{"id":"W4396829621","doi":"10.1101/2024.05.07.592900","title":"Embryo spatial 3D genomics","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Genetics","funders":"","keywords":"Genomics; Computational biology; Embryo; Biology; Evolutionary biology; Computer science; Genetics; Genome; Gene","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0003425049,0.0007003219,0.0005079141,0.0001615636,0.0001309338,0.0002789336,0.0007025432,0.001086973,0.00003926787],"category_scores_gemma":[0.00008169372,0.0007709383,0.0003343243,0.0001718392,0.0001506074,0.000004268017,0.000956375,0.0009080928,0.0001678844],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001452416,"about_ca_system_score_gemma":0.0009064248,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000155059,"about_ca_topic_score_gemma":0.00002392764,"domain_scores_codex":[0.9970562,0.00008989519,0.0005512856,0.001400345,0.0002799905,0.0006222368],"domain_scores_gemma":[0.9978173,0.00001265504,0.0002042816,0.001417414,0.0002676643,0.0002807338],"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":[0.00006657498,0.0001086276,0.0007072691,0.0003876648,0.0002662908,0.00004578662,0.000006291581,0.0001316574,0.9970518,0.0001004496,0.001114359,0.00001326092],"study_design_scores_gemma":[0.0005278012,0.000152458,0.00438843,0.0002168347,0.000239603,5.78952e-8,0.000001528585,0.000977434,0.9361722,0.000007666149,0.05606353,0.001252442],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.984119,0.004734905,0.004949546,0.0001589726,0.004588204,0.0005835645,0.0005368894,0.0002392298,0.00008967974],"genre_scores_gemma":[0.991522,0.0007715242,0.004173923,0.0003718942,0.00272128,0.0001031046,0.000004729543,0.0002747155,0.0000568736],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06087956,"threshold_uncertainty_score":0.9994742,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01080292596374345,"score_gpt":0.2075731333902248,"score_spread":0.1967702074264813,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}