{"meta":{"page":1,"per_page":50,"max_per_page":100,"total":6,"total_is_capped":false,"direct_labels_cover":0,"predictions_cover":6,"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":"bf9b9aba68e8","filters":{"venue":"Fungal Biology and Biotechnology"}},"results":[{"id":"W2973379642","doi":"10.1186/s40694-019-0076-7","title":"Efficient marker free CRISPR/Cas9 genome editing for functional analysis of gene families in filamentous fungi","year":2019,"lang":"en","type":"article","venue":"Fungal Biology and Biotechnology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":114,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Danmarks Tekniske Universitet; Concordia University","keywords":"CRISPR; Genome editing; Gene knockout; Cas9; Biology; Plasmid; Genetics; Gene; Transformation (genetics); Computational biology; Marker gene; Genome","authors":[{"name":"Tim M. van Leeuwe","is_ca":false},{"name":"Mark Arentshorst","is_ca":false},{"name":"Tim Ernst","is_ca":false},{"name":"Ebru Alazi","is_ca":false},{"name":"Peter J. Punt","is_ca":false},{"name":"Arthur F. J. Ram","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004916068669664316,"gpt":0.2464804574381338,"spread":0.2415643887684695,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002167351,0.0001607477,0.0003217435,0.0003971867,0.00003623925,0.000003864745,0.0001658173,0.0005507698,0.00003337784],"category_scores_gemma":[0.00007322786,0.0001495657,0.0001181867,0.0003052854,0.00013831,0.000001162729,0.0001559079,0.0001230634,0.000001998985],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001038537,"about_ca_system_score_gemma":0.00001918486,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001845365,"about_ca_topic_score_gemma":0.00006602261,"domain_scores_codex":[0.9989144,0.00002624084,0.0002753295,0.0004378335,0.0000440167,0.0003021323],"domain_scores_gemma":[0.9994642,0.0000448546,0.00007947984,0.0003344645,0.00004652919,0.00003043155],"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":[0.000122081,0.00003916754,0.04020664,0.00002621726,0.000332514,9.305382e-7,0.00001594715,0.003563421,0.9538723,0.0005089077,0.00004373168,0.001268113],"study_design_scores_gemma":[0.001669941,0.001026953,0.1756912,0.00001103189,0.000282758,0.00002557238,0.0003415752,0.01037992,0.8029757,0.0001228102,0.007063846,0.0004086562],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9763163,0.003208235,0.01949796,0.0001275423,0.0002549624,0.0002418266,0.0002425589,0.0000178749,0.00009277611],"genre_scores_gemma":[0.9975035,0.0002474054,0.001655603,0.00006733631,0.0000865055,0.00002952475,0.0003049734,0.00001073965,0.00009447533],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1508966,"threshold_uncertainty_score":0.6099112,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2796863313","doi":"10.1186/s40694-018-0046-5","title":"Cinnamomum zeylanicum bark essential oil induces cell wall remodelling and spindle defects in Candida albicans","year":2018,"lang":"en","type":"article","venue":"Fungal Biology and Biotechnology","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":55,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Concordia University; Regina Qu'Appelle Health Region; University of Regina","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Foundation for Innovation; Faculty of Graduate Studies and Research, University of Regina; University of Regina; Brown University","keywords":"Cinnamomum zeylanicum; Bark (sound); Cinnamomum; Candida albicans; Biology; Essential oil; Traditional medicine; Microbiology; Botany; Medicine; Pathology; Ecology","authors":[{"name":"Zinnat Shahina","is_ca":true},{"name":"Amira M. El-Ganiny","is_ca":false},{"name":"Jessica Minion","is_ca":true},{"name":"Malcolm Whiteway","is_ca":true},{"name":"Taranum Sultana","is_ca":true},{"name":"Tanya E. S. Dahms","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01015192858999086,"gpt":0.2631568581000005,"spread":0.2530049295100096,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002920525,0.0002107767,0.0004386827,0.0002206341,0.0001449897,0.000009210618,0.0001090063,0.001033172,0.00006862596],"category_scores_gemma":[0.0001056857,0.0001682112,0.00004346983,0.0002441892,0.001089088,0.00004437704,0.0001204421,0.0005712475,0.00002020674],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003411542,"about_ca_system_score_gemma":0.00009042594,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005098667,"about_ca_topic_score_gemma":0.002233441,"domain_scores_codex":[0.9984882,0.00007193503,0.0002891017,0.0006130533,0.00006062985,0.0004771069],"domain_scores_gemma":[0.9994122,0.00006927568,0.00007592525,0.000287919,0.0000536715,0.0001010501],"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":[0.0006050756,0.0001275197,0.2624957,0.0001131168,0.00003209125,0.00006363898,0.0001686138,1.427834e-7,0.7266318,0.002052858,0.0001155006,0.007593976],"study_design_scores_gemma":[0.005939071,0.00601072,0.3249319,0.0003423557,0.0002314809,0.0004433559,0.001111757,0.00112993,0.6402559,0.00489495,0.01362523,0.001083352],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9939207,0.002164157,0.0001610704,0.001865177,0.0001680698,0.0001270503,0.00001269851,0.00008168096,0.001499388],"genre_scores_gemma":[0.9971411,0.00146033,0.0003892492,0.0004710948,0.0001379495,0.000006238253,0.00001883578,0.00001223119,0.0003630367],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08637587,"threshold_uncertainty_score":0.796877,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2893226894","doi":"10.1186/s40694-018-0060-7","title":"A community-driven reconstruction of the Aspergillus niger metabolic network","year":2018,"lang":"en","type":"article","venue":"Fungal Biology and Biotechnology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":38,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Concordia University","funders":"Novo Nordisk Fonden; Novo Nordisk; Stichting voor de Technische Wetenschappen; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Villum Fonden","keywords":"SBML; Computer science; Aspergillus niger; Flux balance analysis; Metabolic network; Experimental data; Software; Metabolic engineering; Data mining; Computational biology; Biochemical engineering; Biology; Gene; Biotechnology; Markup language; XML; Programming language; Engineering","authors":[{"name":"Julian Brandl","is_ca":false},{"name":"María Victoria Aguilar Pontes","is_ca":false},{"name":"Paul SchĂ¤Pe","is_ca":false},{"name":"Anders Noerregaard","is_ca":false},{"name":"Mikko Arvas","is_ca":false},{"name":"Arthur F. J. Ram","is_ca":false},{"name":"Vera Meyer","is_ca":false},{"name":"Adrian Tsang","is_ca":true},{"name":"Ronald P. de Vries","is_ca":false},{"name":"Mikael Rørdam Andersen","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006447910474245026,"gpt":0.2168174278189424,"spread":0.2103695173446973,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002451304,0.0001222818,0.000178818,0.00004819329,0.0002373776,0.000003304514,0.0002201525,0.0005394149,0.00001058204],"category_scores_gemma":[0.00011606,0.00008399534,0.00005675076,0.0001979154,0.001007044,0.000002263151,0.000226333,0.0002870811,0.000003863872],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00000306528,"about_ca_system_score_gemma":0.00002021631,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004637893,"about_ca_topic_score_gemma":0.00009210288,"domain_scores_codex":[0.9992051,0.0001747284,0.0001771836,0.0002130675,0.00002323661,0.0002067496],"domain_scores_gemma":[0.9994007,0.000004982231,0.00009489138,0.0004148846,0.00006288226,0.0000216594],"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":[0.00003969862,0.00001733966,0.008266917,0.000005790562,0.00006069889,6.913718e-8,0.00001821601,0.000004792202,0.973061,0.00331518,0.0003741454,0.0148361],"study_design_scores_gemma":[0.0002183351,0.0003903113,0.01206575,0.00001219616,0.00002975431,0.0001970496,0.00003717024,0.00001507795,0.8925612,0.0004975769,0.09385211,0.0001234869],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9959815,0.00161872,0.0003067851,0.0007466681,0.001023735,0.0001099993,0.00002054979,0.00003049033,0.0001615192],"genre_scores_gemma":[0.9975092,0.0005986833,0.0009749783,0.0001372453,0.0006141093,0.000005080345,0.00001629295,0.000008188955,0.0001361802],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09347796,"threshold_uncertainty_score":0.4160462,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3149485592","doi":"10.1186/s40694-021-00111-w","title":"Preservation stress resistance of melanin deficient conidia from Paecilomyces variotii and Penicillium roqueforti mutants generated via CRISPR/Cas9 genome editing","year":2021,"lang":"en","type":"article","venue":"Fungal Biology and Biotechnology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":31,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Newfoundland and Labrador; Universiteit Leiden","keywords":"CRISPR; Penicillium roqueforti; Biology; Paecilomyces; Melanin; Genome editing; Mutant; Microbiology; Genetics; Penicillium; Botany; Gene","authors":[{"name":"Sjoerd J. Seekles","is_ca":false},{"name":"Pepijn Teunisse","is_ca":false},{"name":"Maarten Punt","is_ca":false},{"name":"Tom van den Brule","is_ca":false},{"name":"Jan Dijksterhuis","is_ca":false},{"name":"Jos Houbraken","is_ca":false},{"name":"Han A. B. Wösten","is_ca":false},{"name":"Arthur F. J. Ram","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01054363550662757,"gpt":0.2481489855412003,"spread":0.2376053500345728,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002024631,0.0002101706,0.0003110946,0.00008411887,0.0001518581,0.00001970102,0.0002131402,0.0008125128,0.00004272388],"category_scores_gemma":[0.0002250606,0.0001880815,0.00004513174,0.0002019847,0.0004799876,0.000007354997,0.0004789264,0.0002703773,0.000002939224],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000121004,"about_ca_system_score_gemma":0.00009141023,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001393757,"about_ca_topic_score_gemma":0.0007441576,"domain_scores_codex":[0.9983127,0.0001647992,0.000353483,0.0006789136,0.0001017636,0.0003883591],"domain_scores_gemma":[0.9991239,0.00004998912,0.0001527526,0.0003596218,0.000232606,0.00008112448],"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":[0.0001378819,0.0000603213,0.02864549,0.00003599625,0.0001042338,0.000020206,0.000035026,0.00001040793,0.9687988,0.000670323,0.0000731534,0.001408152],"study_design_scores_gemma":[0.0005083896,0.0003602848,0.0163906,0.00002015994,0.00002712386,0.00003343574,0.0001318497,0.0001738959,0.9737732,0.0006493878,0.007724639,0.000206966],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9789408,0.01728367,0.001591719,0.001057923,0.0001765159,0.0001606537,0.0006184594,0.0000218727,0.0001483836],"genre_scores_gemma":[0.9943259,0.002868155,0.001572551,0.0001282059,0.0001511188,0.00001504861,0.0007207823,0.00001542117,0.0002028303],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01538508,"threshold_uncertainty_score":0.7669742,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4386374683","doi":"10.1186/s40694-023-00165-y","title":"CRISPR/Cas9 mediated gene editing of transcription factor ACE1 for enhanced cellulase production in thermophilic fungus Rasamsonia emersonii","year":2023,"lang":"en","type":"article","venue":"Fungal Biology and Biotechnology","topic":"Biofuel production and bioconversion","field":"Engineering","cited_by":17,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Concordia University","funders":"Danmarks Tekniske Universitet","keywords":"Cellulase; Xylanase; Biology; Gene; Biorefinery; Microbiology; Thermophile; CRISPR; Overproduction; Repressor; Biochemistry; Transcription factor; Enzyme; Biotechnology","authors":[{"name":"Varinder Singh","is_ca":false},{"name":"Yashika Raheja","is_ca":false},{"name":"Neha Basotra","is_ca":false},{"name":"Gaurav Sharma","is_ca":false},{"name":"Adrian Tsang","is_ca":true},{"name":"Bhupinder Singh Chadha","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01526873552725715,"gpt":0.2325900666896058,"spread":0.2173213311623487,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002064042,0.0001619196,0.0002421817,0.0003907329,0.00006388855,0.000003304546,0.00009559423,0.0007207467,0.00003071799],"category_scores_gemma":[0.00009415393,0.000145313,0.00004791555,0.000459995,0.0001864267,0.00005777204,0.00002447884,0.0002624982,0.00001808841],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002815426,"about_ca_system_score_gemma":0.000009616015,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001084941,"about_ca_topic_score_gemma":0.00001879314,"domain_scores_codex":[0.9989956,0.00003805426,0.000268924,0.0003468929,0.00004033851,0.0003102178],"domain_scores_gemma":[0.9996901,0.00003776745,0.00005943477,0.0001483356,0.00003391365,0.00003043357],"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":[0.00007517733,0.00001941153,0.0005085579,0.0001712345,0.00002674817,0.000001321702,0.0001754085,0.00002084113,0.98522,0.00005003581,0.0001817311,0.01354958],"study_design_scores_gemma":[0.0005635973,0.0002087884,0.001931568,0.0000158379,0.00001170055,0.000008666211,0.0002769116,0.001042989,0.9929655,0.0001996608,0.002626923,0.0001479065],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9934217,0.0009018148,0.0007562618,0.00230727,0.00159814,0.0004191552,0.0000957002,0.0004874347,0.0000125766],"genre_scores_gemma":[0.9979779,0.001402825,0.0001681871,0.00002089099,0.0001966186,0.00003925989,0.0001354112,0.00001622552,0.00004274991],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01340167,"threshold_uncertainty_score":0.5925693,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4410941154","doi":"10.1186/s40694-025-00200-0","title":"Indigenizing fungal biotechnology for planetary health: an opinion paper","year":2025,"lang":"en","type":"letter","venue":"Fungal Biology and Biotechnology","topic":"Plant and Biological Electrophysiology Studies","field":"Agricultural and Biological Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"","funders":"","keywords":"Biotechnology; Biology; Astrobiology","authors":[{"name":"Rolando Perez","is_ca":false},{"name":"Maria Luisa Astolfi","is_ca":false},{"name":"Ulises J. Espinoza","is_ca":false},{"name":"Teal Brown Zimring","is_ca":false},{"name":"Keolu Fox","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02569247612224851,"gpt":0.253978215523589,"spread":0.2282857394013404,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":["research_integrity"],"category_scores_codex":[0.0003577655,0.0008255604,0.001497785,0.0001964115,0.001101036,0.00003401259,0.0009924149,0.009279523,0.00006889866],"category_scores_gemma":[0.000174379,0.0003527419,0.000237315,0.0004520923,0.001201822,0.00008388563,0.0005020799,0.002968483,0.00001936949],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006142484,"about_ca_system_score_gemma":0.00006823841,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000301629,"about_ca_topic_score_gemma":0.0006706105,"domain_scores_codex":[0.9954265,0.000381269,0.0007096513,0.001750949,0.00009514877,0.001636452],"domain_scores_gemma":[0.9981952,0.0009581333,0.0004282265,0.0002569976,0.00006556821,0.00009590356],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.000378508,0.0001425654,0.001604082,0.0001666331,0.0004254498,0.00005394829,0.00002158274,1.263295e-7,0.2106002,0.004439433,0.4995964,0.282571],"study_design_scores_gemma":[0.0003073538,0.006305982,0.001839715,0.00005954707,0.00004873829,0.0001490745,0.00006821139,0.00001063384,0.004186772,0.006171432,0.9801137,0.0007387885],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"commentary","genre_gemma":"commentary","genre_scores_codex":[0.06299811,0.01202518,0.00001806141,0.9181445,0.001278786,0.001211677,0.003393844,0.0008510692,0.00007877373],"genre_scores_gemma":[0.08293059,0.0233252,0.0008194086,0.8547563,0.006916532,0.0004738324,0.03013689,0.00001405225,0.0006271877],"genre_candidate":"commentary","genre_consensus":"commentary","teacher_disagreement_score":0.4805173,"threshold_uncertainty_score":0.9998925,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null}]}