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import collections |
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global_profiles_dict = {"Detectability": "detectability", "Promiscuity": "promiscuity"} |
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task_suf = collections.OrderedDict() |
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task_suf["_val_log2fc"] = "Log2FC" |
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task_suf["_gauss"] = "Gaussianized score" |
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task_suf["_bin_hit"] = "Protein hits (custom cutoffs)" |
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task_suf["_bin_50"] = "Top 50 proteins" |
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task_suf["_bin_100"] = "Top 100 proteins" |
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task_suf["_bin_250"] = "Top 250 proteins" |
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task_suf["_bin_500"] = "Top 500 proteins" |
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task_suf["_top_50"] = "Top 50 proteins" |
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task_suf["_top_100"] = "Top 100 proteins" |
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task_suf["_top_250"] = "Top 250 proteins" |
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task_suf["_top_500"] = "Top 500 proteins" |
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task_suf["_bottom_50"] = "Bottom 50 proteins" |
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task_suf["_bottom_100"] = "Bottom 100 proteins" |
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task_suf["_bottom_250"] = "Bottom 250 proteins" |
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task_suf["_bottom_500"] = "Bottom 500 proteins" |
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annotation_type_dict = { |
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"Sequence": [ |
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"InterPro Superfamily", |
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"InterPro Family", |
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"InterPro Domain", |
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"InterPro Active site", |
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"InterPro Binding site", |
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"InterPro Conserved site", |
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"InterPro Repeat", |
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"InterPro PTM" |
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], |
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"Functions": [ |
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"Panther Protein class", |
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"Protein Atlas Protein class", |
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"Protein Atlas Molecular function", |
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"GO Molecular function", |
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], |
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"Processes and pathways": [ |
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"Reactome Pathways", |
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"KEGG Pathways", |
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"WikiPathways", |
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"Protein Atlas Biological process", |
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"GO Biological process", |
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], |
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"Localization": [ |
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"Protein Atlas Subcellular", |
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"GO Cellular component", |
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"OpenCell Localization", |
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], |
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"Drugs and Diseases": [ |
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"Pharos IDG Category", |
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"Pharos Drug Target Ontology", |
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"Protein Atlas Disease involvement", |
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"Human Phenotype Ontology", |
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], |
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} |
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annotation_dict = { |
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"InterPro Superfamily": "interpro_homologous_superfamily", |
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"InterPro Family": "interpro_family", |
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"InterPro Domain": "interpro_domain", |
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"InterPro Active site": "interpro_active_site", |
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"InterPro Binding site": "interpro_binding_site", |
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"InterPro Conserved site": "interpro_conserved_site", |
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"InterPro Repeat": "interpro_repeat", |
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"InterPro PTM": "interpro_ptm", |
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"Panther Protein class": "panther_protein_class", |
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"Protein Atlas Protein class": "protein_atlas_protein_class", |
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"Protein Atlas Molecular function": "protein_atlas_molecular_function", |
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"GO Molecular function": "msigdb_gomf", |
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"Reactome Pathways": "msigdb_reactome", |
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"KEGG Pathways": "msigdb_kegg", |
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"WikiPathways": "msigdb_wp", |
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"Protein Atlas Biological process": "protein_atlas_biological_process", |
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"GO Biological process": "msigdb_gobp", |
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"Protein Atlas Subcellular": "protein_atlas_subcellular_location_all", |
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"GO Cellular component": "msigdb_gocc", |
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"OpenCell Localization": "opencell_localization", |
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"Pharos IDG Category": "pharos_protein_category", |
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"Pharos Drug Target Ontology": "pharos_dto", |
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"Protein Atlas Disease involvement": "protein_atlas_disease_involvement", |
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"Human Phenotype Ontology": "msigdb_hp", |
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} |
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universe_dict = { |
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"Human Proteome": "human_proteome", |
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"HEK293T Core": "hek293t_core", |
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"Bind Degs Detected": "cemm_detected", |
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"Bind Degs Enriched": "cemm_enriched", |
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"Pulldown": "pulldown", |
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} |
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