncertainty_score":0.005966187,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4386741705","doi":"10.3390/applmicrobiol3030076","title":"Bacillus velezensis and Paenibacillus peoriae Strains Effective as Biocontrol Agents against Xanthomonas Bacterial Spot","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Plant-Microbe Interactions and Immunity","field":"Agricultural and Biological Sciences","cited_by":15,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Institut National de la Recherche Scientifique","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Xanthomonas; Biology; Biological pest control; Microbiology; Paenibacillus; Pepper; Bacteria; Leaf spot; Botany; Horticulture; 16S ribosomal RNA","authors":[{"name":"Snizhana Olishevska","is_ca":true},{"name":"Arvin Nickzad","is_ca":true},{"name":"Concetta Restieri","is_ca":true},{"name":"Fadi Dagher","is_ca":true},{"name":"Yan Luo","is_ca":false},{"name":"Jie Zheng","is_ca":false},{"name":"Éric Déziel","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01119193723864959,"gpt":0.215488533851505,"spread":0.2042965966128554,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001912339,0.0005113776,0.0003439836,0.0004141676,0.0001615977,0.0003432642,0.0001935214,0.0002442724,0.0007383378],"category_scores_gemma":[0.0002789026,0.0001217644,0.0002241653,0.0002812931,0.000158596,0.0001856537,0.000378304,0.0003614715,0.0001626063],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009131418,"about_ca_system_score_gemma":0.0001957208,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005231605,"about_ca_topic_score_gemma":0.000922199,"domain_scores_codex":[0.9997205,0.00005168429,0.00003415097,0.0000502137,0.00009550704,0.00004794789],"domain_scores_gemma":[0.9998868,0.00002260113,0.00003148153,0.00001410811,0.00002327325,0.00002183673],"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":[0.00006955674,0.00007733662,0.0003622024,0.00004360024,0.000005572645,0.00004690059,0.00001602768,0.00003634664,0.9976048,0.00001829956,0.00001655232,0.001702672],"study_design_scores_gemma":[0.00002530558,0.001877651,0.01632361,0.00002488742,0.00004890522,0.0006024076,0.0001147158,0.0003914726,0.9786406,0.00003039712,0.001911434,0.000008522363],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9965862,0.001076553,0.000896505,0.00007333991,0.00001943008,0.00005298192,0.0002124726,0.00003167514,0.001050724],"genre_scores_gemma":[0.9922942,0.0009164835,0.002943698,0.00004318897,0.00001546088,0.00006662785,0.001120914,0.00001253437,0.002586847],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0007383378,"threshold_uncertainty_score":0.002470016,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4321789964","doi":"10.3390/applmicrobiol3010019","title":"Seasons Influence the Native Gut Microbiome of Lake Trout Salvelinus namaycush","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Aquaculture disease management and microbiota","field":"Immunology and Microbiology","cited_by":11,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Toronto; Université du Québec à Montréal","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Trout; Microbiome; Biology; Abiotic component; Salvelinus; Ecology; Seasonality; Zoology; Biotic component; Fishery; Fish <Actinopterygii>","authors":[{"name":"Pascale Savard","is_ca":true},{"name":"Timothy Fernandes","is_ca":true},{"name":"Amy Dao","is_ca":true},{"name":"Bailey C. McMeans","is_ca":true},{"name":"Cassandre Sara Lazar","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007292749457899606,"gpt":0.2237390955361776,"spread":0.216446346078278,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001668684,0.0001332542,0.0001664627,0.0002891457,0.0003492671,0.000336543,0.00008054286,0.0001494959,0.0007526754],"category_scores_gemma":[0.0002121528,0.000109827,0.0001789353,0.000218823,0.0002943321,0.000251845,0.0003914258,0.0001476683,0.00008222071],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004335197,"about_ca_system_score_gemma":0.0004280693,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01357236,"about_ca_topic_score_gemma":0.04587785,"domain_scores_codex":[0.9999074,0.00001648828,0.000006049906,0.00002970952,0.00001704133,0.00002329753],"domain_scores_gemma":[0.9998692,0.00001278811,0.00005368179,0.000004875294,0.00002108469,0.0000383397],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001027258,0.00005942813,0.6381682,0.00006464509,0.00009044992,0.0002032704,0.00113838,0.0002582786,0.353412,0.00006426191,0.0001850401,0.005328834],"study_design_scores_gemma":[0.000002423123,0.00006840601,0.9982602,0.000002279364,0.00001177081,0.00002754656,0.0003829489,0.0001834119,0.0009356747,0.0000162901,0.000105959,0.000003127383],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9997526,0.00003138632,0.00003627672,0.000009263483,0.000001143006,0.000001233245,0.00006436973,0.000001732961,0.0001020367],"genre_scores_gemma":[0.9994748,0.00002942968,0.00008802988,0.00002318634,0.000002201823,0.000004216783,0.0001054034,0.000002704156,0.0002701478],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01357236,"threshold_uncertainty_score":0.02698672,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3162541390","doi":"10.3390/applmicrobiol1010006","title":"Pseudomonas entomophila 23S Produces a Novel Antagonistic Compound against Clavibacter michiganensis subsp. michiganensis, a Pathogen of Tomato Bacterial Canker","year":2021,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":11,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université du Québec à Montréal; McGill University","funders":"Ministère de l'Agriculture, des Pêcheries et de l'Alimentation","keywords":"Clavibacter michiganensis; Canker; Chemistry; Biology; Chromatography; Microbiology; Pathogen; Food science; Botany","authors":[{"name":"Yoko Takishita","is_ca":true},{"name":"Alfred Souleimanov","is_ca":true},{"name":"Carine B. Bourguet","is_ca":false},{"name":"Leanne Ohlund","is_ca":true},{"name":"Alexandre A. Arnold","is_ca":true},{"name":"Lekha Sleno","is_ca":true},{"name":"Donald L. Smith","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01243964454883893,"gpt":0.1907829308960327,"spread":0.1783432863471938,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009881585,0.0005403839,0.0002945609,0.0002240647,0.0001470028,0.0002574813,0.0001510617,0.0002231373,0.0005681244],"category_scores_gemma":[0.0001029713,0.00008760085,0.0002212338,0.0001899141,0.0001099185,0.0001399795,0.0002256111,0.0003039916,0.0002293579],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001376903,"about_ca_system_score_gemma":0.0001954968,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007495822,"about_ca_topic_score_gemma":0.001294217,"domain_scores_codex":[0.9999133,0.00001195369,0.000007672045,0.00001924757,0.00003037448,0.00001737734],"domain_scores_gemma":[0.9999382,0.000008494262,0.0000173528,0.000006745981,0.00001010118,0.00001891834],"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":[0.00001558916,0.00001139409,0.0001639756,0.00001729233,0.000002262185,0.00006626003,0.000005061494,0.00001457797,0.9989675,0.000006978915,0.000009879322,0.0007192784],"study_design_scores_gemma":[0.0000179747,0.0006882358,0.01580878,0.00001128434,0.00002692872,0.0007395542,0.0000672746,0.000433992,0.9792104,0.00002899706,0.002957437,0.000009083595],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9956813,0.001187598,0.001200523,0.00009727293,0.00001557669,0.00004429066,0.0004554252,0.00005146418,0.001266627],"genre_scores_gemma":[0.9940137,0.0007294763,0.002333988,0.00005769194,0.0000151424,0.00003453987,0.0009991014,0.00001206443,0.001804355],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0007495822,"threshold_uncertainty_score":0.001900554,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4390025936","doi":"10.3390/applmicrobiol4010001","title":"Advances in Pretreatment Methods for Free Nucleic Acid Removal in Wastewater Samples: Enhancing Accuracy in Pathogenic Detection and Future Directions","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Biosensors and Analytical Detection","field":"Engineering","cited_by":11,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Calgary","funders":"","keywords":"Nucleic acid detection; Wastewater; Safeguarding; Human health; Nucleic acid; Biochemical engineering; Computer science; Complex matrix; Biotechnology; Environmental science; Chemistry; Biology; Engineering; Environmental engineering; Chromatography; Medicine; Biochemistry; Environmental health","authors":[{"name":"Kien A. Vu","is_ca":false},{"name":"Thu A. Nguyen","is_ca":true},{"name":"Thao P. Nguyen","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008756716515448397,"gpt":0.2576678762179623,"spread":0.2489111597025139,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.003581948,0.001239177,0.001092596,0.001509229,0.000360463,0.001478902,0.0009598265,0.001584964,0.001841503],"category_scores_gemma":[0.002645397,0.0005754697,0.001140473,0.001315735,0.0009414196,0.002669452,0.0007840116,0.002034485,0.000960713],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008446432,"about_ca_system_score_gemma":0.00129198,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001213685,"about_ca_topic_score_gemma":0.001666633,"domain_scores_codex":[0.9984457,0.0003507921,0.0001345053,0.0003324171,0.0006244564,0.0001122353],"domain_scores_gemma":[0.9979492,0.001001977,0.0002687,0.0001108751,0.0006174633,0.00005181964],"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":[0.0001890525,0.0002591534,0.002102325,0.0258189,0.0001987072,0.0004681081,0.0004587906,0.00277166,0.2381045,0.01088711,0.005956036,0.7127855],"study_design_scores_gemma":[0.00003851297,0.001382991,0.006469687,0.003639403,0.0005575854,0.002946475,0.0007389435,0.01032694,0.3623999,0.01348207,0.5977466,0.0002708492],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"review","genre_gemma":"methods","genre_scores_codex":[0.01365414,0.9393361,0.03929061,0.003042765,0.000624808,0.00007939688,0.00008777277,0.0001219765,0.003762563],"genre_scores_gemma":[0.05170857,0.8991398,0.04422051,0.00123774,0.0005589464,0.0001097927,0.000185828,0.00004110672,0.002797808],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.003581948,"threshold_uncertainty_score":0.01894337,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4315785541","doi":"10.3390/applmicrobiol3010004","title":"Bacterial, Archaeal, and Eukaryote Diversity in Planktonic and Sessile Communities Inside an Abandoned and Flooded Iron Mine (Quebec, Canada)","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":7,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"University of Ottawa; Université du Québec à Montréal","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Groupe de recherche interuniversitaire en limnologie","keywords":"Archaea; Plankton; Ecology; Abiotic component; Biology; Microbial population biology; Community structure; Bacteria","authors":[{"name":"Elise Lhoste","is_ca":true},{"name":"Francis Comte","is_ca":true},{"name":"Kevin Brown","is_ca":false},{"name":"Alain Delisle","is_ca":false},{"name":"David Jaclin","is_ca":true},{"name":"Violaine Ponsin","is_ca":true},{"name":"Maikel Rosabal","is_ca":true},{"name":"Cassandre Sara Lazar","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01398326910130974,"gpt":0.1983505379395563,"spread":0.1843672688382466,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001374137,0.0002274767,0.0001798175,0.000761979,0.0009950716,0.0006290067,0.0002315599,0.0001864127,0.0009035811],"category_scores_gemma":[0.0001905092,0.0001118653,0.0001318697,0.001081149,0.0004048389,0.0001772405,0.0003117601,0.0001540643,0.0001290875],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.003303898,"about_ca_system_score_gemma":0.002938388,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.898858,"about_ca_topic_score_gemma":0.9585531,"domain_scores_codex":[0.9998428,0.000006978478,0.000005407887,0.00004866982,0.00004733825,0.00004891505],"domain_scores_gemma":[0.9997906,0.00001221618,0.00002945215,0.000004578725,0.0001139503,0.00004918229],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0002272946,0.0000563441,0.8425437,0.0001301081,0.00004285068,0.0003050896,0.003610702,0.0003442638,0.1293077,0.0001400503,0.0004416192,0.02285034],"study_design_scores_gemma":[0.000001556772,0.00002544491,0.9972047,0.00000785975,0.000006212862,0.00003416566,0.0008247484,0.0001766643,0.001100784,0.000006817119,0.0006066829,0.000004342847],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985359,0.0001705359,0.00008665819,0.00001958342,0.000001274067,0.00000740765,0.0005169751,0.000002440367,0.000659231],"genre_scores_gemma":[0.9966556,0.0002035181,0.0004655826,0.00002607539,0.000001441899,0.000008043441,0.0007001338,0.000001861354,0.001937714],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.101142,"threshold_uncertainty_score":0.2034754,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4400678431","doi":"10.3390/applmicrobiol4030073","title":"A Comparison of the Microbial Populations in a Culture-Dependent and a Culture-Independent Analysis of Industrial Water Samples","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":7,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"LuminUltra Technologies (Canada)","funders":"","keywords":"Microbial population biology; Biology; Microbiological culture; Bacteria; Biotechnology; Microbiology; Genetics","authors":[{"name":"Douglas B. McIlwaine","is_ca":false},{"name":"Mackenzie Moore","is_ca":false},{"name":"Alexsandra Corrigan","is_ca":false},{"name":"Benjamin Niemaseck","is_ca":false},{"name":"Danika Nicoletti","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.04535754267396006,"gpt":0.2931908473394653,"spread":0.2478333046655053,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008917995,0.0005082263,0.0004694544,0.001265152,0.0005376872,0.0007485618,0.0003659523,0.0005232991,0.0007899936],"category_scores_gemma":[0.001633866,0.0002644836,0.0005477183,0.001292262,0.0005726069,0.000671504,0.0006159102,0.0006317343,0.0004537518],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002034601,"about_ca_system_score_gemma":0.0002950213,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001702964,"about_ca_topic_score_gemma":0.003283292,"domain_scores_codex":[0.9983973,0.000222315,0.0001447921,0.000413716,0.0006941467,0.0001276829],"domain_scores_gemma":[0.9990228,0.0002695901,0.0001623305,0.00008464779,0.0003795127,0.00008104247],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001595195,0.0001072052,0.0100564,0.0001060349,0.00003072569,0.00005008253,0.0002524939,0.00007036455,0.9833704,0.00004835637,0.00004376866,0.005704586],"study_design_scores_gemma":[0.00001402978,0.001004646,0.2406889,0.00005150125,0.0001772144,0.0004285454,0.0009492756,0.00227774,0.7509486,0.0001819627,0.003219438,0.00005800977],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9752728,0.0009315285,0.018732,0.00008284059,0.00007865833,0.0002010587,0.00172498,0.0001355461,0.002840634],"genre_scores_gemma":[0.9391081,0.001579504,0.05063149,0.0002093227,0.00005733828,0.0005487093,0.00437595,0.00008636266,0.003403238],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001702964,"threshold_uncertainty_score":0.004716396,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4308970080","doi":"10.3390/applmicrobiol2040071","title":"Globally Disseminated Multidrug Resistance Plasmids Revealed by Complete Assembly of Multidrug Resistant Escherichia coli and Klebsiella pneumoniae Genomes from Diarrheal Disease in Botswana","year":2022,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Regina","funders":"Natural Sciences and Engineering Research Council of Canada; Alliance de recherche numérique du Canada; Saskatchewan Health Research Foundation; University of Regina; Simon Fraser University; National Science Foundation","keywords":"Plasmid; Biology; Antibiotic resistance; Klebsiella pneumoniae; Horizontal gene transfer; Escherichia coli; Multiple drug resistance; Microbiology; Gene; Genome; Genetics; Resistome; Drug resistance; Virology; Antibiotics; Mobile genetic elements","authors":[{"name":"Teddie O. Rahube","is_ca":true},{"name":"Andrew D. S. Cameron","is_ca":true},{"name":"Nicole Lerminiaux","is_ca":true},{"name":"Supriya V. Bhat","is_ca":true},{"name":"Kathleen A. Alexander","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004415566563389049,"gpt":0.2072673813582045,"spread":0.2028518147948155,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001771619,0.0002967528,0.000216898,0.000656336,0.0003722038,0.0005462179,0.0001781554,0.0003142651,0.0003980009],"category_scores_gemma":[0.0005159154,0.0003068899,0.0002728647,0.0007528181,0.0002350417,0.0001536601,0.0004572501,0.0002902729,0.0001551233],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005937712,"about_ca_system_score_gemma":0.0004689307,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01161556,"about_ca_topic_score_gemma":0.0287122,"domain_scores_codex":[0.999872,0.0000143609,0.00001092118,0.00005148804,0.00001858609,0.00003265384],"domain_scores_gemma":[0.9998116,0.00004217715,0.00005218843,0.0000272332,0.00004110189,0.00002573656],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003599979,0.00001884268,0.1099068,0.0001677385,0.0000563016,0.0007355071,0.001250138,0.0007735306,0.8728086,0.0001473194,0.0002229494,0.01355227],"study_design_scores_gemma":[0.00002347554,0.0002235836,0.9321632,0.0001206325,0.0001736415,0.00151437,0.00211875,0.004343842,0.05208041,0.0002870246,0.006917055,0.00003404361],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9979343,0.0002618089,0.0007862433,0.00005581282,0.000004582173,0.000008690712,0.0006457292,0.00002032219,0.0002823911],"genre_scores_gemma":[0.994895,0.0001737258,0.002764867,0.00006837754,0.000001480043,0.00001690498,0.001688639,0.00002081677,0.0003702682],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01161556,"threshold_uncertainty_score":0.02309591,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4280593527","doi":"10.3390/applmicrobiol2020025","title":"Response of Prokaryotic Communities to Freshwater Salinization","year":2022,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":5,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Université du Québec à Montréal","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Betaproteobacteria; Alphaproteobacteria; Salinity; Dominance (genetics); Actinobacteria; Mesocosm; Soil salinity; Abiotic component; Abundance (ecology); Gammaproteobacteria; Sodium; Chloride; Biology; Ecology; Relative species abundance; Estuary; Environmental chemistry; Animal science; Chemistry; Ecosystem; Bacteria","authors":[{"name":"Jean‐Christophe Gagnon","is_ca":true},{"name":"Louis Astorg","is_ca":true},{"name":"Alison M. Derry","is_ca":true},{"name":"Cassandre Sara Lazar","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.009528834536578356,"gpt":0.2075818055162143,"spread":0.198052970979636,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000214294,0.0002083679,0.0003448142,0.0001412309,0.0002230386,0.0004880774,0.0001536639,0.000337772,0.0007907682],"category_scores_gemma":[0.000431784,0.0001518859,0.000253755,0.0001514271,0.0002712604,0.0002222387,0.0005429597,0.0004899879,0.0001660469],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004518618,"about_ca_system_score_gemma":0.0003698993,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003256278,"about_ca_topic_score_gemma":0.005132777,"domain_scores_codex":[0.9997963,0.00003449339,0.00001729035,0.00005255538,0.00005628344,0.00004312731],"domain_scores_gemma":[0.9996381,0.00004605934,0.00007872541,0.00002177885,0.0001094817,0.0001058306],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0007093069,0.00006494408,0.02083404,0.00005958609,0.00002140773,0.00005788361,0.0002543668,0.0002056388,0.9751913,0.00002764443,0.00005053804,0.002523513],"study_design_scores_gemma":[0.00003557942,0.002875486,0.7298434,0.00001384101,0.00003767581,0.0001439218,0.001040129,0.002215462,0.2619403,0.0001614051,0.001648932,0.00004393791],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9992276,0.0001123924,0.0001451944,0.00002271169,0.000004225984,0.000008663015,0.0001371562,0.0000076113,0.0003344729],"genre_scores_gemma":[0.9983385,0.0001061693,0.0003327569,0.00006651488,0.000004142597,0.0000207632,0.0003214394,0.000003677965,0.0008060954],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003256278,"threshold_uncertainty_score":0.006474674,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4283370034","doi":"10.3390/applmicrobiol2030033","title":"A Pragmatic Perspective of the Initial Stages of the Contact Killing of Bacteria on Copper-Containing Surfaces","year":2022,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":5,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Polytechnique Montréal","funders":"","keywords":"Bacteria; Peptidoglycan; Microbiology; Gram-negative bacteria; Bacterial outer membrane; Lipopolysaccharide; Chemistry; Polysaccharide; Copper; Gram; Biology; Escherichia coli; Biochemistry; Genetics; Immunology; Organic chemistry; Gene","authors":[{"name":"E. Sacher","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00875653997700054,"gpt":0.2345521286214242,"spread":0.2257955886444237,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.004770093,0.0009758204,0.001135353,0.001373459,0.003680257,0.006617452,0.002094038,0.00438044,0.004537704],"category_scores_gemma":[0.002980661,0.0005310213,0.0007025606,0.0005247223,0.01483163,0.00718433,0.002727487,0.00610324,0.001260636],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00447472,"about_ca_system_score_gemma":0.003421044,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002277921,"about_ca_topic_score_gemma":0.00336278,"domain_scores_codex":[0.9972928,0.001354684,0.0001030125,0.0002411273,0.0007534723,0.0002548861],"domain_scores_gemma":[0.9983401,0.000746561,0.0001154609,0.0001437023,0.0004371466,0.000216962],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001274479,0.00006775805,0.000193565,0.0007568396,0.00001409575,0.0007549769,0.002466864,0.0008126436,0.0129074,0.963109,0.007172187,0.01161719],"study_design_scores_gemma":[0.00004956445,0.0004410332,0.0005400082,0.0005380873,0.0000307272,0.0008525706,0.00464673,0.001914143,0.008997288,0.595487,0.3864262,0.00007664747],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"commentary","genre_gemma":"empirical","genre_scores_codex":[0.0359546,0.1615741,0.1585519,0.3309127,0.0115139,0.0004181454,0.0004254446,0.0002655908,0.3003837],"genre_scores_gemma":[0.6816981,0.09111225,0.09686283,0.03142685,0.008072498,0.001071624,0.0002126163,0.0003026374,0.08924057],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.006617452,"threshold_uncertainty_score":0.03246647,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4390174451","doi":"10.3390/applmicrobiol4010003","title":"Customizing Sanitization Protocols for Food-Borne Pathogens Based on Biofilm Formation, Surfaces and Disinfectants—Their Two- and Three-Way Interactions","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Chinook Regional Hospital; Agriculture Food and Rural Development","funders":"","keywords":"Disinfectant; Biofilm; Microbiology; Food chain; Microorganism; Food microbiology; Bacteria; Contamination; Food safety; Biology; Food science; Chemistry; Ecology","authors":[{"name":"Manju Kundu","is_ca":true},{"name":"Amin Omar","is_ca":false},{"name":"Brenton Buziak","is_ca":false},{"name":"Nick Allan","is_ca":true},{"name":"Lyriam L. R. Marques","is_ca":false},{"name":"Merle S. Olson","is_ca":true},{"name":"R. J. Howard","is_ca":false},{"name":"Michael W. Harding","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01664631949212548,"gpt":0.2520321999013646,"spread":0.2353858804092391,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001108642,0.0008622417,0.0004928516,0.0004254212,0.0003539715,0.0005746169,0.0005363012,0.0005105172,0.0004644483],"category_scores_gemma":[0.001130688,0.0003690242,0.0004417584,0.0003002294,0.0003933646,0.0005257524,0.0006847558,0.0008581039,0.0002757138],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003114794,"about_ca_system_score_gemma":0.0004932375,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006480909,"about_ca_topic_score_gemma":0.001564468,"domain_scores_codex":[0.9991378,0.0001915201,0.0001306703,0.0001781313,0.0002537476,0.0001082313],"domain_scores_gemma":[0.9993512,0.000189389,0.0001729412,0.000079529,0.0001610692,0.00004585383],"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":[0.00002028918,0.00003223241,0.0001740451,0.00006492659,0.000004453426,0.000007166176,0.00003409723,0.0001273559,0.9975756,0.00004419568,0.0000212122,0.001894461],"study_design_scores_gemma":[0.000005972089,0.0003530171,0.001986682,0.00001751786,0.00001790977,0.00003300664,0.00005048727,0.00129127,0.9949583,0.00006247428,0.001206123,0.00001720868],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9451616,0.002324665,0.04973136,0.000163894,0.0001441103,0.0009094874,0.0002065888,0.0001476789,0.001210644],"genre_scores_gemma":[0.8328795,0.003335386,0.1598584,0.0001499227,0.00003701926,0.001248016,0.0006541632,0.0001002057,0.001737411],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001108642,"threshold_uncertainty_score":0.00586313,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4393180770","doi":"10.3390/applmicrobiol4020042","title":"In Silico Prophage Analysis of Halobacterium salinarum ATCC 33170","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Brock University; National Research Council Canada","funders":"National Research Council Canada","keywords":"Halobacterium salinarum; In silico; Prophage; Computational biology; Biology; Genetics; Gene; Archaea; Escherichia coli","authors":[{"name":"Danielle L. Peters","is_ca":true},{"name":"Bassel Akache","is_ca":true},{"name":"Wangxue Chen","is_ca":true},{"name":"Michael J. McCluskie","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00493439182750484,"gpt":0.225117951273367,"spread":0.2201835594458622,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003685491,0.0008396731,0.0007601858,0.001314265,0.0002695925,0.0007654772,0.0003965958,0.0005023101,0.001124484],"category_scores_gemma":[0.0007190717,0.0002396238,0.001114365,0.001299491,0.0001087602,0.0001972943,0.0003872749,0.0004336871,0.0009013265],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002154938,"about_ca_system_score_gemma":0.0004644769,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001915234,"about_ca_topic_score_gemma":0.001328078,"domain_scores_codex":[0.9996533,0.00004225191,0.00004159527,0.00007391929,0.0001326728,0.00005623473],"domain_scores_gemma":[0.9996499,0.0001461733,0.00005586304,0.00002573711,0.00008089236,0.00004137003],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0006883273,0.0001768929,0.009500507,0.0004754813,0.0000648157,0.0009195106,0.0002061047,0.00248813,0.9766778,0.0001020423,0.0001961592,0.008504099],"study_design_scores_gemma":[0.0001407638,0.002803636,0.1557224,0.0001923282,0.0006045368,0.002629688,0.001356187,0.03703266,0.7823871,0.0005670225,0.01642125,0.000142387],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9869514,0.0008282181,0.003385352,0.000096171,0.00002583401,0.0001299906,0.007194425,0.0001650119,0.001223658],"genre_scores_gemma":[0.9157934,0.001768374,0.03105081,0.0001336081,0.0000218505,0.000245092,0.04858044,0.0001958845,0.002210654],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001915234,"threshold_uncertainty_score":0.003808141,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4303579033","doi":"10.3390/applmicrobiol2040058","title":"The Growth Medium Affects the Viability of IPEC-J2 Animal Cell Line in the Presence of Probiotic Bacteria","year":2022,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Probiotics and Fermented Foods","field":"Agricultural and Biological Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada","keywords":"Viability assay; Probiotic; Lactic acid; Bacteria; Incubation; Food science; Microbiology; Flow cytometry; Biology; In vitro; Chemistry; Biochemistry; Immunology","authors":[{"name":"Marie-Josée Lemay","is_ca":true},{"name":"Yves Raymond","is_ca":true},{"name":"Claude P. Champagne","is_ca":true},{"name":"Julie Brassard","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007993450014180422,"gpt":0.1876423213569788,"spread":0.1796488713427984,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003532616,0.0005465611,0.0003782329,0.0002464922,0.0002080776,0.000495501,0.0002490458,0.0004603805,0.001398642],"category_scores_gemma":[0.0003175775,0.000135546,0.0002874144,0.0002385883,0.0002518371,0.0003579424,0.0002991984,0.0007523459,0.0004375727],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001904938,"about_ca_system_score_gemma":0.0001536261,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006007047,"about_ca_topic_score_gemma":0.0005674493,"domain_scores_codex":[0.9994997,0.0001086968,0.00007511851,0.00009103185,0.0001490767,0.00007650212],"domain_scores_gemma":[0.9995964,0.0001420417,0.00008573139,0.00004209129,0.0000862139,0.00004755761],"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":[0.0002918938,0.00007107156,0.0008837314,0.0000612629,0.000007688014,0.00005858706,0.00004033767,0.00004478484,0.9975792,0.00002824846,0.00004689397,0.0008861949],"study_design_scores_gemma":[0.00001268314,0.0008759975,0.009160274,0.00001800347,0.00002907263,0.0001996849,0.00009017164,0.0005776827,0.98749,0.00003083443,0.001504744,0.00001081286],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9902335,0.003440408,0.002718378,0.000172358,0.0000782552,0.00003446214,0.0008373298,0.00005121819,0.002433954],"genre_scores_gemma":[0.9900112,0.001482709,0.003544845,0.0001022527,0.00002823149,0.00008783751,0.002041834,0.0000340654,0.002667085],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001398642,"threshold_uncertainty_score":0.004678965,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4413056813","doi":"10.3390/applmicrobiol5030070","title":"The Gut–Brain Axis in Schizophrenia: A Systems-Level Understanding of Psychiatric Illness","year":2025,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Carleton University; Athabasca University; Toronto Metropolitan University; University of Alberta","funders":"","keywords":"Neurochemical; Schizophrenia (object-oriented programming); Gut–brain axis; Microbiome; Gut flora; Kynurenine pathway; Neuroscience; Dysbiosis; Neuroinflammation; Gut microbiome; Medicine; Kynurenine; Bioinformatics; Psychology; Biology; Psychiatry; Inflammation; Immunology","authors":[{"name":"A. A. Mardon","is_ca":true},{"name":"Jonathan Harline","is_ca":true},{"name":"Catherine Mardon","is_ca":true},{"name":"Jean-Luc Leong-Sit","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01446642315417637,"gpt":0.2555776536906787,"spread":0.2411112305365023,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000876104,0.0007349398,0.0007502629,0.0008135891,0.000626739,0.002170576,0.0004577165,0.001080957,0.002508648],"category_scores_gemma":[0.000656922,0.0001875288,0.0004888559,0.0003451472,0.002064865,0.001612814,0.002037036,0.002524859,0.0003312553],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001648723,"about_ca_system_score_gemma":0.003039203,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005006976,"about_ca_topic_score_gemma":0.008714247,"domain_scores_codex":[0.9997372,0.0001079114,0.0000216498,0.0000437408,0.00004700205,0.0000424556],"domain_scores_gemma":[0.9997627,0.00008889138,0.00004001451,0.00002116706,0.00003727722,0.00004992198],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0006850128,0.0003667449,0.02555555,0.007683243,0.0008215691,0.001968799,0.004923084,0.006272847,0.05601899,0.2774129,0.02067071,0.5976205],"study_design_scores_gemma":[0.0001066094,0.001634986,0.07408259,0.006769144,0.0008460582,0.004240935,0.005168949,0.008237544,0.008795235,0.5333859,0.3564678,0.0002641581],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.07407618,0.6661912,0.05064638,0.1605348,0.003324737,0.0001917605,0.0009112059,0.0004608108,0.04366295],"genre_scores_gemma":[0.5215382,0.4275837,0.02890509,0.01381993,0.001828347,0.0001599196,0.0003503247,0.00005062176,0.005763859],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.005006976,"threshold_uncertainty_score":0.01196241,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4293238402","doi":"10.3390/applmicrobiol2020024","title":"Advances in DNA- and RNA-Based Oncolytic Viral Therapeutics and Immunotherapies","year":2022,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Virus-based gene therapy research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University; University of Waterloo; University of Alberta","funders":"Government of Canada","keywords":"Oncolytic virus; Virology; Virus; Herpes simplex virus; Vaccinia; Immunogenicity; Immune system; Measles virus; Biology; Viral vector; Medicine; Immunology; Measles; Vaccination; Gene; Recombinant DNA","authors":[{"name":"Peter Anto Johnson","is_ca":true},{"name":"Alyssa Wu","is_ca":true},{"name":"John C. Johnson","is_ca":true},{"name":"Zachary Schauer","is_ca":false},{"name":"Terrence Wu","is_ca":false},{"name":"Francis Fernandes","is_ca":true},{"name":"Reinette Schabert","is_ca":false},{"name":"A. A. Mardon","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008364824764125726,"gpt":0.2638567946391107,"spread":0.255491969874985,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001235274,0.0005770331,0.0006910777,0.001210646,0.0002628055,0.001208108,0.0005887072,0.000925395,0.001554104],"category_scores_gemma":[0.0006707535,0.0003384255,0.0006489871,0.0008910227,0.0007318729,0.001724028,0.0007051186,0.002137367,0.0009018758],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008982127,"about_ca_system_score_gemma":0.0009914525,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006705659,"about_ca_topic_score_gemma":0.000667903,"domain_scores_codex":[0.9995208,0.00009567026,0.00004319127,0.0000933949,0.0001924377,0.00005459513],"domain_scores_gemma":[0.9995467,0.0002018831,0.00007112989,0.0000263155,0.0001182871,0.0000356262],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001985988,0.0004253832,0.0007410443,0.009892394,0.0001130439,0.000464603,0.0004225211,0.003038001,0.1817842,0.05586863,0.007359761,0.7396919],"study_design_scores_gemma":[0.0000347362,0.0009558043,0.001310817,0.0009562857,0.0001367965,0.002336423,0.0001625017,0.002448553,0.0900007,0.01279184,0.8887916,0.0000739313],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.007245806,0.9603626,0.01954944,0.001654111,0.0006080633,0.00004797059,0.0000566876,0.00007951592,0.01039581],"genre_scores_gemma":[0.03746316,0.9402808,0.01679704,0.0009372997,0.0006585024,0.0000706878,0.000111611,0.00002337345,0.003657431],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.001554104,"threshold_uncertainty_score":0.006532848,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4411976460","doi":"10.3390/applmicrobiol5030064","title":"Functional Versatility of Vibrio cholerae Outer Membrane Proteins","year":2025,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Montréal","funders":"Fonds de recherche du Québec – Nature et technologies; Fonds de Recherche du Québec - Santé; Natural Sciences and Engineering Research Council of Canada","keywords":"Vibrio cholerae; Microbiology; Bacterial outer membrane; Biology; Chemistry; Bacteria; Escherichia coli; Biochemistry; Genetics","authors":[{"name":"Annabelle Mathieu‐Denoncourt","is_ca":true},{"name":"Marylise Duperthuy","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008721269369195291,"gpt":0.2378378514812562,"spread":0.2291165821120609,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000336307,0.0003976018,0.0003371448,0.0006456209,0.0001527143,0.001016755,0.0002387224,0.0003501074,0.0006563922],"category_scores_gemma":[0.0002783039,0.0001423223,0.0003515901,0.0006016648,0.000291394,0.0005834203,0.0002978264,0.0004703119,0.0004914461],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005150241,"about_ca_system_score_gemma":0.0005581019,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008681795,"about_ca_topic_score_gemma":0.0007504076,"domain_scores_codex":[0.9997994,0.000032099,0.00002102483,0.00004549778,0.00006478329,0.00003720787],"domain_scores_gemma":[0.9999262,0.00001582807,0.00001340875,0.000003853997,0.00002921543,0.00001160435],"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":[0.0003981248,0.00004135911,0.001624308,0.009327079,0.0001353908,0.001081786,0.0006033212,0.001241515,0.7814389,0.007134287,0.004558192,0.1924157],"study_design_scores_gemma":[0.00003566732,0.0007997155,0.01621429,0.0009959545,0.0003453068,0.005214884,0.0009246235,0.0008843365,0.2321032,0.005137637,0.7372344,0.0001100307],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"review","genre_gemma":"empirical","genre_scores_codex":[0.1281643,0.8394299,0.004696948,0.001916442,0.0006275851,0.00002888354,0.001265906,0.0001549251,0.02371501],"genre_scores_gemma":[0.4788364,0.5051262,0.004762503,0.0008986886,0.0003426818,0.00004463023,0.00185224,0.00006086242,0.008075847],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.001016755,"threshold_uncertainty_score":0.003736794,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4391780586","doi":"10.3390/applmicrobiol4010026","title":"Utilizing a Metagenome Assembled Genome Approach Revealed Further Insights into Microbially Mediated Heavy-Metal Resistance in Soils from a Former Nuclear Materials Production Facility","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Radioactive element chemistry and processing","field":"Chemistry","cited_by":2,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"","keywords":"Metagenomics; Soil water; Resistance (ecology); Earth science; Production (economics); Environmental science; Materials science; Geology; Biology; Soil science; Ecology; Genetics; Gene","authors":[{"name":"Navya Kommu","is_ca":false},{"name":"Paul Stothard","is_ca":true},{"name":"Christian Chukwujindu","is_ca":false},{"name":"Ashish K. Pathak","is_ca":false},{"name":"Ashvini Chauhan","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01353273123169661,"gpt":0.2239441203800377,"spread":0.2104113891483411,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002792983,0.0006093024,0.0005537238,0.001100271,0.0004937309,0.000786771,0.0003755107,0.0005045451,0.0009061326],"category_scores_gemma":[0.0004597566,0.0002276492,0.00106251,0.001121039,0.0001314183,0.0004607082,0.0005655382,0.0006492535,0.000393084],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000356201,"about_ca_system_score_gemma":0.0009335543,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004700223,"about_ca_topic_score_gemma":0.00856279,"domain_scores_codex":[0.9997239,0.00002432402,0.00002058595,0.00009340532,0.00007625701,0.00006145683],"domain_scores_gemma":[0.9998287,0.00002545123,0.00002962296,0.00001840997,0.00006161856,0.00003607661],"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":[0.0003381741,0.000117114,0.03348197,0.0003434941,0.0001294137,0.0005633499,0.0003542947,0.001467634,0.9409424,0.0002818914,0.0003068798,0.02167328],"study_design_scores_gemma":[0.00004927885,0.001234801,0.6619102,0.0002303484,0.0008371989,0.002920118,0.003131575,0.02404821,0.2770117,0.001199568,0.02725438,0.0001726571],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.977211,0.0007286228,0.01203815,0.000152784,0.00003614884,0.00006275173,0.008396117,0.0001737288,0.00120073],"genre_scores_gemma":[0.9370208,0.0009798885,0.03259342,0.0001542689,0.00001747133,0.00008778559,0.02694843,0.0001029941,0.002095099],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004700223,"threshold_uncertainty_score":0.00934571,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4417107345","doi":"10.3390/applmicrobiol5040144","title":"Composite Genome Quality Index for Pathogenic Bacterial Genomes","year":2025,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"","keywords":"Genome; Contig; Bacterial genome size; Genomics; Cluster analysis; Reference genome; Sequence assembly; Comparative genomics; Phylogenetic tree","authors":[{"name":"Adeel Farooq","is_ca":true},{"name":"Asma Rafique","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00879455826092992,"gpt":0.2466111030663351,"spread":0.2378165448054052,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.004041521,0.001173338,0.001205197,0.006806355,0.0006060988,0.002011034,0.001103766,0.0006111815,0.001971046],"category_scores_gemma":[0.01328018,0.0003349163,0.001510746,0.005235756,0.0004931021,0.001438599,0.002160268,0.001407461,0.0010203],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001115737,"about_ca_system_score_gemma":0.0008257087,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002323605,"about_ca_topic_score_gemma":0.002616239,"domain_scores_codex":[0.9971024,0.0004372628,0.0002837041,0.0008494065,0.001129098,0.0001980722],"domain_scores_gemma":[0.9938478,0.001725271,0.001773376,0.0005933163,0.001708653,0.0003516441],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001805784,0.000576592,0.4881776,0.001666563,0.001357509,0.0003314128,0.0009424458,0.03780866,0.150274,0.004557994,0.01340993,0.2990915],"study_design_scores_gemma":[0.0001294879,0.001353875,0.5141808,0.0002560262,0.0004706534,0.001189045,0.0006324335,0.3766595,0.06741616,0.009331042,0.02799775,0.0003831552],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.5329223,0.002296648,0.4228004,0.0002362772,0.0001674987,0.0005831941,0.02597779,0.009124523,0.005891266],"genre_scores_gemma":[0.6088203,0.0004564068,0.3444376,0.0001164759,0.00007072372,0.0006861257,0.0435214,0.0008347863,0.001056224],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.006806355,"threshold_uncertainty_score":0.02137387,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4414885954","doi":"10.3390/applmicrobiol5040107","title":"Probiotics, Placebos, or Profits? Reclaiming Scientific Language in the Age of Commercialized Microbes","year":2025,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Probiotics and Fermented Foods","field":"Agricultural and Biological Sciences","cited_by":1,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Agriculture and Agri-Food Canada","funders":"","keywords":"Lactobacillus rhamnosus; Probiotic; Public health; Enforcement; Consumption (sociology); Metagenomics; Psychological intervention; Health claims on food labels","authors":[{"name":"Gerrit A. Stuivenberg","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02014681958452409,"gpt":0.2525751372900168,"spread":0.2324283177054927,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.1290712,0.0009573294,0.002380962,0.003574309,0.004159314,0.02082267,0.003081572,0.01334453,0.00567992],"category_scores_gemma":[0.2006103,0.0008927138,0.0008980377,0.001858146,0.07513766,0.04642218,0.01077575,0.02951933,0.002509654],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.005052492,"about_ca_system_score_gemma":0.006435345,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001341638,"about_ca_topic_score_gemma":0.0013499,"domain_scores_codex":[0.9283018,0.04893215,0.005157789,0.004661744,0.01168822,0.001258371],"domain_scores_gemma":[0.7797936,0.171881,0.01317878,0.01732507,0.01351053,0.004311136],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.000451021,0.00006548251,0.0006603733,0.00151709,0.00007268819,0.000232618,0.009166471,0.0001489456,0.0007690135,0.792715,0.07921613,0.1149851],"study_design_scores_gemma":[0.00009956683,0.0001698867,0.0004979747,0.003730877,0.00005363094,0.0003619376,0.003096611,0.0002605513,0.000601623,0.6009367,0.3901132,0.00007750872],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":"theoretical_or_conceptual","genre_codex":"commentary","genre_gemma":"commentary","genre_scores_codex":[0.002937146,0.09777343,0.009470181,0.854032,0.02078726,0.00004132381,0.00009670307,0.0001651958,0.01469674],"genre_scores_gemma":[0.1677729,0.113108,0.02425904,0.5949362,0.08643022,0.0004743278,0.0001720093,0.0008936165,0.01195371],"genre_candidate":"commentary","genre_consensus":"commentary","teacher_disagreement_score":0.1290712,"threshold_uncertainty_score":0.6826019,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3187015008","doi":"10.3390/applmicrobiol1020017","title":"Actin-Related Protein 6 (Arp6) Influences Double-Strand Break Repair in Yeast","year":2021,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Regina; Carleton University; Agriculture and Agri-Food Canada; Ottawa Hospital","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Cell biology; DNA repair; Homologous recombination; Chromatin remodeling; Chromatin structure remodeling (RSC) complex; Chromatin; DNA damage; Biology; Histone; DNA repair protein XRCC4; Ku80; DNA; Non-homologous end joining; Genetics; Chemistry; DNA-binding protein; Nucleotide excision repair; Gene; Transcription factor","authors":[{"name":"Mohsen Hooshyar","is_ca":true},{"name":"Daniel Burnside","is_ca":true},{"name":"Maryam Hajikarimlou","is_ca":true},{"name":"Katayoun Omidi","is_ca":true},{"name":"Alexander Jesso","is_ca":true},{"name":"Megan R. Vanstone","is_ca":true},{"name":"Adamo Young","is_ca":true},{"name":"Pedro Matilha Cherubini","is_ca":true},{"name":"Matthew Jessulat","is_ca":true},{"name":"Taylor Potter","is_ca":true},{"name":"Andrew Schoenrock","is_ca":true},{"name":"Urvi Bhojoo","is_ca":true},{"name":"Eshan Silva","is_ca":true},{"name":"Houman Moteshareie","is_ca":true},{"name":"Mohan Babu","is_ca":true},{"name":"Jean‐Simon Diallo","is_ca":true},{"name":"Frank Dehne","is_ca":true},{"name":"Bahram Samanfar","is_ca":true},{"name":"Ashkan Golshani","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006950721175891569,"gpt":0.2217814345908216,"spread":0.21483071341493,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001517544,0.0004717143,0.0002935944,0.0003275262,0.0002019888,0.0004702157,0.0002620619,0.0002300706,0.002258464],"category_scores_gemma":[0.0001275868,0.0002351919,0.0003271652,0.0002487833,0.0001941526,0.0001809258,0.0003361294,0.0005085849,0.0008809415],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003042546,"about_ca_system_score_gemma":0.0001585326,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009926797,"about_ca_topic_score_gemma":0.0007944127,"domain_scores_codex":[0.9998174,0.00003303682,0.00002172158,0.00004581541,0.00005216818,0.00002979503],"domain_scores_gemma":[0.9998285,0.00002213806,0.00003772943,0.00001709042,0.00002684844,0.00006768803],"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":[0.0001697685,0.00002367515,0.0002123373,0.0000349114,0.000006278412,0.00007843403,0.00001070237,0.00008653,0.998127,0.00008417616,0.00005159226,0.001114479],"study_design_scores_gemma":[0.00003110753,0.0002374081,0.009928617,0.00001424193,0.00004602005,0.0003457292,0.00006026144,0.001494635,0.9816321,0.0001313557,0.006064868,0.00001370511],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9870641,0.003658546,0.002976482,0.0001398802,0.0001138887,0.00002667627,0.001441029,0.0003059857,0.004273443],"genre_scores_gemma":[0.9895168,0.001606504,0.001473108,0.00005885497,0.00001589732,0.00001791639,0.0009807544,0.0001005797,0.006229422],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002258464,"threshold_uncertainty_score":0.007555246,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4386028802","doi":"10.3390/applmicrobiol3030063","title":"Response of Hypolimnetic Water and Bottom Sediment Microbial Communities to Freshwater Salinization—A Microcosm Experiment","year":2023,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":0,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Université du Québec à Montréal","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Groupe de recherche interuniversitaire en limnologie","keywords":"Hypolimnion; Microcosm; Salinity; Sediment; Abundance (ecology); Environmental science; Ecology; Nutrient; Sedimentation; Environmental chemistry; Oceanography; Eutrophication; Biology; Chemistry; Geology","authors":[{"name":"Jean‐Christophe Gagnon","is_ca":true},{"name":"Valérie Turcotte Blais","is_ca":true},{"name":"Cassandre Sara Lazar","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01190246732215962,"gpt":0.2269492350575506,"spread":0.215046767735391,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003023735,0.0004154811,0.0005284537,0.0002276911,0.0005921467,0.0005338572,0.0005269073,0.0004479713,0.0007701823],"category_scores_gemma":[0.0003825823,0.0002475015,0.0004156737,0.0003136105,0.0005242182,0.0002032432,0.0007278108,0.0007010147,0.0001143148],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001305607,"about_ca_system_score_gemma":0.001608435,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.06413782,"about_ca_topic_score_gemma":0.106343,"domain_scores_codex":[0.9994654,0.00005352089,0.00003060098,0.0001604063,0.0001515628,0.000138538],"domain_scores_gemma":[0.9994739,0.0000432646,0.00007310597,0.00004265938,0.0001657803,0.0002013808],"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":[0.0009630875,0.0002269577,0.007010177,0.00004130996,0.00002312115,0.00003202303,0.0001835449,0.0001180019,0.9899337,0.00002626078,0.00006558779,0.001376161],"study_design_scores_gemma":[0.0002112618,0.01265062,0.4778331,0.00001525293,0.0002097827,0.000147205,0.0006576244,0.002724739,0.5025392,0.0001086658,0.002808797,0.00009381972],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988387,0.0000602896,0.0002699466,0.00002891714,0.00001239338,0.00009402155,0.0004159831,0.00001255257,0.0002672098],"genre_scores_gemma":[0.9942507,0.0001882559,0.002816492,0.0001546662,0.00001471896,0.0002344588,0.0008765465,0.00000923579,0.001454978],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06413782,"threshold_uncertainty_score":0.127529,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4391884604","doi":"10.3390/applmicrobiol4010027","title":"Transcriptional Response of Salmonella enterica to Bacteriophage Treatments with Differential Multiplicities of Infection","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":0,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Salmonella enterica; Bacteriophage; Salmonella; Virology; Microbiology; Differential (mechanical device); Biology; Bacteria; Genetics; Escherichia coli; Gene; Physics","authors":[{"name":"Catherine W. Y. Wong","is_ca":true},{"name":"Siyun Wang","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00553323290573019,"gpt":0.2144620134627636,"spread":0.2089287805570334,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002599226,0.0004090577,0.0005886697,0.0002477298,0.000135891,0.0004245898,0.0001721375,0.0003704157,0.001089115],"category_scores_gemma":[0.0003942965,0.0001827893,0.0005551528,0.0002539633,0.0003294132,0.0002015069,0.0003260066,0.0007662146,0.0003896887],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004036955,"about_ca_system_score_gemma":0.0002446747,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000882521,"about_ca_topic_score_gemma":0.001081964,"domain_scores_codex":[0.9996368,0.00004048426,0.00002904573,0.0001118142,0.00008724957,0.00009465163],"domain_scores_gemma":[0.9997409,0.00006420008,0.0000516156,0.00001813425,0.00007334237,0.00005187071],"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":[0.000144128,0.00002579854,0.0002872654,0.00003597157,0.000002916289,0.000009204177,0.00003028584,0.00002518891,0.9989999,0.000009262646,0.00002871963,0.0004013998],"study_design_scores_gemma":[0.0000162763,0.001581791,0.04380062,0.00002842043,0.00003116386,0.00009863162,0.0003134668,0.001073053,0.9511854,0.00005053711,0.001797783,0.00002277478],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9945314,0.0008737572,0.001918023,0.00010155,0.00007545393,0.00006000088,0.001338539,0.00008753318,0.001013775],"genre_scores_gemma":[0.9846755,0.0007861428,0.005859823,0.000279393,0.0000359381,0.0001978349,0.003825016,0.00005017387,0.004290178],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001089115,"threshold_uncertainty_score":0.003643513,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4404754480","doi":"10.3390/applmicrobiol4040105","title":"Environmental and Host Characteristics Shape the Gut Microbiota of the Sand Field Cricket, Gryllus firmus","year":2024,"lang":"en","type":"article","venue":"Applied Microbiology","topic":"Insect Utilization and Effects","field":"Agricultural and Biological Sciences","cited_by":0,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université du Québec à Montréal","funders":"","keywords":"Host (biology); Field cricket; Cricket; Biology; Ecology; Gut flora; Zoology","authors":[{"name":"Divya Patel","is_ca":true},{"name":"Clint D. Kelly","is_ca":true},{"name":"Cassandre Sara Lazar","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005146874245772647,"gpt":0.1707072261712019,"spread":0.1655603519254293,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001018487,0.0003819662,0.0002363991,0.0003455743,0.0003915637,0.0004519454,0.0001464521,0.0002317821,0.0009302846],"category_scores_gemma":[0.0002088954,0.0001894963,0.0001660054,0.0001631209,0.0002827977,0.0002256157,0.0003415045,0.000340188,0.0001333536],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003945971,"about_ca_system_score_gemma":0.0003044722,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008106538,"about_ca_topic_score_gemma":0.01972022,"domain_scores_codex":[0.9998535,0.00001973296,0.000008206991,0.0000586278,0.00002420252,0.00003575983],"domain_scores_gemma":[0.9998739,0.00001803075,0.00003280638,0.000005439369,0.00001810367,0.00005176424],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0006586032,0.0001069454,0.05146314,0.0000961703,0.000031796,0.0002067454,0.0002851188,0.0001168493,0.9426966,0.00002989639,0.00006622155,0.004241964],"study_design_scores_gemma":[0.000009382962,0.0008997771,0.9614828,0.00001626432,0.00004919885,0.0002269004,0.001198165,0.0004337594,0.03509182,0.00003585843,0.0005382051,0.00001776306],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9995468,0.0001208976,0.00005882659,0.00001092543,0.000002014333,0.000004778999,0.00008242601,0.000001755201,0.0001715995],"genre_scores_gemma":[0.9987029,0.0001157373,0.0003293502,0.00004912232,0.000002075483,0.0000100355,0.0001676179,0.000004066273,0.0006191894],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008106538,"threshold_uncertainty_score":0.01611871,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null}]}