{"id":"W4391926859","doi":"10.1101/2024.02.15.580581","title":"Identifying Reproducible Transcription Regulator Coexpression Patterns with Single Cell Transcriptomics","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":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; National Institutes of Health","keywords":"Regulator; Transcriptome; Computational biology; Transcription factor; Biology; Transcription (linguistics); Cell biology; Genetics; Gene expression; Gene","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001742808,0.000398085,0.0008578516,0.001752766,0.0004903135,0.001363231,0.0004811931,0.0004195887,0.002239673],"category_scores_gemma":[0.003239783,0.0003377789,0.0007156326,0.002354545,0.0004189816,0.0005215122,0.0008084829,0.0007967147,0.001429377],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004204916,"about_ca_system_score_gemma":0.0006363613,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001449763,"about_ca_topic_score_gemma":0.005213254,"domain_scores_codex":[0.9988919,0.0001612965,0.00008988513,0.0004643727,0.0003152736,0.00007718601],"domain_scores_gemma":[0.9968057,0.001358134,0.0004965268,0.0005929052,0.0006195971,0.0001271517],"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":[0.000234849,0.00004578166,0.066491,0.000883837,0.0003278364,0.0001970932,0.0002699814,0.006772369,0.8891163,0.0008091176,0.002727674,0.03212413],"study_design_scores_gemma":[0.00003361365,0.0003028205,0.3730839,0.0001714213,0.0004586839,0.0007326914,0.0006407524,0.07929791,0.4999678,0.006493348,0.03866829,0.0001488247],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7126462,0.003847385,0.2224573,0.0004243554,0.0001446877,0.000273067,0.05173611,0.003419569,0.005051303],"genre_scores_gemma":[0.7717243,0.001549715,0.1732937,0.0004823234,0.00008670532,0.0005146101,0.04946724,0.0009050441,0.001976431],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002239673,"threshold_uncertainty_score":0.009216964,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01758002136396524,"score_gpt":0.2129786331093332,"score_spread":0.1953986117453679,"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."}}