{"id":"W3127001187","doi":"10.1101/2021.02.11.430601","title":"Comparative proteome signatures of trace samples by multiplexed Data-Independent Acquisition","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Austrian Science Fund; European Commission","keywords":"Proteome; Proteomics; Shotgun proteomics; Quantitative proteomics; Pipeline (software); Label-free quantification; Shotgun; Transcriptome; Human proteome project","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001878967,0.0007805526,0.0006095265,0.001084529,0.0003531116,0.001594014,0.0008264265,0.0005834477,0.0007413776],"category_scores_gemma":[0.001684807,0.0004777227,0.0004079961,0.001084793,0.0007592497,0.00119179,0.001142303,0.001033489,0.0005385957],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006095062,"about_ca_system_score_gemma":0.0005943638,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004460842,"about_ca_topic_score_gemma":0.000493149,"domain_scores_codex":[0.9987888,0.0001321838,0.00008417761,0.0004602698,0.0004536373,0.00008096926],"domain_scores_gemma":[0.9987791,0.00037852,0.0002472223,0.0002835829,0.0002365288,0.00007503315],"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":[0.0002613127,0.00006516068,0.001683728,0.00006604803,0.0000200597,0.00006937442,0.00005360645,0.0009051959,0.9843184,0.0005664492,0.0002068404,0.01178367],"study_design_scores_gemma":[0.00001106605,0.00006400945,0.002983476,0.000004452018,0.00001327954,0.000151113,0.00002153017,0.027295,0.9674769,0.0008927279,0.001062842,0.00002362845],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5941467,0.0005368474,0.3969724,0.0002578941,0.0000831026,0.0001489681,0.00320418,0.003600016,0.001049877],"genre_scores_gemma":[0.62587,0.0004215687,0.3678073,0.0002051869,0.00003382787,0.0003267551,0.00330602,0.000591568,0.001437703],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001878967,"threshold_uncertainty_score":0.009937048,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02965875935178225,"score_gpt":0.2492626157585105,"score_spread":0.2196038564067282,"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."}}