tooluniverse 1.0.6__py3-none-any.whl → 1.0.7__py3-none-any.whl

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  1. tooluniverse/__init__.py +31 -0
  2. tooluniverse/agentic_tool.py +40 -4
  3. tooluniverse/arxiv_tool.py +2 -6
  4. tooluniverse/base_tool.py +174 -25
  5. tooluniverse/biorxiv_tool.py +35 -16
  6. tooluniverse/cellosaurus_tool.py +1332 -0
  7. tooluniverse/compose_scripts/enhanced_multi_agent_literature_search.py +310 -0
  8. tooluniverse/compose_scripts/multi_agent_literature_search.py +794 -0
  9. tooluniverse/compose_scripts/tool_graph_generation.py +68 -35
  10. tooluniverse/compose_scripts/tool_metadata_generator.py +205 -105
  11. tooluniverse/compose_tool.py +93 -8
  12. tooluniverse/core_tool.py +46 -44
  13. tooluniverse/crossref_tool.py +89 -4
  14. tooluniverse/data/agentic_tools.json +1271 -1179
  15. tooluniverse/data/alphafold_tools.json +356 -105
  16. tooluniverse/data/arxiv_tools.json +88 -81
  17. tooluniverse/data/biorxiv_tools.json +69 -64
  18. tooluniverse/data/cellosaurus_tools.json +260 -0
  19. tooluniverse/data/chembl_tools.json +27 -12
  20. tooluniverse/data/clinicaltrials_gov_tools.json +377 -302
  21. tooluniverse/data/compose_tools.json +123 -16
  22. tooluniverse/data/core_tools.json +107 -99
  23. tooluniverse/data/crossref_tools.json +131 -63
  24. tooluniverse/data/dailymed_tools.json +17 -3
  25. tooluniverse/data/dataset_tools.json +1031 -588
  26. tooluniverse/data/dblp_tools.json +135 -64
  27. tooluniverse/data/disease_target_score_tools.json +20 -10
  28. tooluniverse/data/doaj_tools.json +133 -87
  29. tooluniverse/data/embedding_tools.json +362 -299
  30. tooluniverse/data/enrichr_tools.json +34 -27
  31. tooluniverse/data/europe_pmc_tools.json +108 -16
  32. tooluniverse/data/fatcat_tools.json +71 -66
  33. tooluniverse/data/fda_drug_adverse_event_tools.json +1061 -445
  34. tooluniverse/data/fda_drug_labeling_tools.json +6858 -6901
  35. tooluniverse/data/finder_tools.json +32 -37
  36. tooluniverse/data/gene_ontology_tools.json +19 -7
  37. tooluniverse/data/gwas_tools.json +1720 -959
  38. tooluniverse/data/hal_tools.json +69 -64
  39. tooluniverse/data/hpa_tools.json +53 -14
  40. tooluniverse/data/humanbase_tools.json +51 -43
  41. tooluniverse/data/idmap_tools.json +76 -70
  42. tooluniverse/data/literature_search_tools.json +306 -0
  43. tooluniverse/data/mcp_client_tools_example.json +122 -107
  44. tooluniverse/data/medlineplus_tools.json +50 -10
  45. tooluniverse/data/medrxiv_tools.json +69 -64
  46. tooluniverse/data/molecule_2d_tools.json +134 -0
  47. tooluniverse/data/molecule_3d_tools.json +164 -0
  48. tooluniverse/data/monarch_tools.json +112 -110
  49. tooluniverse/data/odphp_tools.json +389 -119
  50. tooluniverse/data/openaire_tools.json +89 -79
  51. tooluniverse/data/openalex_tools.json +100 -31
  52. tooluniverse/data/opentarget_tools.json +1457 -1372
  53. tooluniverse/data/osf_preprints_tools.json +77 -73
  54. tooluniverse/data/packages/bioinformatics_core_tools.json +40 -10
  55. tooluniverse/data/packages/cheminformatics_tools.json +20 -5
  56. tooluniverse/data/packages/genomics_tools.json +36 -9
  57. tooluniverse/data/packages/machine_learning_tools.json +36 -9
  58. tooluniverse/data/packages/scientific_computing_tools.json +20 -5
  59. tooluniverse/data/packages/single_cell_tools.json +20 -5
  60. tooluniverse/data/packages/structural_biology_tools.json +16 -4
  61. tooluniverse/data/packages/visualization_tools.json +20 -5
  62. tooluniverse/data/pmc_tools.json +111 -103
  63. tooluniverse/data/protein_structure_3d_tools.json +138 -0
  64. tooluniverse/data/pubchem_tools.json +37 -12
  65. tooluniverse/data/pubmed_tools.json +126 -58
  66. tooluniverse/data/pubtator_tools.json +68 -60
  67. tooluniverse/data/rcsb_pdb_tools.json +1532 -1221
  68. tooluniverse/data/semantic_scholar_tools.json +55 -22
  69. tooluniverse/data/special_tools.json +8 -6
  70. tooluniverse/data/tool_composition_tools.json +112 -82
  71. tooluniverse/data/unified_guideline_tools.json +707 -0
  72. tooluniverse/data/url_fetch_tools.json +102 -82
  73. tooluniverse/data/uspto_tools.json +49 -30
  74. tooluniverse/data/wikidata_sparql_tools.json +42 -39
  75. tooluniverse/data/xml_tools.json +3274 -3113
  76. tooluniverse/data/zenodo_tools.json +84 -76
  77. tooluniverse/dblp_tool.py +76 -6
  78. tooluniverse/default_config.py +13 -0
  79. tooluniverse/doaj_tool.py +76 -17
  80. tooluniverse/doctor.py +48 -0
  81. tooluniverse/europe_pmc_tool.py +132 -17
  82. tooluniverse/exceptions.py +170 -0
  83. tooluniverse/execute_function.py +784 -362
  84. tooluniverse/fatcat_tool.py +0 -1
  85. tooluniverse/generate_tools.py +198 -0
  86. tooluniverse/hal_tool.py +1 -1
  87. tooluniverse/llm_clients.py +101 -124
  88. tooluniverse/mcp_tool_registry.py +4 -1
  89. tooluniverse/medrxiv_tool.py +32 -13
  90. tooluniverse/memory_manager.py +166 -0
  91. tooluniverse/molecule_2d_tool.py +274 -0
  92. tooluniverse/molecule_3d_tool.py +441 -0
  93. tooluniverse/odphp_tool.py +49 -14
  94. tooluniverse/openaire_tool.py +5 -20
  95. tooluniverse/openalex_tool.py +34 -0
  96. tooluniverse/osf_preprints_tool.py +1 -1
  97. tooluniverse/pmc_tool.py +54 -56
  98. tooluniverse/protein_structure_3d_tool.py +295 -0
  99. tooluniverse/pubmed_tool.py +69 -6
  100. tooluniverse/remote/boltz/boltz_mcp_server.py +3 -1
  101. tooluniverse/remote/uspto_downloader/uspto_downloader_mcp_server.py +3 -1
  102. tooluniverse/semantic_scholar_tool.py +40 -10
  103. tooluniverse/smcp.py +140 -205
  104. tooluniverse/smcp_server.py +97 -55
  105. tooluniverse/tool_registry.py +35 -3
  106. tooluniverse/tools/ADMETAI_predict_BBB_penetrance.py +46 -0
  107. tooluniverse/tools/ADMETAI_predict_CYP_interactions.py +46 -0
  108. tooluniverse/tools/ADMETAI_predict_bioavailability.py +46 -0
  109. tooluniverse/tools/ADMETAI_predict_clearance_distribution.py +49 -0
  110. tooluniverse/tools/ADMETAI_predict_nuclear_receptor_activity.py +49 -0
  111. tooluniverse/tools/ADMETAI_predict_physicochemical_properties.py +49 -0
  112. tooluniverse/tools/ADMETAI_predict_solubility_lipophilicity_hydration.py +49 -0
  113. tooluniverse/tools/ADMETAI_predict_stress_response.py +46 -0
  114. tooluniverse/tools/ADMETAI_predict_toxicity.py +46 -0
  115. tooluniverse/tools/AdvancedCodeQualityAnalyzer.py +63 -0
  116. tooluniverse/tools/AdverseEventICDMapper.py +46 -0
  117. tooluniverse/tools/AdverseEventPredictionQuestionGenerator.py +52 -0
  118. tooluniverse/tools/AdverseEventPredictionQuestionGeneratorWithContext.py +59 -0
  119. tooluniverse/tools/ArXiv_search_papers.py +63 -0
  120. tooluniverse/tools/ArgumentDescriptionOptimizer.py +55 -0
  121. tooluniverse/tools/BioRxiv_search_preprints.py +52 -0
  122. tooluniverse/tools/BiomarkerDiscoveryWorkflow.py +55 -0
  123. tooluniverse/tools/CORE_search_papers.py +67 -0
  124. tooluniverse/tools/CallAgent.py +46 -0
  125. tooluniverse/tools/ChEMBL_search_similar_molecules.py +59 -0
  126. tooluniverse/tools/CodeOptimizer.py +55 -0
  127. tooluniverse/tools/CodeQualityAnalyzer.py +71 -0
  128. tooluniverse/tools/ComprehensiveDrugDiscoveryPipeline.py +49 -0
  129. tooluniverse/tools/Crossref_search_works.py +55 -0
  130. tooluniverse/tools/DBLP_search_publications.py +52 -0
  131. tooluniverse/tools/DOAJ_search_articles.py +55 -0
  132. tooluniverse/tools/DailyMed_get_spl_by_setid.py +52 -0
  133. tooluniverse/tools/DailyMed_search_spls.py +79 -0
  134. tooluniverse/tools/DataAnalysisValidityReviewer.py +49 -0
  135. tooluniverse/tools/DescriptionAnalyzer.py +55 -0
  136. tooluniverse/tools/DescriptionQualityEvaluator.py +59 -0
  137. tooluniverse/tools/DomainExpertValidator.py +63 -0
  138. tooluniverse/tools/DrugSafetyAnalyzer.py +59 -0
  139. tooluniverse/tools/EthicalComplianceReviewer.py +49 -0
  140. tooluniverse/tools/EuropePMC_Guidelines_Search.py +52 -0
  141. tooluniverse/tools/EuropePMC_search_articles.py +52 -0
  142. tooluniverse/tools/ExperimentalDesignScorer.py +55 -0
  143. tooluniverse/tools/FAERS_count_additive_administration_routes.py +52 -0
  144. tooluniverse/tools/FAERS_count_additive_adverse_reactions.py +71 -0
  145. tooluniverse/tools/FAERS_count_additive_event_reports_by_country.py +63 -0
  146. tooluniverse/tools/FAERS_count_additive_reaction_outcomes.py +63 -0
  147. tooluniverse/tools/FAERS_count_additive_reports_by_reporter_country.py +63 -0
  148. tooluniverse/tools/FAERS_count_additive_seriousness_classification.py +63 -0
  149. tooluniverse/tools/FAERS_count_country_by_drug_event.py +63 -0
  150. tooluniverse/tools/FAERS_count_death_related_by_drug.py +49 -0
  151. tooluniverse/tools/FAERS_count_drug_routes_by_event.py +52 -0
  152. tooluniverse/tools/FAERS_count_drugs_by_drug_event.py +63 -0
  153. tooluniverse/tools/FAERS_count_outcomes_by_drug_event.py +63 -0
  154. tooluniverse/tools/FAERS_count_patient_age_distribution.py +49 -0
  155. tooluniverse/tools/FAERS_count_reactions_by_drug_event.py +71 -0
  156. tooluniverse/tools/FAERS_count_reportercountry_by_drug_event.py +63 -0
  157. tooluniverse/tools/FAERS_count_seriousness_by_drug_event.py +63 -0
  158. tooluniverse/tools/FDA_get_abuse_dependence_info_by_drug_name.py +55 -0
  159. tooluniverse/tools/FDA_get_abuse_info_by_drug_name.py +55 -0
  160. tooluniverse/tools/FDA_get_accessories_info_by_drug_name.py +55 -0
  161. tooluniverse/tools/FDA_get_active_ingredient_info_by_drug_name.py +55 -0
  162. tooluniverse/tools/FDA_get_adverse_reactions_by_drug_name.py +55 -0
  163. tooluniverse/tools/FDA_get_alarms_by_drug_name.py +55 -0
  164. tooluniverse/tools/FDA_get_animal_pharmacology_info_by_drug_name.py +55 -0
  165. tooluniverse/tools/FDA_get_assembly_installation_info_by_drug_name.py +55 -0
  166. tooluniverse/tools/FDA_get_boxed_warning_info_by_drug_name.py +55 -0
  167. tooluniverse/tools/FDA_get_brand_name_generic_name.py +52 -0
  168. tooluniverse/tools/FDA_get_calibration_instructions_by_drug_name.py +55 -0
  169. tooluniverse/tools/FDA_get_carcinogenic_mutagenic_fertility_by_drug_name.py +55 -0
  170. tooluniverse/tools/FDA_get_child_safety_info_by_drug_name.py +55 -0
  171. tooluniverse/tools/FDA_get_clinical_pharmacology_by_drug_name.py +55 -0
  172. tooluniverse/tools/FDA_get_clinical_studies_info_by_drug_name.py +55 -0
  173. tooluniverse/tools/FDA_get_contact_for_questions_info_by_drug_name.py +55 -0
  174. tooluniverse/tools/FDA_get_contraindications_by_drug_name.py +55 -0
  175. tooluniverse/tools/FDA_get_controlled_substance_DEA_schedule_info_by_drug_name.py +55 -0
  176. tooluniverse/tools/FDA_get_dear_health_care_provider_letter_info_by_drug_name.py +55 -0
  177. tooluniverse/tools/FDA_get_dependence_info_by_drug_name.py +55 -0
  178. tooluniverse/tools/FDA_get_disposal_info_by_drug_name.py +55 -0
  179. tooluniverse/tools/FDA_get_do_not_use_info_by_drug_name.py +55 -0
  180. tooluniverse/tools/FDA_get_document_id_by_drug_name.py +55 -0
  181. tooluniverse/tools/FDA_get_dosage_and_storage_information_by_drug_name.py +55 -0
  182. tooluniverse/tools/FDA_get_dosage_forms_and_strengths_by_drug_name.py +55 -0
  183. tooluniverse/tools/FDA_get_drug_generic_name.py +46 -0
  184. tooluniverse/tools/FDA_get_drug_interactions_by_drug_name.py +55 -0
  185. tooluniverse/tools/FDA_get_drug_name_by_SPL_ID.py +55 -0
  186. tooluniverse/tools/FDA_get_drug_name_by_adverse_reaction.py +59 -0
  187. tooluniverse/tools/FDA_get_drug_name_by_calibration_instructions.py +59 -0
  188. tooluniverse/tools/FDA_get_drug_name_by_dependence_info.py +59 -0
  189. tooluniverse/tools/FDA_get_drug_name_by_document_id.py +55 -0
  190. tooluniverse/tools/FDA_get_drug_name_by_dosage_info.py +55 -0
  191. tooluniverse/tools/FDA_get_drug_name_by_environmental_warning.py +59 -0
  192. tooluniverse/tools/FDA_get_drug_name_by_inactive_ingredient.py +59 -0
  193. tooluniverse/tools/FDA_get_drug_name_by_info_on_conditions_for_doctor_consultation.py +55 -0
  194. tooluniverse/tools/FDA_get_drug_name_by_labor_and_delivery_info.py +59 -0
  195. tooluniverse/tools/FDA_get_drug_name_by_microbiology.py +59 -0
  196. tooluniverse/tools/FDA_get_drug_name_by_other_safety_info.py +55 -0
  197. tooluniverse/tools/FDA_get_drug_name_by_pharmacodynamics.py +59 -0
  198. tooluniverse/tools/FDA_get_drug_name_by_pharmacogenomics.py +59 -0
  199. tooluniverse/tools/FDA_get_drug_name_by_precautions.py +55 -0
  200. tooluniverse/tools/FDA_get_drug_name_by_pregnancy_or_breastfeeding_info.py +59 -0
  201. tooluniverse/tools/FDA_get_drug_name_by_principal_display_panel.py +59 -0
  202. tooluniverse/tools/FDA_get_drug_name_by_reference.py +55 -0
  203. tooluniverse/tools/FDA_get_drug_name_by_set_id.py +55 -0
  204. tooluniverse/tools/FDA_get_drug_name_by_stop_use_info.py +55 -0
  205. tooluniverse/tools/FDA_get_drug_name_by_storage_and_handling_info.py +55 -0
  206. tooluniverse/tools/FDA_get_drug_name_by_warnings.py +55 -0
  207. tooluniverse/tools/FDA_get_drug_name_from_patient_package_insert.py +59 -0
  208. tooluniverse/tools/FDA_get_drug_names_by_abuse_dependence_info.py +55 -0
  209. tooluniverse/tools/FDA_get_drug_names_by_abuse_info.py +63 -0
  210. tooluniverse/tools/FDA_get_drug_names_by_accessories.py +63 -0
  211. tooluniverse/tools/FDA_get_drug_names_by_active_ingredient.py +63 -0
  212. tooluniverse/tools/FDA_get_drug_names_by_alarm.py +63 -0
  213. tooluniverse/tools/FDA_get_drug_names_by_animal_pharmacology_info.py +63 -0
  214. tooluniverse/tools/FDA_get_drug_names_by_application_number_NDC_number.py +59 -0
  215. tooluniverse/tools/FDA_get_drug_names_by_assembly_installation_info.py +63 -0
  216. tooluniverse/tools/FDA_get_drug_names_by_boxed_warning.py +63 -0
  217. tooluniverse/tools/FDA_get_drug_names_by_child_safety_info.py +63 -0
  218. tooluniverse/tools/FDA_get_drug_names_by_clinical_pharmacology.py +63 -0
  219. tooluniverse/tools/FDA_get_drug_names_by_clinical_studies.py +63 -0
  220. tooluniverse/tools/FDA_get_drug_names_by_consulting_doctor_pharmacist_info.py +63 -0
  221. tooluniverse/tools/FDA_get_drug_names_by_contraindications.py +63 -0
  222. tooluniverse/tools/FDA_get_drug_names_by_controlled_substance_DEA_schedule.py +63 -0
  223. tooluniverse/tools/FDA_get_drug_names_by_dear_health_care_provider_letter_info.py +63 -0
  224. tooluniverse/tools/FDA_get_drug_names_by_disposal_info.py +63 -0
  225. tooluniverse/tools/FDA_get_drug_names_by_dosage_forms_and_strengths_info.py +63 -0
  226. tooluniverse/tools/FDA_get_drug_names_by_drug_interactions.py +63 -0
  227. tooluniverse/tools/FDA_get_drug_names_by_effective_time.py +63 -0
  228. tooluniverse/tools/FDA_get_drug_names_by_food_safety_warnings.py +63 -0
  229. tooluniverse/tools/FDA_get_drug_names_by_general_precautions.py +63 -0
  230. tooluniverse/tools/FDA_get_drug_names_by_geriatric_use.py +63 -0
  231. tooluniverse/tools/FDA_get_drug_names_by_health_claim.py +63 -0
  232. tooluniverse/tools/FDA_get_drug_names_by_indication.py +55 -0
  233. tooluniverse/tools/FDA_get_drug_names_by_info_for_nursing_mothers.py +63 -0
  234. tooluniverse/tools/FDA_get_drug_names_by_information_for_owners_or_caregivers.py +63 -0
  235. tooluniverse/tools/FDA_get_drug_names_by_ingredient.py +63 -0
  236. tooluniverse/tools/FDA_get_drug_names_by_instructions_for_use.py +63 -0
  237. tooluniverse/tools/FDA_get_drug_names_by_lab_test_interference.py +63 -0
  238. tooluniverse/tools/FDA_get_drug_names_by_lab_tests.py +63 -0
  239. tooluniverse/tools/FDA_get_drug_names_by_mechanism_of_action.py +63 -0
  240. tooluniverse/tools/FDA_get_drug_names_by_medication_guide.py +63 -0
  241. tooluniverse/tools/FDA_get_drug_names_by_nonclinical_toxicology_info.py +63 -0
  242. tooluniverse/tools/FDA_get_drug_names_by_nonteratogenic_effects.py +63 -0
  243. tooluniverse/tools/FDA_get_drug_names_by_overdosage_info.py +63 -0
  244. tooluniverse/tools/FDA_get_drug_names_by_pediatric_use.py +63 -0
  245. tooluniverse/tools/FDA_get_drug_names_by_pharmacokinetics.py +63 -0
  246. tooluniverse/tools/FDA_get_drug_names_by_population_use.py +63 -0
  247. tooluniverse/tools/FDA_get_drug_names_by_pregnancy_effects_info.py +63 -0
  248. tooluniverse/tools/FDA_get_drug_names_by_residue_warning.py +63 -0
  249. tooluniverse/tools/FDA_get_drug_names_by_risk.py +63 -0
  250. tooluniverse/tools/FDA_get_drug_names_by_route.py +63 -0
  251. tooluniverse/tools/FDA_get_drug_names_by_safe_handling_warning.py +63 -0
  252. tooluniverse/tools/FDA_get_drug_names_by_safety_summary.py +63 -0
  253. tooluniverse/tools/FDA_get_drug_names_by_spl_indexing_data_elements.py +63 -0
  254. tooluniverse/tools/FDA_get_drug_names_by_teratogenic_effects.py +63 -0
  255. tooluniverse/tools/FDA_get_drug_names_by_user_safety_warning.py +63 -0
  256. tooluniverse/tools/FDA_get_drug_names_by_warnings_and_cautions.py +63 -0
  257. tooluniverse/tools/FDA_get_drugs_by_carcinogenic_mutagenic_fertility.py +63 -0
  258. tooluniverse/tools/FDA_get_effective_time_by_drug_name.py +55 -0
  259. tooluniverse/tools/FDA_get_environmental_warning_by_drug_name.py +55 -0
  260. tooluniverse/tools/FDA_get_general_precautions_by_drug_name.py +55 -0
  261. tooluniverse/tools/FDA_get_geriatric_use_info_by_drug_name.py +55 -0
  262. tooluniverse/tools/FDA_get_health_claims_by_drug_name.py +55 -0
  263. tooluniverse/tools/FDA_get_inactive_ingredient_info_by_drug_name.py +55 -0
  264. tooluniverse/tools/FDA_get_indications_by_drug_name.py +55 -0
  265. tooluniverse/tools/FDA_get_info_for_nursing_mothers_by_drug_name.py +55 -0
  266. tooluniverse/tools/FDA_get_info_for_patients_by_drug_name.py +55 -0
  267. tooluniverse/tools/FDA_get_info_on_conditions_for_doctor_consultation_by_drug_name.py +55 -0
  268. tooluniverse/tools/FDA_get_info_on_consulting_doctor_pharmacist_by_drug_name.py +55 -0
  269. tooluniverse/tools/FDA_get_information_for_owners_or_caregivers_by_drug_name.py +55 -0
  270. tooluniverse/tools/FDA_get_ingredients_by_drug_name.py +55 -0
  271. tooluniverse/tools/FDA_get_instructions_for_use_by_drug_name.py +55 -0
  272. tooluniverse/tools/FDA_get_lab_test_interference_info_by_drug_name.py +55 -0
  273. tooluniverse/tools/FDA_get_lab_tests_by_drug_name.py +55 -0
  274. tooluniverse/tools/FDA_get_labor_and_delivery_info_by_drug_name.py +55 -0
  275. tooluniverse/tools/FDA_get_manufacturer_name_NDC_number_by_drug_name.py +55 -0
  276. tooluniverse/tools/FDA_get_mechanism_of_action_by_drug_name.py +55 -0
  277. tooluniverse/tools/FDA_get_medication_guide_info_by_drug_name.py +55 -0
  278. tooluniverse/tools/FDA_get_microbiology_info_by_drug_name.py +55 -0
  279. tooluniverse/tools/FDA_get_nonclinical_toxicology_info_by_drug_name.py +55 -0
  280. tooluniverse/tools/FDA_get_nonteratogenic_effects_by_drug_name.py +55 -0
  281. tooluniverse/tools/FDA_get_other_safety_info_by_drug_name.py +55 -0
  282. tooluniverse/tools/FDA_get_overdosage_info_by_drug_name.py +55 -0
  283. tooluniverse/tools/FDA_get_patient_package_insert_from_drug_name.py +55 -0
  284. tooluniverse/tools/FDA_get_pediatric_use_info_by_drug_name.py +55 -0
  285. tooluniverse/tools/FDA_get_pharmacodynamics_by_drug_name.py +55 -0
  286. tooluniverse/tools/FDA_get_pharmacogenomics_info_by_drug_name.py +55 -0
  287. tooluniverse/tools/FDA_get_pharmacokinetics_by_drug_name.py +55 -0
  288. tooluniverse/tools/FDA_get_population_use_info_by_drug_name.py +55 -0
  289. tooluniverse/tools/FDA_get_precautions_by_drug_name.py +55 -0
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  574. tooluniverse/tools/get_diffdock_info.py +46 -0
  575. tooluniverse/tools/get_dscribe_info.py +49 -0
  576. tooluniverse/tools/get_ec_number_by_entity_id.py +46 -0
  577. tooluniverse/tools/get_elephant_info.py +44 -0
  578. tooluniverse/tools/get_em_3d_fitting_and_reconstruction_details.py +49 -0
  579. tooluniverse/tools/get_emdb_ids_by_pdb_id.py +46 -0
  580. tooluniverse/tools/get_episcanpy_info.py +44 -0
  581. tooluniverse/tools/get_ete3_info.py +44 -0
  582. tooluniverse/tools/get_faiss_info.py +46 -0
  583. tooluniverse/tools/get_fanc_info.py +46 -0
  584. tooluniverse/tools/get_flask_info.py +46 -0
  585. tooluniverse/tools/get_flowio_info.py +46 -0
  586. tooluniverse/tools/get_flowkit_info.py +46 -0
  587. tooluniverse/tools/get_flowutils_info.py +46 -0
  588. tooluniverse/tools/get_freesasa_info.py +44 -0
  589. tooluniverse/tools/get_galpy_info.py +44 -0
  590. tooluniverse/tools/get_gene_name_by_entity_id.py +46 -0
  591. tooluniverse/tools/get_geopandas_info.py +44 -0
  592. tooluniverse/tools/get_gget_info.py +46 -0
  593. tooluniverse/tools/get_googlesearch_python_info.py +46 -0
  594. tooluniverse/tools/get_gseapy_info.py +49 -0
  595. tooluniverse/tools/get_h5py_info.py +46 -0
  596. tooluniverse/tools/get_harmony_pytorch_info.py +46 -0
  597. tooluniverse/tools/get_hmmlearn_info.py +46 -0
  598. tooluniverse/tools/get_holoviews_info.py +44 -0
  599. tooluniverse/tools/get_host_organism_by_pdb_id.py +46 -0
  600. tooluniverse/tools/get_htmd_info.py +44 -0
  601. tooluniverse/tools/get_hyperopt_info.py +49 -0
  602. tooluniverse/tools/get_igraph_info.py +49 -0
  603. tooluniverse/tools/get_imageio_info.py +44 -0
  604. tooluniverse/tools/get_imbalanced_learn_info.py +44 -0
  605. tooluniverse/tools/get_jcvi_info.py +46 -0
  606. tooluniverse/tools/get_joblib_info.py +44 -0
  607. tooluniverse/tools/get_joint_associated_diseases_by_HPO_ID_list.py +55 -0
  608. tooluniverse/tools/get_khmer_info.py +46 -0
  609. tooluniverse/tools/get_kipoiseq_info.py +44 -0
  610. tooluniverse/tools/get_lifelines_info.py +49 -0
  611. tooluniverse/tools/get_ligand_bond_count_by_pdb_id.py +46 -0
  612. tooluniverse/tools/get_ligand_smiles_by_chem_comp_id.py +49 -0
  613. tooluniverse/tools/get_lightgbm_info.py +44 -0
  614. tooluniverse/tools/get_loompy_info.py +46 -0
  615. tooluniverse/tools/get_mageck_info.py +46 -0
  616. tooluniverse/tools/get_matplotlib_info.py +49 -0
  617. tooluniverse/tools/get_mdanalysis_info.py +46 -0
  618. tooluniverse/tools/get_mdtraj_info.py +44 -0
  619. tooluniverse/tools/get_mne_info.py +44 -0
  620. tooluniverse/tools/get_molfeat_info.py +44 -0
  621. tooluniverse/tools/get_molvs_info.py +44 -0
  622. tooluniverse/tools/get_mordred_info.py +44 -0
  623. tooluniverse/tools/get_msprime_info.py +49 -0
  624. tooluniverse/tools/get_mudata_info.py +49 -0
  625. tooluniverse/tools/get_mutation_annotations_by_pdb_id.py +46 -0
  626. tooluniverse/tools/get_neo_info.py +44 -0
  627. tooluniverse/tools/get_netcdf4_info.py +44 -0
  628. tooluniverse/tools/get_networkx_info.py +46 -0
  629. tooluniverse/tools/get_nglview_info.py +44 -0
  630. tooluniverse/tools/get_nilearn_info.py +44 -0
  631. tooluniverse/tools/get_numba_info.py +46 -0
  632. tooluniverse/tools/get_numpy_info.py +46 -0
  633. tooluniverse/tools/get_oligosaccharide_descriptors_by_entity_id.py +49 -0
  634. tooluniverse/tools/get_openbabel_info.py +49 -0
  635. tooluniverse/tools/get_openchem_info.py +46 -0
  636. tooluniverse/tools/get_opencv_info.py +49 -0
  637. tooluniverse/tools/get_openmm_info.py +49 -0
  638. tooluniverse/tools/get_optlang_info.py +46 -0
  639. tooluniverse/tools/get_optuna_info.py +44 -0
  640. tooluniverse/tools/get_palantir_info.py +44 -0
  641. tooluniverse/tools/get_pandas_info.py +49 -0
  642. tooluniverse/tools/get_patsy_info.py +44 -0
  643. tooluniverse/tools/get_pdbfixer_info.py +46 -0
  644. tooluniverse/tools/get_phenotype_by_HPO_ID.py +46 -0
  645. tooluniverse/tools/get_pillow_info.py +44 -0
  646. tooluniverse/tools/get_plantcv_info.py +46 -0
  647. tooluniverse/tools/get_plip_info.py +46 -0
  648. tooluniverse/tools/get_plotly_info.py +44 -0
  649. tooluniverse/tools/get_poliastro_info.py +46 -0
  650. tooluniverse/tools/get_polymer_entity_annotations.py +49 -0
  651. tooluniverse/tools/get_polymer_entity_count_by_pdb_id.py +46 -0
  652. tooluniverse/tools/get_polymer_entity_ids_by_pdb_id.py +46 -0
  653. tooluniverse/tools/get_polymer_entity_type_by_entity_id.py +49 -0
  654. tooluniverse/tools/get_polymer_molecular_weight_by_entity_id.py +49 -0
  655. tooluniverse/tools/get_poretools_info.py +44 -0
  656. tooluniverse/tools/get_prody_info.py +46 -0
  657. tooluniverse/tools/get_protein_classification_by_pdb_id.py +49 -0
  658. tooluniverse/tools/get_protein_metadata_by_pdb_id.py +46 -0
  659. tooluniverse/tools/get_pubchempy_info.py +44 -0
  660. tooluniverse/tools/get_pybedtools_info.py +49 -0
  661. tooluniverse/tools/get_pybigwig_info.py +46 -0
  662. tooluniverse/tools/get_pydeseq2_info.py +46 -0
  663. tooluniverse/tools/get_pyensembl_info.py +44 -0
  664. tooluniverse/tools/get_pyephem_info.py +44 -0
  665. tooluniverse/tools/get_pyfaidx_info.py +49 -0
  666. tooluniverse/tools/get_pyfasta_info.py +44 -0
  667. tooluniverse/tools/get_pykalman_info.py +46 -0
  668. tooluniverse/tools/get_pyliftover_info.py +49 -0
  669. tooluniverse/tools/get_pymassspec_info.py +46 -0
  670. tooluniverse/tools/get_pymed_info.py +46 -0
  671. tooluniverse/tools/get_pymzml_info.py +46 -0
  672. tooluniverse/tools/get_pypdf2_info.py +46 -0
  673. tooluniverse/tools/get_pyranges_info.py +49 -0
  674. tooluniverse/tools/get_pyrosetta_info.py +44 -0
  675. tooluniverse/tools/get_pysam_info.py +46 -0
  676. tooluniverse/tools/get_pyscenic_info.py +46 -0
  677. tooluniverse/tools/get_pyscf_info.py +46 -0
  678. tooluniverse/tools/get_pyscreener_info.py +46 -0
  679. tooluniverse/tools/get_pytdc_info.py +46 -0
  680. tooluniverse/tools/get_python_libsbml_info.py +46 -0
  681. tooluniverse/tools/get_pytorch_info.py +49 -0
  682. tooluniverse/tools/get_pyvcf_info.py +44 -0
  683. tooluniverse/tools/get_pyvis_info.py +44 -0
  684. tooluniverse/tools/get_qutip_info.py +44 -0
  685. tooluniverse/tools/get_rasterio_info.py +44 -0
  686. tooluniverse/tools/get_rdkit_info.py +46 -0
  687. tooluniverse/tools/get_refinement_resolution_by_pdb_id.py +49 -0
  688. tooluniverse/tools/get_release_deposit_dates_by_pdb_id.py +49 -0
  689. tooluniverse/tools/get_reportlab_info.py +49 -0
  690. tooluniverse/tools/get_requests_info.py +49 -0
  691. tooluniverse/tools/get_ruptures_info.py +46 -0
  692. tooluniverse/tools/get_scanorama_info.py +44 -0
  693. tooluniverse/tools/get_scanpy_info.py +49 -0
  694. tooluniverse/tools/get_schnetpack_info.py +49 -0
  695. tooluniverse/tools/get_scholarly_info.py +46 -0
  696. tooluniverse/tools/get_scikit_bio_info.py +49 -0
  697. tooluniverse/tools/get_scikit_image_info.py +46 -0
  698. tooluniverse/tools/get_scikit_learn_info.py +49 -0
  699. tooluniverse/tools/get_scipy_info.py +46 -0
  700. tooluniverse/tools/get_scrublet_info.py +49 -0
  701. tooluniverse/tools/get_scvelo_info.py +49 -0
  702. tooluniverse/tools/get_scvi_tools_info.py +44 -0
  703. tooluniverse/tools/get_seaborn_info.py +49 -0
  704. tooluniverse/tools/get_sequence_by_pdb_id.py +46 -0
  705. tooluniverse/tools/get_sequence_lengths_by_pdb_id.py +46 -0
  706. tooluniverse/tools/get_sequence_positional_features_by_instance_id.py +49 -0
  707. tooluniverse/tools/get_skopt_info.py +44 -0
  708. tooluniverse/tools/get_souporcell_info.py +46 -0
  709. tooluniverse/tools/get_source_organism_by_pdb_id.py +46 -0
  710. tooluniverse/tools/get_space_group_by_pdb_id.py +46 -0
  711. tooluniverse/tools/get_statsmodels_info.py +49 -0
  712. tooluniverse/tools/get_structure_determination_software_by_pdb_id.py +49 -0
  713. tooluniverse/tools/get_structure_title_by_pdb_id.py +46 -0
  714. tooluniverse/tools/get_structure_validation_metrics_by_pdb_id.py +49 -0
  715. tooluniverse/tools/get_sunpy_info.py +44 -0
  716. tooluniverse/tools/get_sympy_info.py +46 -0
  717. tooluniverse/tools/get_target_cofactor_info.py +46 -0
  718. tooluniverse/tools/get_taxonomy_by_pdb_id.py +46 -0
  719. tooluniverse/tools/get_tiledb_info.py +46 -0
  720. tooluniverse/tools/get_tiledbsoma_info.py +46 -0
  721. tooluniverse/tools/get_torch_geometric_info.py +49 -0
  722. tooluniverse/tools/get_tqdm_info.py +46 -0
  723. tooluniverse/tools/get_trackpy_info.py +46 -0
  724. tooluniverse/tools/get_tskit_info.py +46 -0
  725. tooluniverse/tools/get_umap_learn_info.py +49 -0
  726. tooluniverse/tools/get_uniprot_accession_by_entity_id.py +49 -0
  727. tooluniverse/tools/get_velocyto_info.py +44 -0
  728. tooluniverse/tools/get_viennarna_info.py +49 -0
  729. tooluniverse/tools/get_webpage_text_from_url.py +52 -0
  730. tooluniverse/tools/get_webpage_title.py +49 -0
  731. tooluniverse/tools/get_xarray_info.py +44 -0
  732. tooluniverse/tools/get_xesmf_info.py +44 -0
  733. tooluniverse/tools/get_xgboost_info.py +44 -0
  734. tooluniverse/tools/get_zarr_info.py +44 -0
  735. tooluniverse/tools/gwas_get_association_by_id.py +49 -0
  736. tooluniverse/tools/gwas_get_associations_for_snp.py +67 -0
  737. tooluniverse/tools/gwas_get_associations_for_study.py +55 -0
  738. tooluniverse/tools/gwas_get_associations_for_trait.py +55 -0
  739. tooluniverse/tools/gwas_get_snp_by_id.py +46 -0
  740. tooluniverse/tools/gwas_get_snps_for_gene.py +55 -0
  741. tooluniverse/tools/gwas_get_studies_for_trait.py +75 -0
  742. tooluniverse/tools/gwas_get_study_by_id.py +46 -0
  743. tooluniverse/tools/gwas_get_variants_for_trait.py +55 -0
  744. tooluniverse/tools/gwas_search_associations.py +75 -0
  745. tooluniverse/tools/gwas_search_snps.py +63 -0
  746. tooluniverse/tools/gwas_search_studies.py +75 -0
  747. tooluniverse/tools/humanbase_ppi_analysis.py +67 -0
  748. tooluniverse/tools/mesh_get_subjects_by_pharmacological_action.py +63 -0
  749. tooluniverse/tools/mesh_get_subjects_by_subject_id.py +63 -0
  750. tooluniverse/tools/mesh_get_subjects_by_subject_name.py +63 -0
  751. tooluniverse/tools/mesh_get_subjects_by_subject_scope_or_definition.py +63 -0
  752. tooluniverse/tools/odphp_itemlist.py +49 -0
  753. tooluniverse/tools/odphp_myhealthfinder.py +67 -0
  754. tooluniverse/tools/odphp_outlink_fetch.py +59 -0
  755. tooluniverse/tools/odphp_topicsearch.py +67 -0
  756. tooluniverse/tools/openalex_literature_search.py +67 -0
  757. tooluniverse/tools/reactome_disease_target_score.py +52 -0
  758. tooluniverse/tools/search_clinical_trials.py +67 -0
  759. tooluniverse/tools/visualize_molecule_2d.py +83 -0
  760. tooluniverse/tools/visualize_molecule_3d.py +91 -0
  761. tooluniverse/tools/visualize_protein_structure_3d.py +79 -0
  762. tooluniverse/unified_guideline_tools.py +1210 -0
  763. tooluniverse/unpaywall_tool.py +0 -1
  764. tooluniverse/utils.py +71 -2
  765. tooluniverse/visualization_tool.py +897 -0
  766. tooluniverse/wikidata_sparql_tool.py +1 -2
  767. tooluniverse/zenodo_tool.py +1 -3
  768. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.7.dist-info}/METADATA +11 -2
  769. tooluniverse-1.0.7.dist-info/RECORD +855 -0
  770. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.7.dist-info}/entry_points.txt +3 -0
  771. tooluniverse/test/list_azure_openai_models.py +0 -210
  772. tooluniverse/test/mcp_server_test.py +0 -0
  773. tooluniverse/test/test_admetai_tool.py +0 -370
  774. tooluniverse/test/test_agentic_tool.py +0 -129
  775. tooluniverse/test/test_agentic_tool_azure_models.py +0 -91
  776. tooluniverse/test/test_alphafold_tool.py +0 -108
  777. tooluniverse/test/test_api_key_validation_min.py +0 -64
  778. tooluniverse/test/test_chem_tool.py +0 -37
  779. tooluniverse/test/test_claude_sdk.py +0 -93
  780. tooluniverse/test/test_compose_lieraturereview.py +0 -63
  781. tooluniverse/test/test_compose_tool.py +0 -448
  782. tooluniverse/test/test_dailymed.py +0 -69
  783. tooluniverse/test/test_dataset_tool.py +0 -200
  784. tooluniverse/test/test_disease_target_score.py +0 -56
  785. tooluniverse/test/test_drugbank_filter_examples.py +0 -179
  786. tooluniverse/test/test_efo.py +0 -31
  787. tooluniverse/test/test_enrichr_tool.py +0 -21
  788. tooluniverse/test/test_europe_pmc_tool.py +0 -20
  789. tooluniverse/test/test_fda_adv.py +0 -95
  790. tooluniverse/test/test_fda_drug_labeling.py +0 -91
  791. tooluniverse/test/test_gene_ontology_tools.py +0 -66
  792. tooluniverse/test/test_global_fallback.py +0 -288
  793. tooluniverse/test/test_gwas_tool.py +0 -139
  794. tooluniverse/test/test_hooks_direct.py +0 -219
  795. tooluniverse/test/test_hpa.py +0 -625
  796. tooluniverse/test/test_humanbase_tool.py +0 -20
  797. tooluniverse/test/test_idmap_tools.py +0 -61
  798. tooluniverse/test/test_list_built_in_tools.py +0 -33
  799. tooluniverse/test/test_mcp_server.py +0 -211
  800. tooluniverse/test/test_mcp_tool.py +0 -247
  801. tooluniverse/test/test_medlineplus.py +0 -220
  802. tooluniverse/test/test_odphp_tool.py +0 -166
  803. tooluniverse/test/test_openalex_tool.py +0 -32
  804. tooluniverse/test/test_openrouter_client.py +0 -288
  805. tooluniverse/test/test_opentargets.py +0 -28
  806. tooluniverse/test/test_pubchem_tool.py +0 -116
  807. tooluniverse/test/test_pubtator_tool.py +0 -37
  808. tooluniverse/test/test_rcsb_pdb_tool.py +0 -86
  809. tooluniverse/test/test_reactome.py +0 -54
  810. tooluniverse/test/test_semantic_scholar_tool.py +0 -24
  811. tooluniverse/test/test_software_tools.py +0 -147
  812. tooluniverse/test/test_stdio_hooks.py +0 -285
  813. tooluniverse/test/test_tool_description_optimizer.py +0 -49
  814. tooluniverse/test/test_tool_finder.py +0 -26
  815. tooluniverse/test/test_tool_finder_llm.py +0 -252
  816. tooluniverse/test/test_tools_find.py +0 -195
  817. tooluniverse/test/test_uniprot_tools.py +0 -74
  818. tooluniverse/test/test_uspto_tool.py +0 -72
  819. tooluniverse/test/test_xml_tool.py +0 -113
  820. tooluniverse-1.0.6.dist-info/RECORD +0 -230
  821. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.7.dist-info}/WHEEL +0 -0
  822. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.7.dist-info}/licenses/LICENSE +0 -0
  823. {tooluniverse-1.0.6.dist-info → tooluniverse-1.0.7.dist-info}/top_level.txt +0 -0
@@ -1,1439 +1,1524 @@
1
1
  [
2
- {
3
- "name": "OpenTargets_get_associated_targets_by_disease_efoId",
4
- "description": "Find targets associated with a specific disease or phenotype based on efoId.",
5
- "label": [
6
- "Disease",
7
- "Phenotype",
8
- "Target",
9
- "Association",
10
- "OpenTarget",
11
- "GraphQL"
12
- ],
13
- "parameter": {
14
- "type": "object",
15
- "properties": {
16
- "efoId": {
17
- "type": "string",
18
- "description": "The efoId of a disease or phenotype.",
19
- "required": true
20
- }
21
- }
22
- },
23
- "query_schema": "\nquery associatedTargets($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n associatedTargets {\n count\n rows {\n target {\n id\n approvedSymbol\n }\n score\n }\n }\n }\n}\n",
24
- "type": "OpenTarget"
2
+ {
3
+ "name": "OpenTargets_get_associated_targets_by_disease_efoId",
4
+ "description": "Find targets associated with a specific disease or phenotype based on efoId.",
5
+ "label": [
6
+ "Disease",
7
+ "Phenotype",
8
+ "Target",
9
+ "Association",
10
+ "OpenTarget",
11
+ "GraphQL"
12
+ ],
13
+ "parameter": {
14
+ "type": "object",
15
+ "properties": {
16
+ "efoId": {
17
+ "type": "string",
18
+ "description": "The efoId of a disease or phenotype."
19
+ }
20
+ },
21
+ "required": [
22
+ "efoId"
23
+ ]
25
24
  },
26
- {
27
- "name": "OpenTargets_get_diseases_phenotypes_by_target_ensembl",
28
- "description": "Find diseases or phenotypes associated with a specific target using ensemblId.",
29
- "label": [
30
- "Target",
31
- "Disease",
32
- "Phenotype",
33
- "Association",
34
- "OpenTarget",
35
- "GraphQL"
36
- ],
37
- "parameter": {
38
- "type": "object",
39
- "properties": {
40
- "ensemblId": {
41
- "type": "string",
42
- "description": "The ensemblId of a target.",
43
- "required": true
44
- }
45
- }
46
- },
47
- "query_schema": "\nquery associatedDiseases($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n associatedDiseases {\n count\n rows {\n disease {\n id\n name\n }\n datasourceScores {\n id\n score\n }\n }\n }\n }\n}\n",
48
- "type": "OpenTarget"
25
+ "query_schema": "\nquery associatedTargets($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n associatedTargets {\n count\n rows {\n target {\n id\n approvedSymbol\n }\n score\n }\n }\n }\n}\n",
26
+ "type": "OpenTarget"
27
+ },
28
+ {
29
+ "name": "OpenTargets_get_diseases_phenotypes_by_target_ensembl",
30
+ "description": "Find diseases or phenotypes associated with a specific target using ensemblId.",
31
+ "label": [
32
+ "Target",
33
+ "Disease",
34
+ "Phenotype",
35
+ "Association",
36
+ "OpenTarget",
37
+ "GraphQL"
38
+ ],
39
+ "parameter": {
40
+ "type": "object",
41
+ "properties": {
42
+ "ensemblId": {
43
+ "type": "string",
44
+ "description": "The ensemblId of a target."
45
+ }
46
+ },
47
+ "required": [
48
+ "ensemblId"
49
+ ]
49
50
  },
50
- {
51
- "name": "OpenTargets_target_disease_evidence",
52
- "description": "Explore evidence that supports a specific target-disease association. Input is disease efoId and target ensemblID.",
53
- "label": [
54
- "Target",
55
- "Disease",
56
- "Evidence",
57
- "Association",
58
- "OpenTarget",
59
- "GraphQL"
60
- ],
61
- "parameter": {
62
- "type": "object",
63
- "properties": {
64
- "efoId": {
65
- "type": "string",
66
- "description": "The efoId of a disease or phenotype.",
67
- "required": true
68
- },
69
- "ensemblId": {
70
- "type": "string",
71
- "description": "The ensemblId of a target.",
72
- "required": true
73
- }
74
- }
51
+ "query_schema": "\nquery associatedDiseases($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n associatedDiseases {\n count\n rows {\n disease {\n id\n name\n }\n datasourceScores {\n id\n score\n }\n }\n }\n }\n}\n",
52
+ "type": "OpenTarget"
53
+ },
54
+ {
55
+ "name": "OpenTargets_target_disease_evidence",
56
+ "description": "Explore evidence that supports a specific target-disease association. Input is disease efoId and target ensemblID.",
57
+ "label": [
58
+ "Target",
59
+ "Disease",
60
+ "Evidence",
61
+ "Association",
62
+ "OpenTarget",
63
+ "GraphQL"
64
+ ],
65
+ "parameter": {
66
+ "type": "object",
67
+ "properties": {
68
+ "efoId": {
69
+ "type": "string",
70
+ "description": "The efoId of a disease or phenotype."
75
71
  },
76
- "query_schema": "\nquery targetDiseaseEvidence($efoId: String!, $ensemblId: String!) {\n disease(efoId: $efoId) {\n id\n name\n evidences(datasourceIds: [\"intogen\"], ensemblIds: [$ensemblId]) {\n count\n rows {\n disease {\n id\n name\n }\n diseaseFromSource\n target {\n id\n approvedSymbol\n }\n mutatedSamples {\n functionalConsequence {\n id\n label\n }\n numberSamplesTested\n numberMutatedSamples\n }\n resourceScore\n significantDriverMethods\n cohortId\n cohortShortName\n cohortDescription\n }\n }\n }\n}\n",
77
- "type": "OpenTarget"
72
+ "ensemblId": {
73
+ "type": "string",
74
+ "description": "The ensemblId of a target."
75
+ }
76
+ },
77
+ "required": [
78
+ "efoId",
79
+ "ensemblId"
80
+ ]
78
81
  },
79
- {
80
- "name": "OpenTargets_get_drug_warnings_by_chemblId",
81
- "description": "Retrieve warnings for a specific drug using ChEMBL ID.",
82
- "parameter": {
83
- "type": "object",
84
- "properties": {
85
- "chemblId": {
86
- "type": "string",
87
- "description": "The ChEMBL ID of the drug.",
88
- "required": true
89
- }
90
- }
91
- },
92
- "query_schema": "\n query drugWarnings($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n drugWarnings {\n warningType\n description\n country\n year\n toxicityClass\n chemblIds\n efoIdForWarningClass\n references {\n id\n source\n url\n }\n }\n }\n }\n ",
93
- "label": [
94
- "Drug",
95
- "AdverseEvents",
96
- "SafetyLiability",
97
- "OpenTarget",
98
- "GraphQL",
99
- "Warnings",
100
- "Safety",
101
- "Withdrawal",
102
- "Toxicity"
103
- ],
104
- "type": "OpenTarget"
82
+ "query_schema": "\nquery targetDiseaseEvidence($efoId: String!, $ensemblId: String!) {\n disease(efoId: $efoId) {\n id\n name\n evidences(datasourceIds: [\"intogen\"], ensemblIds: [$ensemblId]) {\n count\n rows {\n disease {\n id\n name\n }\n diseaseFromSource\n target {\n id\n approvedSymbol\n }\n mutatedSamples {\n functionalConsequence {\n id\n label\n }\n numberSamplesTested\n numberMutatedSamples\n }\n resourceScore\n significantDriverMethods\n cohortId\n cohortShortName\n cohortDescription\n }\n }\n }\n}\n",
83
+ "type": "OpenTarget"
84
+ },
85
+ {
86
+ "name": "OpenTargets_get_drug_warnings_by_chemblId",
87
+ "description": "Retrieve warnings for a specific drug using ChEMBL ID.",
88
+ "parameter": {
89
+ "type": "object",
90
+ "properties": {
91
+ "chemblId": {
92
+ "type": "string",
93
+ "description": "The ChEMBL ID of the drug."
94
+ }
95
+ },
96
+ "required": [
97
+ "chemblId"
98
+ ]
105
99
  },
106
- {
107
- "name": "OpenTargets_get_drug_mechanisms_of_action_by_chemblId",
108
- "description": "Retrieve the mechanisms of action associated with a specific drug using chemblId.",
109
- "parameter": {
110
- "type": "object",
111
- "properties": {
112
- "chemblId": {
113
- "type": "string",
114
- "description": "The ChEMBL ID of the drug.",
115
- "required": true
116
- }
117
- }
118
- },
119
- "query_schema": "\n query drugMechanismsOfAction($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n mechanismsOfAction {\n rows {\n mechanismOfAction\n actionType\n targetName\n targets {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
120
- "label": [
121
- "Drug",
122
- "MechanismsOfAction",
123
- "Target",
124
- "Pharmacology",
125
- "ChemblId",
126
- "OpenTarget",
127
- "GraphQL"
128
- ],
129
- "type": "OpenTarget"
100
+ "query_schema": "\n query drugWarnings($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n drugWarnings {\n warningType\n description\n country\n year\n toxicityClass\n chemblIds\n efoIdForWarningClass\n references {\n id\n source\n url\n }\n }\n }\n }\n ",
101
+ "label": [
102
+ "Drug",
103
+ "AdverseEvents",
104
+ "SafetyLiability",
105
+ "OpenTarget",
106
+ "GraphQL",
107
+ "Warnings",
108
+ "Safety",
109
+ "Withdrawal",
110
+ "Toxicity"
111
+ ],
112
+ "type": "OpenTarget"
113
+ },
114
+ {
115
+ "name": "OpenTargets_get_drug_mechanisms_of_action_by_chemblId",
116
+ "description": "Retrieve the mechanisms of action associated with a specific drug using chemblId.",
117
+ "parameter": {
118
+ "type": "object",
119
+ "properties": {
120
+ "chemblId": {
121
+ "type": "string",
122
+ "description": "The ChEMBL ID of the drug."
123
+ }
124
+ },
125
+ "required": [
126
+ "chemblId"
127
+ ]
130
128
  },
131
- {
132
- "name": "OpenTargets_get_associated_drugs_by_disease_efoId",
133
- "description": "Retrieve known drugs associated with a specific disease by disease efoId.",
134
- "parameter": {
135
- "type": "object",
136
- "properties": {
137
- "efoId": {
138
- "type": "string",
139
- "description": "The EFO ID of the disease.",
140
- "required": true
141
- },
142
- "size": {
143
- "type": "integer",
144
- "description": "Number of entries to fetch, recomanding a large number to avoid missing drugs.",
145
- "required": true
146
- }
147
- }
129
+ "query_schema": "\n query drugMechanismsOfAction($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n mechanismsOfAction {\n rows {\n mechanismOfAction\n actionType\n targetName\n targets {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
130
+ "label": [
131
+ "Drug",
132
+ "MechanismsOfAction",
133
+ "Target",
134
+ "Pharmacology",
135
+ "ChemblId",
136
+ "OpenTarget",
137
+ "GraphQL"
138
+ ],
139
+ "type": "OpenTarget"
140
+ },
141
+ {
142
+ "name": "OpenTargets_get_associated_drugs_by_disease_efoId",
143
+ "description": "Retrieve known drugs associated with a specific disease by disease efoId.",
144
+ "parameter": {
145
+ "type": "object",
146
+ "properties": {
147
+ "efoId": {
148
+ "type": "string",
149
+ "description": "The EFO ID of the disease."
148
150
  },
149
- "query_schema": "\n query diseaseKnownDrugs($efoId: String!, $size: Int!, $freeTextQuery: String) {\n disease(efoId: $efoId) {\n id\n name\n knownDrugs(size: $size, freeTextQuery: $freeTextQuery) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
150
- "label": [
151
- "OpenTarget",
152
- "Disease",
153
- "Drug",
154
- "Pagination",
155
- "GraphQL"
156
- ],
157
- "type": "OpenTarget"
151
+ "size": {
152
+ "type": "integer",
153
+ "description": "Number of entries to fetch, recomanding a large number to avoid missing drugs."
154
+ }
155
+ },
156
+ "required": [
157
+ "efoId",
158
+ "size"
159
+ ]
158
160
  },
159
- {
160
- "name": "OpenTargets_get_similar_entities_by_disease_efoId",
161
- "description": "Retrieve similar entities for a given disease efoId using a model trained with PubMed.",
162
- "parameter": {
163
- "type": "object",
164
- "properties": {
165
- "efoId": {
166
- "type": "string",
167
- "description": "The EFO ID of the disease.",
168
- "required": true
169
- },
170
- "threshold": {
171
- "type": "number",
172
- "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
173
- "required": true
174
- },
175
- "size": {
176
- "type": "integer",
177
- "description": "Number of similar entities to fetch.",
178
- "required": true
179
- }
180
- }
161
+ "query_schema": "\n query diseaseKnownDrugs($efoId: String!, $size: Int!, $freeTextQuery: String) {\n disease(efoId: $efoId) {\n id\n name\n knownDrugs(size: $size, freeTextQuery: $freeTextQuery) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
162
+ "label": [
163
+ "OpenTarget",
164
+ "Disease",
165
+ "Drug",
166
+ "Pagination",
167
+ "GraphQL"
168
+ ],
169
+ "type": "OpenTarget"
170
+ },
171
+ {
172
+ "name": "OpenTargets_get_similar_entities_by_disease_efoId",
173
+ "description": "Retrieve similar entities for a given disease efoId using a model trained with PubMed.",
174
+ "parameter": {
175
+ "type": "object",
176
+ "properties": {
177
+ "efoId": {
178
+ "type": "string",
179
+ "description": "The EFO ID of the disease."
181
180
  },
182
- "query_schema": "\n query diseaseSimilarEntities($efoId: String!, $threshold: Float!, $size: Int!) {\n disease(efoId: $efoId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
183
- "label": [
184
- "Disease",
185
- "Similarity",
186
- "Model",
187
- "Entities",
188
- "OpenTarget",
189
- "GraphQL"
190
- ],
191
- "type": "OpenTarget"
192
- },
193
- {
194
- "name": "OpenTargets_get_similar_entities_by_drug_chemblId",
195
- "description": "Retrieve similar entities for a given drug chemblId using a model trained with PubMed.",
196
- "parameter": {
197
- "type": "object",
198
- "properties": {
199
- "chemblId": {
200
- "type": "string",
201
- "description": "The chemblId of the disease.",
202
- "required": true
203
- },
204
- "threshold": {
205
- "type": "number",
206
- "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
207
- "required": true
208
- },
209
- "size": {
210
- "type": "integer",
211
- "description": "Number of similar entities to fetch.",
212
- "required": true
213
- }
214
- }
181
+ "threshold": {
182
+ "type": "number",
183
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned."
215
184
  },
216
- "query_schema": "\n query diseaseSimilarEntities($chemblId: String!, $threshold: Float!, $size: Int!) {\n drug(chemblId: $chemblId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
217
- "label": [
218
- "Drug",
219
- "Similarity",
220
- "Model",
221
- "Entities",
222
- "OpenTarget",
223
- "GraphQL"
224
- ],
225
- "type": "OpenTarget"
185
+ "size": {
186
+ "type": "integer",
187
+ "description": "Number of similar entities to fetch."
188
+ }
189
+ },
190
+ "required": [
191
+ "efoId",
192
+ "threshold",
193
+ "size"
194
+ ]
226
195
  },
227
- {
228
- "name": "OpenTargets_get_similar_entities_by_target_ensemblID",
229
- "description": "Retrieve similar entities for a given target ensemblID using a model trained with PubMed.",
230
- "parameter": {
231
- "type": "object",
232
- "properties": {
233
- "ensemblId": {
234
- "type": "string",
235
- "description": "The ensemblID of the disease.",
236
- "required": true
237
- },
238
- "threshold": {
239
- "type": "number",
240
- "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
241
- "required": true
242
- },
243
- "size": {
244
- "type": "integer",
245
- "description": "Number of similar entities to fetch.",
246
- "required": true
247
- }
248
- }
196
+ "query_schema": "\n query diseaseSimilarEntities($efoId: String!, $threshold: Float!, $size: Int!) {\n disease(efoId: $efoId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
197
+ "label": [
198
+ "Disease",
199
+ "Similarity",
200
+ "Model",
201
+ "Entities",
202
+ "OpenTarget",
203
+ "GraphQL"
204
+ ],
205
+ "type": "OpenTarget"
206
+ },
207
+ {
208
+ "name": "OpenTargets_get_similar_entities_by_drug_chemblId",
209
+ "description": "Retrieve similar entities for a given drug chemblId using a model trained with PubMed.",
210
+ "parameter": {
211
+ "type": "object",
212
+ "properties": {
213
+ "chemblId": {
214
+ "type": "string",
215
+ "description": "The chemblId of the disease."
249
216
  },
250
- "query_schema": "\n query diseaseSimilarEntities($ensemblId: String!, $threshold: Float!, $size: Int!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
251
- "label": [
252
- "Disease",
253
- "Similarity",
254
- "Model",
255
- "Entities",
256
- "OpenTarget",
257
- "GraphQL"
258
- ],
259
- "type": "OpenTarget"
260
- },
261
- {
262
- "name": "OpenTargets_get_associated_phenotypes_by_disease_efoId",
263
- "description": "Find HPO phenotypes asosciated with the specified disease efoId.",
264
- "parameter": {
265
- "type": "object",
266
- "properties": {
267
- "efoId": {
268
- "type": "string",
269
- "description": "The efoId of a disease or phenotype.",
270
- "required": true
271
- }
272
- }
217
+ "threshold": {
218
+ "type": "number",
219
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned."
273
220
  },
274
- "query_schema": "query diseaseAnnotation($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n phenotypes {\n rows {\n phenotypeHPO {\n id\n name\n description\n namespace\n }\n phenotypeEFO {\n id\n name\n }\n }\n }\n }\n}",
275
- "label": [
276
- "Disease",
277
- "OpenTarget",
278
- "GraphQL",
279
- "Phenotype",
280
- "Symptoms",
281
- "Clinical signs"
282
- ],
283
- "type": "OpenTarget"
221
+ "size": {
222
+ "type": "integer",
223
+ "description": "Number of similar entities to fetch."
224
+ }
225
+ },
226
+ "required": [
227
+ "chemblId",
228
+ "threshold",
229
+ "size"
230
+ ]
284
231
  },
285
- {
286
- "name": "OpenTargets_get_drug_withdrawn_blackbox_status_by_chemblId",
287
- "description": "Find withdrawn and black-box warning statuses for a specific drug by chemblId.",
288
- "parameter": {
289
- "type": "object",
290
- "properties": {
291
- "chemblId": {
292
- "type": "array",
293
- "items": {
294
- "type": "string"
295
- },
296
- "description": "The chemblId of a drug.",
297
- "required": true
298
- }
299
- }
232
+ "query_schema": "\n query diseaseSimilarEntities($chemblId: String!, $threshold: Float!, $size: Int!) {\n drug(chemblId: $chemblId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
233
+ "label": [
234
+ "Drug",
235
+ "Similarity",
236
+ "Model",
237
+ "Entities",
238
+ "OpenTarget",
239
+ "GraphQL"
240
+ ],
241
+ "type": "OpenTarget"
242
+ },
243
+ {
244
+ "name": "OpenTargets_get_similar_entities_by_target_ensemblID",
245
+ "description": "Retrieve similar entities for a given target ensemblID using a model trained with PubMed.",
246
+ "parameter": {
247
+ "type": "object",
248
+ "properties": {
249
+ "ensemblId": {
250
+ "type": "string",
251
+ "description": "The ensemblID of the disease."
300
252
  },
301
- "query_schema": "\n query drugWithdrawnWarningData($chemblId: String!) {\n drug(chemblId: $chemblId) {\n name\n id\n hasBeenWithdrawn\n blackBoxWarning\n }\n }\n ",
302
- "label": [
303
- "Drug",
304
- "SafetyWarnings",
305
- "Withdrawal",
306
- "OpenTarget",
307
- "GraphQL"
308
- ],
309
- "type": "OpenTarget"
310
- },
311
- {
312
- "name": "OpenTargets_search_category_counts_by_query_string",
313
- "description": "Get the count of entries in each entity category (disease, target, drug) based on a query string.",
314
- "parameter": {
315
- "type": "object",
316
- "properties": {
317
- "queryString": {
318
- "type": "string",
319
- "description": "The search string for querying information.",
320
- "required": true
321
- }
322
- }
253
+ "threshold": {
254
+ "type": "number",
255
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned."
323
256
  },
324
- "query_schema": "\n query searchCategoryCounts($queryString: String!) {\n search(queryString: $queryString) {\n aggregations {\n total\n entities {\n total\n name\n }\n }\n }\n }\n ",
325
- "label": [
326
- "OpenTarget",
327
- "GraphQL",
328
- "SearchResults",
329
- "Search",
330
- "Query",
331
- "Counts",
332
- "Categories"
333
- ],
334
- "type": "OpenTarget"
257
+ "size": {
258
+ "type": "integer",
259
+ "description": "Number of similar entities to fetch."
260
+ }
261
+ },
262
+ "required": [
263
+ "ensemblId",
264
+ "threshold",
265
+ "size"
266
+ ]
335
267
  },
336
- {
337
- "name": "OpenTargets_get_disease_id_description_by_name",
338
- "description": "Retrieve the efoId and additional details of a disease based on its name.",
339
- "parameter": {
340
- "type": "object",
341
- "properties": {
342
- "diseaseName": {
343
- "type": "string",
344
- "description": "The name of the disease to search for.",
345
- "required": true
346
- }
347
- }
348
- },
349
- "query_schema": "\n query getDiseaseIdByName($diseaseName: String!) {\n search(queryString: $diseaseName, entityNames: [\"disease\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
350
- "label": [
351
- "Disease",
352
- "Identification",
353
- "Search",
354
- "Name",
355
- "Disease",
356
- "OpenTarget",
357
- "GraphQL"
358
- ],
359
- "type": "OpenTarget"
268
+ "query_schema": "\n query diseaseSimilarEntities($ensemblId: String!, $threshold: Float!, $size: Int!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
269
+ "label": [
270
+ "Disease",
271
+ "Similarity",
272
+ "Model",
273
+ "Entities",
274
+ "OpenTarget",
275
+ "GraphQL"
276
+ ],
277
+ "type": "OpenTarget"
278
+ },
279
+ {
280
+ "name": "OpenTargets_get_associated_phenotypes_by_disease_efoId",
281
+ "description": "Find HPO phenotypes asosciated with the specified disease efoId.",
282
+ "parameter": {
283
+ "type": "object",
284
+ "properties": {
285
+ "efoId": {
286
+ "type": "string",
287
+ "description": "The efoId of a disease or phenotype."
288
+ }
289
+ },
290
+ "required": [
291
+ "efoId"
292
+ ]
360
293
  },
361
- {
362
- "name": "OpenTargets_get_drug_id_description_by_name",
363
- "description": "Fetch the drug chemblId and description based on the drug generic name.",
364
- "parameter": {
365
- "type": "object",
366
- "properties": {
367
- "drugName": {
368
- "type": "string",
369
- "description": "The name of the drug for which the ID is required.",
370
- "required": true
371
- }
372
- }
373
- },
374
- "query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
375
- "label": [
376
- "Identification",
377
- "Search",
378
- "Name",
379
- "Drug",
380
- "OpenTarget",
381
- "GraphQL"
382
- ],
383
- "type": "OpentargetToolDrugNameMatch"
294
+ "query_schema": "query diseaseAnnotation($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n phenotypes {\n rows {\n phenotypeHPO {\n id\n name\n description\n namespace\n }\n phenotypeEFO {\n id\n name\n }\n }\n }\n }\n}",
295
+ "label": [
296
+ "Disease",
297
+ "OpenTarget",
298
+ "GraphQL",
299
+ "Phenotype",
300
+ "Symptoms",
301
+ "Clinical signs"
302
+ ],
303
+ "type": "OpenTarget"
304
+ },
305
+ {
306
+ "name": "OpenTargets_get_drug_withdrawn_blackbox_status_by_chemblId",
307
+ "description": "Find withdrawn and black-box warning statuses for a specific drug by chemblId.",
308
+ "parameter": {
309
+ "type": "object",
310
+ "properties": {
311
+ "chemblId": {
312
+ "type": "array",
313
+ "items": {
314
+ "type": "string"
315
+ },
316
+ "description": "The chemblId of a drug."
317
+ }
318
+ },
319
+ "required": [
320
+ "chemblId"
321
+ ]
384
322
  },
385
- {
386
- "name": "OpenTargets_get_drug_chembId_by_generic_name",
387
- "description": "Fetch the drug chemblId and description based on the drug generic name.",
388
- "parameter": {
389
- "type": "object",
390
- "properties": {
391
- "drugName": {
392
- "type": "string",
393
- "description": "The generic name of the drug for which the ID is required.",
394
- "required": true
395
- }
396
- }
397
- },
398
- "query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
399
- "label": [
400
- "Identification",
401
- "Search",
402
- "Name",
403
- "Drug",
404
- "OpenTarget",
405
- "GraphQL"
406
- ],
407
- "type": "OpentargetToolDrugNameMatch"
323
+ "query_schema": "\n query drugWithdrawnWarningData($chemblId: String!) {\n drug(chemblId: $chemblId) {\n name\n id\n hasBeenWithdrawn\n blackBoxWarning\n }\n }\n ",
324
+ "label": [
325
+ "Drug",
326
+ "SafetyWarnings",
327
+ "Withdrawal",
328
+ "OpenTarget",
329
+ "GraphQL"
330
+ ],
331
+ "type": "OpenTarget"
332
+ },
333
+ {
334
+ "name": "OpenTargets_search_category_counts_by_query_string",
335
+ "description": "Get the count of entries in each entity category (disease, target, drug) based on a query string.",
336
+ "parameter": {
337
+ "type": "object",
338
+ "properties": {
339
+ "queryString": {
340
+ "type": "string",
341
+ "description": "The search string for querying information."
342
+ }
343
+ },
344
+ "required": [
345
+ "queryString"
346
+ ]
408
347
  },
409
- {
410
- "name": "OpenTargets_get_drug_indications_by_chemblId",
411
- "description": "Fetch indications (treatable phenotypes/diseases) for a given drug chemblId.",
412
- "parameter": {
413
- "type": "object",
414
- "properties": {
415
- "chemblId": {
416
- "type": "string",
417
- "description": "The chemblId of the drug for which to retrieve treatable phenotypes information.",
418
- "required": true
419
- }
420
- }
421
- },
422
- "query_schema": "\n query drugIndications($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n indications {\n rows {\n disease {\n id\n name\n }\n maxPhaseForIndication\n references {\n source\n }\n }\n }\n }\n }\n ",
423
- "label": [
424
- "Drug",
425
- "Indications",
426
- "Disease",
427
- "Treatment",
428
- "OpenTarget",
429
- "GraphQL"
430
- ],
431
- "type": "OpenTarget"
348
+ "query_schema": "\n query searchCategoryCounts($queryString: String!) {\n search(queryString: $queryString) {\n aggregations {\n total\n entities {\n total\n name\n }\n }\n }\n }\n ",
349
+ "label": [
350
+ "OpenTarget",
351
+ "GraphQL",
352
+ "SearchResults",
353
+ "Search",
354
+ "Query",
355
+ "Counts",
356
+ "Categories"
357
+ ],
358
+ "type": "OpenTarget"
359
+ },
360
+ {
361
+ "name": "OpenTargets_get_disease_id_description_by_name",
362
+ "description": "Retrieve the efoId and additional details of a disease based on its name.",
363
+ "parameter": {
364
+ "type": "object",
365
+ "properties": {
366
+ "diseaseName": {
367
+ "type": "string",
368
+ "description": "The name of the disease to search for."
369
+ }
370
+ },
371
+ "required": [
372
+ "diseaseName"
373
+ ]
432
374
  },
433
- {
434
- "name": "OpenTargets_get_target_gene_ontology_by_ensemblID",
435
- "description": "Retrieve Gene Ontology annotations for a specific target by Ensembl ID.",
436
- "parameter": {
437
- "type": "object",
438
- "properties": {
439
- "ensemblId": {
440
- "type": "string",
441
- "description": "The Ensembl ID of the target for which to retrieve Gene Ontology annotations.",
442
- "required": true
443
- }
444
- }
445
- },
446
- "query_schema": "\n query targetGeneOntology($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneOntology {\n aspect\n evidence\n geneProduct\n source\n term {\n id\n name\n }\n }\n }\n }\n ",
447
- "label": [
448
- "Target",
449
- "GeneOntology",
450
- "OpenTarget",
451
- "GraphQL"
452
- ],
453
- "type": "OpenTarget"
375
+ "query_schema": "\n query getDiseaseIdByName($diseaseName: String!) {\n search(queryString: $diseaseName, entityNames: [\"disease\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
376
+ "label": [
377
+ "Disease",
378
+ "Identification",
379
+ "Search",
380
+ "Name",
381
+ "Disease",
382
+ "OpenTarget",
383
+ "GraphQL"
384
+ ],
385
+ "type": "OpenTarget"
386
+ },
387
+ {
388
+ "name": "OpenTargets_get_drug_id_description_by_name",
389
+ "description": "Fetch the drug chemblId and description based on the drug generic name.",
390
+ "parameter": {
391
+ "type": "object",
392
+ "properties": {
393
+ "drugName": {
394
+ "type": "string",
395
+ "description": "The name of the drug for which the ID is required."
396
+ }
397
+ },
398
+ "required": [
399
+ "drugName"
400
+ ]
454
401
  },
455
- {
456
- "name": "OpenTargets_get_target_homologues_by_ensemblID",
457
- "description": "Fetch homologues for a specific target by Ensembl ID.",
458
- "parameter": {
459
- "type": "object",
460
- "properties": {
461
- "ensemblId": {
462
- "type": "string",
463
- "description": "The Ensembl ID of the target for which to retrieve homologues.",
464
- "required": true
465
- }
466
- }
467
- },
468
- "query_schema": "\n query targetHomologues($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n homologues {\n homologyType\n queryPercentageIdentity\n speciesId\n speciesName\n targetGeneId\n targetGeneSymbol\n targetPercentageIdentity\n isHighConfidence\n }\n }\n }\n ",
469
- "label": [
470
- "OpenTarget",
471
- "Target Information",
472
- "GraphQL",
473
- "Homologue"
474
- ],
475
- "type": "OpenTarget"
402
+ "query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
403
+ "label": [
404
+ "Identification",
405
+ "Search",
406
+ "Name",
407
+ "Drug",
408
+ "OpenTarget",
409
+ "GraphQL"
410
+ ],
411
+ "type": "OpentargetToolDrugNameMatch"
412
+ },
413
+ {
414
+ "name": "OpenTargets_get_drug_chembId_by_generic_name",
415
+ "description": "Fetch the drug chemblId and description based on the drug generic name.",
416
+ "parameter": {
417
+ "type": "object",
418
+ "properties": {
419
+ "drugName": {
420
+ "type": "string",
421
+ "description": "The generic name of the drug for which the ID is required."
422
+ }
423
+ },
424
+ "required": [
425
+ "drugName"
426
+ ]
476
427
  },
477
- {
478
- "name": "OpenTargets_get_target_safety_profile_by_ensemblID",
479
- "description": "Retrieve known target safety liabilities for a specific target Ensembl ID.",
480
- "parameter": {
481
- "type": "object",
482
- "properties": {
483
- "ensemblId": {
484
- "type": "string",
485
- "description": "The Ensembl ID of the target for which to retrieve safety liabilities.",
486
- "required": true
487
- }
488
- }
489
- },
490
- "query_schema": "\n query targetSafetyLiabilities($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n safetyLiabilities {\n event\n eventId\n biosamples {\n cellFormat\n cellLabel\n tissueLabel\n tissueId\n }\n effects {\n dosing\n direction\n }\n studies {\n name\n type\n description\n }\n datasource\n literature\n }\n }\n }\n ",
491
- "label": [
492
- "Target",
493
- "SafetyLiability",
494
- "OpenTarget",
495
- "GraphQL",
496
- "Safety",
497
- "Liabilities"
498
- ],
499
- "type": "OpenTarget"
428
+ "query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
429
+ "label": [
430
+ "Identification",
431
+ "Search",
432
+ "Name",
433
+ "Drug",
434
+ "OpenTarget",
435
+ "GraphQL"
436
+ ],
437
+ "type": "OpentargetToolDrugNameMatch"
438
+ },
439
+ {
440
+ "name": "OpenTargets_get_drug_indications_by_chemblId",
441
+ "description": "Fetch indications (treatable phenotypes/diseases) for a given drug chemblId.",
442
+ "parameter": {
443
+ "type": "object",
444
+ "properties": {
445
+ "chemblId": {
446
+ "type": "string",
447
+ "description": "The chemblId of the drug for which to retrieve treatable phenotypes information."
448
+ }
449
+ },
450
+ "required": [
451
+ "chemblId"
452
+ ]
500
453
  },
501
- {
502
- "name": "OpenTargets_get_biological_mouse_models_by_ensemblID",
503
- "description": "Retrieve biological mouse models, including allelic compositions and genetic backgrounds, for a specific target.",
504
- "parameter": {
505
- "type": "object",
506
- "properties": {
507
- "ensemblId": {
508
- "type": "string",
509
- "description": "The Ensembl ID of the target.",
510
- "required": true
511
- }
512
- }
513
- },
514
- "query_schema": "\n query fetchBiologicalModels($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n mousePhenotypes {\n biologicalModels {\n allelicComposition\n geneticBackground\n id\n literature\n }\n }\n }\n }\n ",
515
- "label": [
516
- "OpenTarget",
517
- "Target Information",
518
- "BiologicalModels",
519
- "GraphQL"
520
- ],
521
- "type": "OpenTarget"
454
+ "query_schema": "\n query drugIndications($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n indications {\n rows {\n disease {\n id\n name\n }\n maxPhaseForIndication\n references {\n source\n }\n }\n }\n }\n }\n ",
455
+ "label": [
456
+ "Drug",
457
+ "Indications",
458
+ "Disease",
459
+ "Treatment",
460
+ "OpenTarget",
461
+ "GraphQL"
462
+ ],
463
+ "type": "OpenTarget"
464
+ },
465
+ {
466
+ "name": "OpenTargets_get_target_gene_ontology_by_ensemblID",
467
+ "description": "Retrieve Gene Ontology annotations for a specific target by Ensembl ID.",
468
+ "parameter": {
469
+ "type": "object",
470
+ "properties": {
471
+ "ensemblId": {
472
+ "type": "string",
473
+ "description": "The Ensembl ID of the target for which to retrieve Gene Ontology annotations."
474
+ }
475
+ },
476
+ "required": [
477
+ "ensemblId"
478
+ ]
522
479
  },
523
- {
524
- "name": "OpenTargets_get_target_genomic_location_by_ensemblID",
525
- "description": "Retrieve genomic location data for a specific target, including chromosome, start, end, and strand.",
526
- "parameter": {
527
- "type": "object",
528
- "properties": {
529
- "ensemblId": {
530
- "type": "string",
531
- "description": "The Ensembl ID of the target for which to retrieve genomic location information.",
532
- "required": true
533
- }
534
- }
535
- },
536
- "query_schema": "\n query targetGenomicLocation($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n genomicLocation {\n chromosome\n start\n end\n strand\n }\n }\n }\n ",
537
- "label": [
538
- "Target",
539
- "GenomicLocation",
540
- "OpenTarget",
541
- "GraphQL"
542
- ],
543
- "type": "OpenTarget"
480
+ "query_schema": "\n query targetGeneOntology($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneOntology {\n aspect\n evidence\n geneProduct\n source\n term {\n id\n name\n }\n }\n }\n }\n ",
481
+ "label": [
482
+ "Target",
483
+ "GeneOntology",
484
+ "OpenTarget",
485
+ "GraphQL"
486
+ ],
487
+ "type": "OpenTarget"
488
+ },
489
+ {
490
+ "name": "OpenTargets_get_target_homologues_by_ensemblID",
491
+ "description": "Fetch homologues for a specific target by Ensembl ID.",
492
+ "parameter": {
493
+ "type": "object",
494
+ "properties": {
495
+ "ensemblId": {
496
+ "type": "string",
497
+ "description": "The Ensembl ID of the target for which to retrieve homologues."
498
+ }
499
+ },
500
+ "required": [
501
+ "ensemblId"
502
+ ]
544
503
  },
545
- {
546
- "name": "OpenTargets_get_target_subcellular_locations_by_ensemblID",
547
- "description": "Retrieve information about subcellular locations for a specific target ensemblID.",
548
- "parameter": {
549
- "type": "object",
550
- "properties": {
551
- "ensemblId": {
552
- "type": "string",
553
- "description": "The ensemblId of a target.",
554
- "required": true
555
- }
556
- }
557
- },
558
- "query_schema": "\n query targetSubcellularLocations($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n subcellularLocations {\n location\n source\n termSL\n labelSL\n }\n }\n }\n ",
559
- "label": [
560
- "Target",
561
- "Subcellular Locations",
562
- "GraphQL",
563
- "OpenTarget"
564
- ],
565
- "type": "OpenTarget"
504
+ "query_schema": "\n query targetHomologues($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n homologues {\n homologyType\n queryPercentageIdentity\n speciesId\n speciesName\n targetGeneId\n targetGeneSymbol\n targetPercentageIdentity\n isHighConfidence\n }\n }\n }\n ",
505
+ "label": [
506
+ "OpenTarget",
507
+ "Target Information",
508
+ "GraphQL",
509
+ "Homologue"
510
+ ],
511
+ "type": "OpenTarget"
512
+ },
513
+ {
514
+ "name": "OpenTargets_get_target_safety_profile_by_ensemblID",
515
+ "description": "Retrieve known target safety liabilities for a specific target Ensembl ID.",
516
+ "parameter": {
517
+ "type": "object",
518
+ "properties": {
519
+ "ensemblId": {
520
+ "type": "string",
521
+ "description": "The Ensembl ID of the target for which to retrieve safety liabilities."
522
+ }
523
+ },
524
+ "required": [
525
+ "ensemblId"
526
+ ]
566
527
  },
567
- {
568
- "name": "OpenTargets_get_target_synonyms_by_ensemblID",
569
- "description": "Retrieve synonyms for specified target, including alternative names and symbols, using given ensemblID.",
570
- "parameter": {
571
- "type": "object",
572
- "properties": {
573
- "ensemblId": {
574
- "type": "string",
575
- "description": "The Ensembl ID of the target.",
576
- "required": true
577
- }
578
- }
579
- },
580
- "query_schema": "\n query retrieveTargetSynonyms($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n synonyms {\n label\n source\n }\n symbolSynonyms {\n label\n source\n }\n nameSynonyms {\n label\n source\n }\n }\n }\n ",
581
- "label": [
582
- "OpenTarget",
583
- "Target Information",
584
- "GraphQL",
585
- "Target"
586
- ],
587
- "type": "OpenTarget"
528
+ "query_schema": "\n query targetSafetyLiabilities($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n safetyLiabilities {\n event\n eventId\n biosamples {\n cellFormat\n cellLabel\n tissueLabel\n tissueId\n }\n effects {\n dosing\n direction\n }\n studies {\n name\n type\n description\n }\n datasource\n literature\n }\n }\n }\n ",
529
+ "label": [
530
+ "Target",
531
+ "SafetyLiability",
532
+ "OpenTarget",
533
+ "GraphQL",
534
+ "Safety",
535
+ "Liabilities"
536
+ ],
537
+ "type": "OpenTarget"
538
+ },
539
+ {
540
+ "name": "OpenTargets_get_biological_mouse_models_by_ensemblID",
541
+ "description": "Retrieve biological mouse models, including allelic compositions and genetic backgrounds, for a specific target.",
542
+ "parameter": {
543
+ "type": "object",
544
+ "properties": {
545
+ "ensemblId": {
546
+ "type": "string",
547
+ "description": "The Ensembl ID of the target."
548
+ }
549
+ },
550
+ "required": [
551
+ "ensemblId"
552
+ ]
588
553
  },
589
- {
590
- "name": "OpenTargets_get_target_tractability_by_ensemblID",
591
- "description": "Retrieve tractability assessments, including modality and values, for a specific target ensembl ID.",
592
- "parameter": {
593
- "type": "object",
594
- "properties": {
595
- "ensemblId": {
596
- "type": "string",
597
- "description": "The Ensembl ID of the target.",
598
- "required": true
599
- }
600
- }
601
- },
602
- "query_schema": "\n query targetTractabilityAssessment($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tractability {\n label\n modality\n value\n }\n }\n }\n ",
603
- "label": [
604
- "Target",
605
- "Tractability",
606
- "OpenTarget",
607
- "Target Information",
608
- "GraphQL"
609
- ],
610
- "type": "OpenTarget"
554
+ "query_schema": "\n query fetchBiologicalModels($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n mousePhenotypes {\n biologicalModels {\n allelicComposition\n geneticBackground\n id\n literature\n }\n }\n }\n }\n ",
555
+ "label": [
556
+ "OpenTarget",
557
+ "Target Information",
558
+ "BiologicalModels",
559
+ "GraphQL"
560
+ ],
561
+ "type": "OpenTarget"
562
+ },
563
+ {
564
+ "name": "OpenTargets_get_target_genomic_location_by_ensemblID",
565
+ "description": "Retrieve genomic location data for a specific target, including chromosome, start, end, and strand.",
566
+ "parameter": {
567
+ "type": "object",
568
+ "properties": {
569
+ "ensemblId": {
570
+ "type": "string",
571
+ "description": "The Ensembl ID of the target for which to retrieve genomic location information."
572
+ }
573
+ },
574
+ "required": [
575
+ "ensemblId"
576
+ ]
611
577
  },
612
- {
613
- "name": "OpenTargets_get_target_classes_by_ensemblID",
614
- "description": "Retrieve the target classes associated with a specific target ensemblID.",
615
- "parameter": {
616
- "type": "object",
617
- "properties": {
618
- "ensemblId": {
619
- "type": "string",
620
- "description": "The Ensembl ID of the target.",
621
- "required": true
622
- }
623
- }
624
- },
625
- "query_schema": "\n query fetchTargetClasses($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n targetClass {\n id\n label\n level\n }\n }\n }\n ",
626
- "label": [
627
- "OpenTarget",
628
- "Target Information",
629
- "GraphQL",
630
- "Target"
631
- ],
632
- "type": "OpenTarget"
578
+ "query_schema": "\n query targetGenomicLocation($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n genomicLocation {\n chromosome\n start\n end\n strand\n }\n }\n }\n ",
579
+ "label": [
580
+ "Target",
581
+ "GenomicLocation",
582
+ "OpenTarget",
583
+ "GraphQL"
584
+ ],
585
+ "type": "OpenTarget"
586
+ },
587
+ {
588
+ "name": "OpenTargets_get_target_subcellular_locations_by_ensemblID",
589
+ "description": "Retrieve information about subcellular locations for a specific target ensemblID.",
590
+ "parameter": {
591
+ "type": "object",
592
+ "properties": {
593
+ "ensemblId": {
594
+ "type": "string",
595
+ "description": "The ensemblId of a target."
596
+ }
597
+ },
598
+ "required": [
599
+ "ensemblId"
600
+ ]
633
601
  },
634
- {
635
- "name": "OpenTargets_get_target_enabling_packages_by_ensemblID",
636
- "description": "Retrieve the Target Enabling Packages (TEP) associated with a specific target ensemblID.",
637
- "parameter": {
638
- "type": "object",
639
- "properties": {
640
- "ensemblId": {
641
- "type": "string",
642
- "description": "The Ensembl ID of the target.",
643
- "required": true
644
- }
645
- }
646
- },
647
- "query_schema": "\n query fetchTargetEnablingPackages($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tep {\n name\n uri\n therapeuticArea\n description\n }\n }\n }\n ",
648
- "label": [
649
- "OpenTarget",
650
- "Target Information",
651
- "GraphQL",
652
- "Target"
653
- ],
654
- "type": "OpenTarget"
602
+ "query_schema": "\n query targetSubcellularLocations($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n subcellularLocations {\n location\n source\n termSL\n labelSL\n }\n }\n }\n ",
603
+ "label": [
604
+ "Target",
605
+ "Subcellular Locations",
606
+ "GraphQL",
607
+ "OpenTarget"
608
+ ],
609
+ "type": "OpenTarget"
610
+ },
611
+ {
612
+ "name": "OpenTargets_get_target_synonyms_by_ensemblID",
613
+ "description": "Retrieve synonyms for specified target, including alternative names and symbols, using given ensemblID.",
614
+ "parameter": {
615
+ "type": "object",
616
+ "properties": {
617
+ "ensemblId": {
618
+ "type": "string",
619
+ "description": "The Ensembl ID of the target."
620
+ }
621
+ },
622
+ "required": [
623
+ "ensemblId"
624
+ ]
655
625
  },
656
- {
657
- "name": "OpenTargets_get_target_interactions_by_ensemblID",
658
- "description": "Retrieve interaction data for a specific target ensemblID, including interaction partners and evidence.",
659
- "label": [
660
- "Target",
661
- "Interaction",
662
- "Evidence",
663
- "GraphQL",
664
- "Pagination",
665
- "OpenTarget"
666
- ],
667
- "parameter": {
668
- "type": "object",
669
- "properties": {
670
- "ensemblId": {
671
- "type": "string",
672
- "description": "The Ensembl ID of the target.",
673
- "required": true
674
- },
675
- "page": {
676
- "type": "object",
677
- "properties": {
678
- "index": {
679
- "type": "integer",
680
- "description": "The index of the page to retrieve.",
681
- "required": true
682
- },
683
- "size": {
684
- "type": "integer",
685
- "description": "The number of items per page.",
686
- "required": true
687
- }
688
- },
689
- "description": "Pagination parameters.",
690
- "required": false
691
- }
692
- }
693
- },
694
- "query_schema": "\n query targetInteractions($ensemblId: String!, $page: Pagination) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n interactions(page: $page) {\n count\n rows {\n intA\n targetA {\n id\n approvedSymbol\n }\n intB\n targetB {\n id\n approvedSymbol\n }\n score\n sourceDatabase\n evidences {\n evidenceScore\n pubmedId\n interactionDetectionMethodShortName\n }\n }\n }\n }\n }\n ",
695
- "type": "OpenTarget"
626
+ "query_schema": "\n query retrieveTargetSynonyms($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n synonyms {\n label\n source\n }\n symbolSynonyms {\n label\n source\n }\n nameSynonyms {\n label\n source\n }\n }\n }\n ",
627
+ "label": [
628
+ "OpenTarget",
629
+ "Target Information",
630
+ "GraphQL",
631
+ "Target"
632
+ ],
633
+ "type": "OpenTarget"
634
+ },
635
+ {
636
+ "name": "OpenTargets_get_target_tractability_by_ensemblID",
637
+ "description": "Retrieve tractability assessments, including modality and values, for a specific target ensembl ID.",
638
+ "parameter": {
639
+ "type": "object",
640
+ "properties": {
641
+ "ensemblId": {
642
+ "type": "string",
643
+ "description": "The Ensembl ID of the target."
644
+ }
645
+ },
646
+ "required": [
647
+ "ensemblId"
648
+ ]
696
649
  },
697
- {
698
- "name": "OpenTargets_get_disease_ancestors_parents_by_efoId",
699
- "description": "Retrieve the disease ancestors and parents in the ontology using the disease EFO ID.",
700
- "parameter": {
701
- "type": "object",
702
- "properties": {
703
- "efoId": {
704
- "type": "string",
705
- "description": "The EFO ID of the disease.",
706
- "required": true
707
- }
708
- }
709
- },
710
- "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n ancestors\n parents {\n id\n name\n }\n }\n }\n ",
711
- "label": [
712
- "OpenTarget",
713
- "Disease",
714
- "Disease Information",
715
- "GraphQL"
716
- ],
717
- "type": "OpenTarget"
650
+ "query_schema": "\n query targetTractabilityAssessment($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tractability {\n label\n modality\n value\n }\n }\n }\n ",
651
+ "label": [
652
+ "Target",
653
+ "Tractability",
654
+ "OpenTarget",
655
+ "Target Information",
656
+ "GraphQL"
657
+ ],
658
+ "type": "OpenTarget"
659
+ },
660
+ {
661
+ "name": "OpenTargets_get_target_classes_by_ensemblID",
662
+ "description": "Retrieve the target classes associated with a specific target ensemblID.",
663
+ "parameter": {
664
+ "type": "object",
665
+ "properties": {
666
+ "ensemblId": {
667
+ "type": "string",
668
+ "description": "The Ensembl ID of the target."
669
+ }
670
+ },
671
+ "required": [
672
+ "ensemblId"
673
+ ]
718
674
  },
719
- {
720
- "name": "OpenTargets_get_disease_descendants_children_by_efoId",
721
- "description": "Retrieve the disease descendants and children in the ontology using the disease EFO ID.",
722
- "parameter": {
723
- "type": "object",
724
- "properties": {
725
- "efoId": {
726
- "type": "string",
727
- "description": "The EFO ID of the disease.",
728
- "required": true
729
- }
730
- }
731
- },
732
- "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n descendants\n children {\n id\n name\n }\n }\n }\n",
733
- "label": [
734
- "OpenTarget",
735
- "Disease",
736
- "Disease Information",
737
- "GraphQL"
738
- ],
739
- "type": "OpenTarget"
675
+ "query_schema": "\n query fetchTargetClasses($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n targetClass {\n id\n label\n level\n }\n }\n }\n ",
676
+ "label": [
677
+ "OpenTarget",
678
+ "Target Information",
679
+ "GraphQL",
680
+ "Target"
681
+ ],
682
+ "type": "OpenTarget"
683
+ },
684
+ {
685
+ "name": "OpenTargets_get_target_enabling_packages_by_ensemblID",
686
+ "description": "Retrieve the Target Enabling Packages (TEP) associated with a specific target ensemblID.",
687
+ "parameter": {
688
+ "type": "object",
689
+ "properties": {
690
+ "ensemblId": {
691
+ "type": "string",
692
+ "description": "The Ensembl ID of the target."
693
+ }
694
+ },
695
+ "required": [
696
+ "ensemblId"
697
+ ]
740
698
  },
741
- {
742
- "name": "OpenTargets_get_disease_locations_by_efoId",
743
- "description": "Retrieve the disease's direct location and indirect location disease terms and IDs using the disease EFO ID.",
744
- "parameter": {
745
- "type": "object",
746
- "properties": {
747
- "efoId": {
748
- "type": "string",
749
- "description": "The EFO ID of the disease.",
750
- "required": true
751
- }
752
- }
699
+ "query_schema": "\n query fetchTargetEnablingPackages($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tep {\n name\n uri\n therapeuticArea\n description\n }\n }\n }\n ",
700
+ "label": [
701
+ "OpenTarget",
702
+ "Target Information",
703
+ "GraphQL",
704
+ "Target"
705
+ ],
706
+ "type": "OpenTarget"
707
+ },
708
+ {
709
+ "name": "OpenTargets_get_target_interactions_by_ensemblID",
710
+ "description": "Retrieve interaction data for a specific target ensemblID, including interaction partners and evidence.",
711
+ "label": [
712
+ "Target",
713
+ "Interaction",
714
+ "Evidence",
715
+ "GraphQL",
716
+ "Pagination",
717
+ "OpenTarget"
718
+ ],
719
+ "parameter": {
720
+ "type": "object",
721
+ "properties": {
722
+ "ensemblId": {
723
+ "type": "string",
724
+ "description": "The Ensembl ID of the target."
753
725
  },
754
- "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n directLocationIds\n indirectLocationIds\n directLocations {\n id\n name\n }\n indirectLocations {\n id\n name\n }\n }\n }\n ",
755
- "label": [
756
- "OpenTarget",
757
- "Disease",
758
- "Disease Information",
759
- "GraphQL"
760
- ],
761
- "type": "OpenTarget"
762
- },
763
- {
764
- "name": "OpenTargets_get_disease_synonyms_by_efoId",
765
- "description": "Retrieve disease synonyms by its EFO ID.",
766
- "parameter": {
767
- "type": "object",
768
- "properties": {
769
- "efoId": {
770
- "type": "string",
771
- "description": "The EFO ID of the disease.",
772
- "required": true
773
- }
726
+ "page": {
727
+ "type": "object",
728
+ "properties": {
729
+ "index": {
730
+ "type": "integer",
731
+ "description": "The index of the page to retrieve.",
732
+ "required": true
733
+ },
734
+ "size": {
735
+ "type": "integer",
736
+ "description": "The number of items per page.",
737
+ "required": true
774
738
  }
775
- },
776
- "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n synonyms {\n relation\n terms\n }\n }\n }\n",
777
- "label": [
778
- "OpenTarget",
779
- "Disease",
780
- "Disease Information",
781
- "GraphQL"
782
- ],
783
- "type": "OpenTarget"
739
+ },
740
+ "description": "Pagination parameters."
741
+ }
742
+ },
743
+ "required": [
744
+ "ensemblId"
745
+ ]
784
746
  },
785
- {
786
- "name": "OpenTargets_get_disease_description_by_efoId",
787
- "description": "Retrieve disease description, name, database cros references, obsolete terms, and whether it's a therapeutic area, all using the specified efoId.",
788
- "parameter": {
789
- "type": "object",
790
- "properties": {
791
- "efoId": {
792
- "type": "string",
793
- "description": "The EFO ID of the disease.",
794
- "required": true
795
- }
796
- }
797
- },
798
- "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n description\n dbXRefs\n obsoleteTerms\n isTherapeuticArea\n }\n }\n ",
799
- "label": [
800
- "OpenTarget",
801
- "Disease",
802
- "Disease Information",
803
- "GraphQL"
804
- ],
805
- "type": "OpenTarget"
747
+ "query_schema": "\n query targetInteractions($ensemblId: String!, $page: Pagination) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n interactions(page: $page) {\n count\n rows {\n intA\n targetA {\n id\n approvedSymbol\n }\n intB\n targetB {\n id\n approvedSymbol\n }\n score\n sourceDatabase\n evidences {\n evidenceScore\n pubmedId\n interactionDetectionMethodShortName\n }\n }\n }\n }\n }\n ",
748
+ "type": "OpenTarget"
749
+ },
750
+ {
751
+ "name": "OpenTargets_get_disease_ancestors_parents_by_efoId",
752
+ "description": "Retrieve the disease ancestors and parents in the ontology using the disease EFO ID.",
753
+ "parameter": {
754
+ "type": "object",
755
+ "properties": {
756
+ "efoId": {
757
+ "type": "string",
758
+ "description": "The EFO ID of the disease."
759
+ }
760
+ },
761
+ "required": [
762
+ "efoId"
763
+ ]
806
764
  },
807
- {
808
- "name": "OpenTargets_get_disease_therapeutic_areas_by_efoId",
809
- "description": "Retrieve the therapeutic areas associated with a specific disease efoId.",
810
- "parameter": {
811
- "type": "object",
812
- "properties": {
813
- "efoId": {
814
- "type": "string",
815
- "description": "The EFO ID of the disease.",
816
- "required": true
817
- }
818
- }
819
- },
820
- "query_schema": "\n query diseaseTherapeuticAreas($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n therapeuticAreas {\n id\n name\n }\n }\n }\n ",
821
- "label": [
822
- "OpenTarget",
823
- "Disease",
824
- "TherapeuticArea",
825
- "GraphQL"
826
- ],
827
- "type": "OpenTarget"
765
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n ancestors\n parents {\n id\n name\n }\n }\n }\n ",
766
+ "label": [
767
+ "OpenTarget",
768
+ "Disease",
769
+ "Disease Information",
770
+ "GraphQL"
771
+ ],
772
+ "type": "OpenTarget"
773
+ },
774
+ {
775
+ "name": "OpenTargets_get_disease_descendants_children_by_efoId",
776
+ "description": "Retrieve the disease descendants and children in the ontology using the disease EFO ID.",
777
+ "parameter": {
778
+ "type": "object",
779
+ "properties": {
780
+ "efoId": {
781
+ "type": "string",
782
+ "description": "The EFO ID of the disease."
783
+ }
784
+ },
785
+ "required": [
786
+ "efoId"
787
+ ]
828
788
  },
829
- {
830
- "name": "OpenTargets_get_drug_adverse_events_by_chemblId",
831
- "description": "Retrieve significant adverse events reported for a specific drug chemblId.",
832
- "parameter": {
833
- "type": "object",
834
- "properties": {
835
- "chemblId": {
836
- "type": "string",
837
- "description": "The ChEMBL ID of the drug.",
838
- "required": true
839
- },
840
- "page": {
841
- "type": "object",
842
- "properties": {
843
- "index": {
844
- "type": "integer",
845
- "description": "Index of the page to fetch, starting from 0.",
846
- "required": true
847
- },
848
- "size": {
849
- "type": "integer",
850
- "description": "Number of entries per page.",
851
- "required": true
852
- }
853
- },
854
- "description": "Pagination settings.",
855
- "required": false
856
- }
857
- }
858
- },
859
- "query_schema": "\n query drugAdverseEvents($chemblId: String!, $page: Pagination) {\n drug(chemblId: $chemblId) {\n id\n name\n adverseEvents(page: $page) {\n count\n criticalValue\n rows {\n name\n meddraCode\n count\n logLR\n }\n }\n }\n }\n ",
860
- "label": [
861
- "Drug",
862
- "AdverseEvents",
863
- "Safety",
864
- "Reporting",
865
- "Pagination",
866
- "OpenTarget",
867
- "GraphQL",
868
- "AdverseEvents"
869
- ],
870
- "type": "OpenTarget"
789
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n descendants\n children {\n id\n name\n }\n }\n }\n",
790
+ "label": [
791
+ "OpenTarget",
792
+ "Disease",
793
+ "Disease Information",
794
+ "GraphQL"
795
+ ],
796
+ "type": "OpenTarget"
797
+ },
798
+ {
799
+ "name": "OpenTargets_get_disease_locations_by_efoId",
800
+ "description": "Retrieve the disease's direct location and indirect location disease terms and IDs using the disease EFO ID.",
801
+ "parameter": {
802
+ "type": "object",
803
+ "properties": {
804
+ "efoId": {
805
+ "type": "string",
806
+ "description": "The EFO ID of the disease."
807
+ }
808
+ },
809
+ "required": [
810
+ "efoId"
811
+ ]
871
812
  },
872
- {
873
- "name": "OpenTargets_get_known_drugs_by_drug_chemblId",
874
- "description": "Get a list of known drugs and associated information using the specified chemblId.",
875
- "parameter": {
876
- "type": "object",
877
- "properties": {
878
- "chemblId": {
879
- "type": "string",
880
- "description": "The ChEMBL ID of the drug.",
881
- "required": true
882
- }
883
- }
884
- },
885
- "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n knownDrugs {\n uniqueDrugs\n uniqueDiseases\n uniqueTargets\n count\n cursor\n rows {\n approvedSymbol\n approvedName\n label\n prefName\n drugType\n targetId\n diseaseId\n drugId\n phase\n mechanismOfAction\n status\n targetClass\n references {\n source\n ids\n urls\n }\n ctIds\n urls {\n url\n name\n }\n disease {\n id\n name\n }\n target {\n id\n approvedSymbol\n }\n drug {\n id\n name\n }\n }\n }\n }\n }\n ",
886
- "label": [
887
- "OpenTarget",
888
- "Drug",
889
- "Drug Information",
890
- "GraphQL"
891
- ],
892
- "type": "OpenTarget"
813
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n directLocationIds\n indirectLocationIds\n directLocations {\n id\n name\n }\n indirectLocations {\n id\n name\n }\n }\n }\n ",
814
+ "label": [
815
+ "OpenTarget",
816
+ "Disease",
817
+ "Disease Information",
818
+ "GraphQL"
819
+ ],
820
+ "type": "OpenTarget"
821
+ },
822
+ {
823
+ "name": "OpenTargets_get_disease_synonyms_by_efoId",
824
+ "description": "Retrieve disease synonyms by its EFO ID.",
825
+ "parameter": {
826
+ "type": "object",
827
+ "properties": {
828
+ "efoId": {
829
+ "type": "string",
830
+ "description": "The EFO ID of the disease."
831
+ }
832
+ },
833
+ "required": [
834
+ "efoId"
835
+ ]
893
836
  },
894
- {
895
- "name": "OpenTargets_get_parent_child_molecules_by_drug_chembl_ID",
896
- "description": "Get parent and child molecules of specified drug chemblId.",
897
- "parameter": {
898
- "type": "object",
899
- "properties": {
900
- "chemblId": {
901
- "type": "string",
902
- "description": "The ChEMBL ID of the drug.",
903
- "required": true
904
- }
905
- }
906
- },
907
- "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n parentMolecule {\n id\n name\n }\n childMolecules {\n id\n name\n }\n }\n }\n ",
908
- "label": [
909
- "OpenTarget",
910
- "Drug",
911
- "Drug Information",
912
- "GraphQL"
913
- ],
914
- "type": "OpenTarget"
837
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n synonyms {\n relation\n terms\n }\n }\n }\n",
838
+ "label": [
839
+ "OpenTarget",
840
+ "Disease",
841
+ "Disease Information",
842
+ "GraphQL"
843
+ ],
844
+ "type": "OpenTarget"
845
+ },
846
+ {
847
+ "name": "OpenTargets_get_disease_description_by_efoId",
848
+ "description": "Retrieve disease description, name, database cros references, obsolete terms, and whether it's a therapeutic area, all using the specified efoId.",
849
+ "parameter": {
850
+ "type": "object",
851
+ "properties": {
852
+ "efoId": {
853
+ "type": "string",
854
+ "description": "The EFO ID of the disease."
855
+ }
856
+ },
857
+ "required": [
858
+ "efoId"
859
+ ]
915
860
  },
916
- {
917
- "name": "OpenTargets_get_approved_indications_by_drug_chemblId",
918
- "description": "Retrieve detailed information about multiple drugs using a list of ChEMBL IDs.",
919
- "parameter": {
920
- "type": "object",
921
- "properties": {
922
- "chemblId": {
923
- "type": "string",
924
- "description": "The ChEMBL ID of the drug.",
925
- "required": true
926
- }
927
- }
928
- },
929
- "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n approvedIndications\n }\n }\n ",
930
- "label": [
931
- "OpenTarget",
932
- "Drug",
933
- "Drug Information",
934
- "GraphQL"
935
- ],
936
- "type": "OpenTarget"
861
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n description\n dbXRefs\n obsoleteTerms\n isTherapeuticArea\n }\n }\n ",
862
+ "label": [
863
+ "OpenTarget",
864
+ "Disease",
865
+ "Disease Information",
866
+ "GraphQL"
867
+ ],
868
+ "type": "OpenTarget"
869
+ },
870
+ {
871
+ "name": "OpenTargets_get_disease_therapeutic_areas_by_efoId",
872
+ "description": "Retrieve the therapeutic areas associated with a specific disease efoId.",
873
+ "parameter": {
874
+ "type": "object",
875
+ "properties": {
876
+ "efoId": {
877
+ "type": "string",
878
+ "description": "The EFO ID of the disease."
879
+ }
880
+ },
881
+ "required": [
882
+ "efoId"
883
+ ]
937
884
  },
938
- {
939
- "name": "OpenTargets_get_drug_description_by_chemblId",
940
- "description": "Get drug name, year of first approval, type, cross references, and max clinical trial phase based on specified chemblId.",
941
- "parameter": {
942
- "type": "object",
943
- "properties": {
944
- "chemblId": {
945
- "type": "string",
946
- "description": "The ChEMBL ID of the drug.",
947
- "required": true
948
- }
949
- }
885
+ "query_schema": "\n query diseaseTherapeuticAreas($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n therapeuticAreas {\n id\n name\n }\n }\n }\n ",
886
+ "label": [
887
+ "OpenTarget",
888
+ "Disease",
889
+ "TherapeuticArea",
890
+ "GraphQL"
891
+ ],
892
+ "type": "OpenTarget"
893
+ },
894
+ {
895
+ "name": "OpenTargets_get_drug_adverse_events_by_chemblId",
896
+ "description": "Retrieve significant adverse events reported for a specific drug chemblId.",
897
+ "parameter": {
898
+ "type": "object",
899
+ "properties": {
900
+ "chemblId": {
901
+ "type": "string",
902
+ "description": "The ChEMBL ID of the drug."
950
903
  },
951
- "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n yearOfFirstApproval\n drugType\n crossReferences {\n source\n reference\n }\n maximumClinicalTrialPhase\n }\n }\n ",
952
- "label": [
953
- "OpenTarget",
954
- "Drug",
955
- "Drug Information",
956
- "GraphQL"
957
- ],
958
- "type": "OpenTarget"
959
- },
960
- {
961
- "name": "OpenTargets_get_drug_synonyms_by_chemblId",
962
- "description": "Retrieve the synonyms associated with a specific drug chemblId.",
963
- "parameter": {
964
- "type": "object",
965
- "properties": {
966
- "chemblId": {
967
- "type": "string",
968
- "description": "The ChEMBL ID of the drug.",
969
- "required": true
970
- }
904
+ "page": {
905
+ "type": "object",
906
+ "properties": {
907
+ "index": {
908
+ "type": "integer",
909
+ "description": "Index of the page to fetch, starting from 0.",
910
+ "required": true
911
+ },
912
+ "size": {
913
+ "type": "integer",
914
+ "description": "Number of entries per page.",
915
+ "required": true
971
916
  }
972
- },
973
- "query_schema": "\n query drugSynonyms($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n synonyms\n }\n }\n ",
974
- "label": [
975
- "OpenTarget",
976
- "Drug Information",
977
- "Drug",
978
- "GraphQL"
979
- ],
980
- "type": "OpenTarget"
917
+ },
918
+ "description": "Pagination settings."
919
+ }
920
+ },
921
+ "required": [
922
+ "chemblId"
923
+ ]
981
924
  },
982
- {
983
- "name": "OpenTargets_get_drug_trade_names_by_chemblId",
984
- "description": "Retrieve the trade names associated with a specific drug chemblId.",
985
- "parameter": {
986
- "type": "object",
987
- "properties": {
988
- "chemblId": {
989
- "type": "string",
990
- "description": "The ChEMBL ID of the drug.",
991
- "required": true
992
- }
993
- }
994
- },
995
- "query_schema": "\n query drugTradeNames($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n tradeNames\n }\n }\n ",
996
- "label": [
997
- "Drug",
998
- "OpenTarget",
999
- "Drug Information",
1000
- "GraphQL"
1001
- ],
1002
- "type": "OpenTarget"
925
+ "query_schema": "\n query drugAdverseEvents($chemblId: String!, $page: Pagination) {\n drug(chemblId: $chemblId) {\n id\n name\n adverseEvents(page: $page) {\n count\n criticalValue\n rows {\n name\n meddraCode\n count\n logLR\n }\n }\n }\n }\n ",
926
+ "label": [
927
+ "Drug",
928
+ "AdverseEvents",
929
+ "Safety",
930
+ "Reporting",
931
+ "Pagination",
932
+ "OpenTarget",
933
+ "GraphQL",
934
+ "AdverseEvents"
935
+ ],
936
+ "type": "OpenTarget"
937
+ },
938
+ {
939
+ "name": "OpenTargets_get_known_drugs_by_drug_chemblId",
940
+ "description": "Get a list of known drugs and associated information using the specified chemblId.",
941
+ "parameter": {
942
+ "type": "object",
943
+ "properties": {
944
+ "chemblId": {
945
+ "type": "string",
946
+ "description": "The ChEMBL ID of the drug."
947
+ }
948
+ },
949
+ "required": [
950
+ "chemblId"
951
+ ]
1003
952
  },
1004
- {
1005
- "name": "OpenTargets_get_drug_approval_status_by_chemblId",
1006
- "description": "Retrieve the approval status of a specific drug chemblId.",
1007
- "parameter": {
1008
- "type": "object",
1009
- "properties": {
1010
- "chemblId": {
1011
- "type": "string",
1012
- "description": "The ChEMBL ID of the drug.",
1013
- "required": true
1014
- }
1015
- }
1016
- },
1017
- "query_schema": "\n query drugApprovalStatus($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n isApproved\n }\n }\n ",
1018
- "label": [
1019
- "Drug",
1020
- "Drug Information",
1021
- "GraphQL",
1022
- "OpenTarget"
1023
- ],
1024
- "type": "OpenTarget"
953
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n knownDrugs {\n uniqueDrugs\n uniqueDiseases\n uniqueTargets\n count\n cursor\n rows {\n approvedSymbol\n approvedName\n label\n prefName\n drugType\n targetId\n diseaseId\n drugId\n phase\n mechanismOfAction\n status\n targetClass\n references {\n source\n ids\n urls\n }\n ctIds\n urls {\n url\n name\n }\n disease {\n id\n name\n }\n target {\n id\n approvedSymbol\n }\n drug {\n id\n name\n }\n }\n }\n }\n }\n ",
954
+ "label": [
955
+ "OpenTarget",
956
+ "Drug",
957
+ "Drug Information",
958
+ "GraphQL"
959
+ ],
960
+ "type": "OpenTarget"
961
+ },
962
+ {
963
+ "name": "OpenTargets_get_parent_child_molecules_by_drug_chembl_ID",
964
+ "description": "Get parent and child molecules of specified drug chemblId.",
965
+ "parameter": {
966
+ "type": "object",
967
+ "properties": {
968
+ "chemblId": {
969
+ "type": "string",
970
+ "description": "The ChEMBL ID of the drug."
971
+ }
972
+ },
973
+ "required": [
974
+ "chemblId"
975
+ ]
1025
976
  },
1026
- {
1027
- "name": "OpenTargets_get_chemical_probes_by_target_ensemblID",
1028
- "description": "Retrieve chemical probes associated with a specific target using its ensemblID.",
1029
- "parameter": {
1030
- "type": "object",
1031
- "properties": {
1032
- "ensemblId": {
1033
- "type": "string",
1034
- "description": "The Ensembl ID of the target for which to retrieve chemical probes.",
1035
- "required": true
1036
- }
1037
- }
1038
- },
1039
- "query_schema": "\n query getTargetChemicalProbes($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n chemicalProbes {\n id\n control\n drugId\n mechanismOfAction\n isHighQuality\n origin\n probeMinerScore\n probesDrugsScore\n scoreInCells\n scoreInOrganisms\n targetFromSourceId\n urls {\n niceName\n url\n }\n }\n }\n }\n ",
1040
- "label": [
1041
- "OpenTarget",
1042
- "Drug Information",
1043
- "ChemicalProbe",
1044
- "GraphQL"
1045
- ],
1046
- "type": "OpenTarget"
977
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n parentMolecule {\n id\n name\n }\n childMolecules {\n id\n name\n }\n }\n }\n ",
978
+ "label": [
979
+ "OpenTarget",
980
+ "Drug",
981
+ "Drug Information",
982
+ "GraphQL"
983
+ ],
984
+ "type": "OpenTarget"
985
+ },
986
+ {
987
+ "name": "OpenTargets_get_approved_indications_by_drug_chemblId",
988
+ "description": "Retrieve detailed information about multiple drugs using a list of ChEMBL IDs.",
989
+ "parameter": {
990
+ "type": "object",
991
+ "properties": {
992
+ "chemblId": {
993
+ "type": "string",
994
+ "description": "The ChEMBL ID of the drug."
995
+ }
996
+ },
997
+ "required": [
998
+ "chemblId"
999
+ ]
1047
1000
  },
1048
- {
1049
- "name": "OpenTargets_drug_pharmacogenomics_data",
1050
- "description": "Retrieve pharmacogenomics data for a specific drug, including evidence levels and genotype annotations.",
1051
- "label": [
1052
- "Drug",
1053
- "Pharmacogenomics",
1054
- "Evidence",
1055
- "Genotype",
1056
- "Pagination",
1057
- "OpenTarget",
1058
- "GraphQL"
1059
- ],
1060
- "parameter": {
1061
- "type": "object",
1062
- "properties": {
1063
- "chemblId": {
1064
- "type": "string",
1065
- "description": "The ChEMBL ID of the drug.",
1066
- "required": true
1067
- },
1068
- "page": {
1069
- "type": "object",
1070
- "description": "Pagination options.",
1071
- "properties": {
1072
- "index": {
1073
- "type": "integer",
1074
- "description": "Pagination index.",
1075
- "required": true
1076
- },
1077
- "size": {
1078
- "type": "integer",
1079
- "description": "Number of records to fetch per page.",
1080
- "required": true
1081
- }
1082
- },
1083
- "required": false
1084
- }
1085
- }
1086
- },
1087
- "query_schema": "\n query drugPharmacogenomicsData($chemblId: String!, $page: Pagination) {\n drug(chemblId: $chemblId) {\n id\n name\n pharmacogenomics(page: $page) {\n datasourceId\n datatypeId\n genotype\n evidenceLevel\n genotypeAnnotationText\n genotypeId\n haplotypeFromSourceId\n haplotypeId\n literature\n pgxCategory\n phenotypeFromSourceId\n phenotypeText\n studyId\n targetFromSourceId\n variantFunctionalConsequenceId\n variantRsId\n isDirectTarget\n variantFunctionalConsequence {\n id\n label\n }\n drugs {\n drugId\n drug {\n name\n }\n }\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n ",
1088
- "type": "OpenTarget"
1001
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n approvedIndications\n }\n }\n ",
1002
+ "label": [
1003
+ "OpenTarget",
1004
+ "Drug",
1005
+ "Drug Information",
1006
+ "GraphQL"
1007
+ ],
1008
+ "type": "OpenTarget"
1009
+ },
1010
+ {
1011
+ "name": "OpenTargets_get_drug_description_by_chemblId",
1012
+ "description": "Get drug name, year of first approval, type, cross references, and max clinical trial phase based on specified chemblId.",
1013
+ "parameter": {
1014
+ "type": "object",
1015
+ "properties": {
1016
+ "chemblId": {
1017
+ "type": "string",
1018
+ "description": "The ChEMBL ID of the drug."
1019
+ }
1020
+ },
1021
+ "required": [
1022
+ "chemblId"
1023
+ ]
1089
1024
  },
1090
- {
1091
- "name": "OpenTargets_get_associated_drugs_by_target_ensemblID",
1092
- "description": "Get known drugs and information (e.g. id, name, MoA) associated with a specific target ensemblID, including clinical trial phase and mechanism of action of the drugs.",
1093
- "parameter": {
1094
- "type": "object",
1095
- "properties": {
1096
- "ensemblId": {
1097
- "type": "string",
1098
- "description": "The Ensembl ID of the target.",
1099
- "required": true
1100
- },
1101
- "size": {
1102
- "type": "integer",
1103
- "description": "Number of entries to fetch.",
1104
- "required": true
1105
- },
1106
- "cursor": {
1107
- "type": "string",
1108
- "description": "Cursor for pagination.",
1109
- "required": false
1110
- }
1111
- }
1112
- },
1113
- "query_schema": "\n query targetKnownDrugs($ensemblId: String!, $size: Int!, $cursor: String) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n knownDrugs(size: $size, cursor: $cursor) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n disease {\n id\n name\n }\n }\n }\n }\n }\n ",
1114
- "label": [
1115
- "Target",
1116
- "Drug",
1117
- "MechanismsOfAction",
1118
- "Pagination",
1119
- "OpenTarget",
1120
- "GraphQL"
1121
- ],
1122
- "type": "OpenTarget"
1025
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n yearOfFirstApproval\n drugType\n crossReferences {\n source\n reference\n }\n maximumClinicalTrialPhase\n }\n }\n ",
1026
+ "label": [
1027
+ "OpenTarget",
1028
+ "Drug",
1029
+ "Drug Information",
1030
+ "GraphQL"
1031
+ ],
1032
+ "type": "OpenTarget"
1033
+ },
1034
+ {
1035
+ "name": "OpenTargets_get_drug_synonyms_by_chemblId",
1036
+ "description": "Retrieve the synonyms associated with a specific drug chemblId.",
1037
+ "parameter": {
1038
+ "type": "object",
1039
+ "properties": {
1040
+ "chemblId": {
1041
+ "type": "string",
1042
+ "description": "The ChEMBL ID of the drug."
1043
+ }
1044
+ },
1045
+ "required": [
1046
+ "chemblId"
1047
+ ]
1123
1048
  },
1124
- {
1125
- "name": "OpenTargets_get_associated_diseases_by_drug_chemblId",
1126
- "description": "Retrieve the list of diseases associated with a specific drug chemblId based on clinical trial data or post-marketed drugs.",
1127
- "parameter": {
1128
- "type": "object",
1129
- "properties": {
1130
- "chemblId": {
1131
- "type": "string",
1132
- "description": "The ChEMBL ID of the drug.",
1133
- "required": true
1134
- }
1135
- }
1136
- },
1137
- "query_schema": "\n query fetchLinkedDiseasesForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedDiseases {\n count\n rows {\n id\n name\n description\n }\n }\n }\n }\n ",
1138
- "label": [
1139
- "Drug",
1140
- "Disease",
1141
- "OpenTarget",
1142
- "Drug Information",
1143
- "GraphQL"
1144
- ],
1145
- "type": "OpenTarget"
1049
+ "query_schema": "\n query drugSynonyms($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n synonyms\n }\n }\n ",
1050
+ "label": [
1051
+ "OpenTarget",
1052
+ "Drug Information",
1053
+ "Drug",
1054
+ "GraphQL"
1055
+ ],
1056
+ "type": "OpenTarget"
1057
+ },
1058
+ {
1059
+ "name": "OpenTargets_get_drug_trade_names_by_chemblId",
1060
+ "description": "Retrieve the trade names associated with a specific drug chemblId.",
1061
+ "parameter": {
1062
+ "type": "object",
1063
+ "properties": {
1064
+ "chemblId": {
1065
+ "type": "string",
1066
+ "description": "The ChEMBL ID of the drug."
1067
+ }
1068
+ },
1069
+ "required": [
1070
+ "chemblId"
1071
+ ]
1146
1072
  },
1147
- {
1148
- "name": "OpenTargets_get_associated_targets_by_drug_chemblId",
1149
- "description": "Retrieve the list of targets linked to a specific drug chemblId based on its mechanism of action.",
1150
- "parameter": {
1151
- "type": "object",
1152
- "properties": {
1153
- "chemblId": {
1154
- "type": "string",
1155
- "description": "The ChEMBL ID of the drug.",
1156
- "required": true
1157
- }
1158
- }
1159
- },
1160
- "query_schema": "\n query fetchLinkedTargetsForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedTargets {\n count\n rows {\n id\n approvedSymbol\n approvedName\n }\n }\n }\n }\n ",
1161
- "label": [
1162
- "Drug",
1163
- "Target",
1164
- "MechanismsOfAction",
1165
- "OpenTarget",
1166
- "GraphQL"
1167
- ],
1168
- "type": "OpenTarget"
1073
+ "query_schema": "\n query drugTradeNames($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n tradeNames\n }\n }\n ",
1074
+ "label": [
1075
+ "Drug",
1076
+ "OpenTarget",
1077
+ "Drug Information",
1078
+ "GraphQL"
1079
+ ],
1080
+ "type": "OpenTarget"
1081
+ },
1082
+ {
1083
+ "name": "OpenTargets_get_drug_approval_status_by_chemblId",
1084
+ "description": "Retrieve the approval status of a specific drug chemblId.",
1085
+ "parameter": {
1086
+ "type": "object",
1087
+ "properties": {
1088
+ "chemblId": {
1089
+ "type": "string",
1090
+ "description": "The ChEMBL ID of the drug."
1091
+ }
1092
+ },
1093
+ "required": [
1094
+ "chemblId"
1095
+ ]
1169
1096
  },
1170
- {
1171
- "name": "OpenTargets_multi_entity_search_by_query_string",
1172
- "description": "Perform a multi-entity search based on a query string, filtering by entity names and pagination settings.",
1173
- "parameter": {
1174
- "type": "object",
1175
- "properties": {
1176
- "queryString": {
1177
- "type": "string",
1178
- "description": "The search string for querying information.",
1179
- "required": true
1180
- },
1181
- "entityNames": {
1182
- "type": "array",
1183
- "items": {
1184
- "type": "string"
1185
- },
1186
- "description": "List of entity names to search for (e.g., target, disease, drug).",
1187
- "required": false
1188
- },
1189
- "page": {
1190
- "type": "object",
1191
- "properties": {
1192
- "index": {
1193
- "type": "integer",
1194
- "description": "Pagination index.",
1195
- "required": "True"
1196
- },
1197
- "size": {
1198
- "type": "integer",
1199
- "description": "Pagination size.",
1200
- "required": "True"
1201
- }
1202
- },
1203
- "description": "Pagination settings with index and size.",
1204
- "required": false
1205
- }
1206
- }
1207
- },
1208
- "query_schema": "\n query multiEntitySearch($queryString: String!, $entityNames: [String!], $page: Pagination) {\n search(queryString: $queryString, entityNames: $entityNames, page: $page) {\n total\n hits {\n id\n entity\n description\n name\n score\n }\n }\n }\n ",
1209
- "label": [
1210
- "Search and Mapping Functions",
1211
- "MultiEntitySearch",
1212
- "Pagination",
1213
- "OpenTarget",
1214
- "GraphQL"
1215
- ],
1216
- "type": "OpenTarget"
1097
+ "query_schema": "\n query drugApprovalStatus($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n isApproved\n }\n }\n ",
1098
+ "label": [
1099
+ "Drug",
1100
+ "Drug Information",
1101
+ "GraphQL",
1102
+ "OpenTarget"
1103
+ ],
1104
+ "type": "OpenTarget"
1105
+ },
1106
+ {
1107
+ "name": "OpenTargets_get_chemical_probes_by_target_ensemblID",
1108
+ "description": "Retrieve chemical probes associated with a specific target using its ensemblID.",
1109
+ "parameter": {
1110
+ "type": "object",
1111
+ "properties": {
1112
+ "ensemblId": {
1113
+ "type": "string",
1114
+ "description": "The Ensembl ID of the target for which to retrieve chemical probes."
1115
+ }
1116
+ },
1117
+ "required": [
1118
+ "ensemblId"
1119
+ ]
1217
1120
  },
1218
- {
1219
- "name": "OpenTargets_get_gene_ontology_terms_by_goID",
1220
- "description": "Retrieve Gene Ontology terms based on a list of GO IDs.",
1221
- "parameter": {
1222
- "type": "object",
1223
- "properties": {
1224
- "goIds": {
1225
- "type": "array",
1226
- "items": {
1227
- "type": "string"
1228
- },
1229
- "description": "A list of Gene Ontology (GO) IDs to fetch the corresponding terms.",
1230
- "required": true
1231
- }
1232
- }
1121
+ "query_schema": "\n query getTargetChemicalProbes($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n chemicalProbes {\n id\n control\n drugId\n mechanismOfAction\n isHighQuality\n origin\n probeMinerScore\n probesDrugsScore\n scoreInCells\n scoreInOrganisms\n targetFromSourceId\n urls {\n niceName\n url\n }\n }\n }\n }\n ",
1122
+ "label": [
1123
+ "OpenTarget",
1124
+ "Drug Information",
1125
+ "ChemicalProbe",
1126
+ "GraphQL"
1127
+ ],
1128
+ "type": "OpenTarget"
1129
+ },
1130
+ {
1131
+ "name": "OpenTargets_drug_pharmacogenomics_data",
1132
+ "description": "Retrieve pharmacogenomics data for a specific drug, including evidence levels and genotype annotations.",
1133
+ "label": [
1134
+ "Drug",
1135
+ "Pharmacogenomics",
1136
+ "Evidence",
1137
+ "Genotype",
1138
+ "Pagination",
1139
+ "OpenTarget",
1140
+ "GraphQL"
1141
+ ],
1142
+ "parameter": {
1143
+ "type": "object",
1144
+ "properties": {
1145
+ "chemblId": {
1146
+ "type": "string",
1147
+ "description": "The ChEMBL ID of the drug."
1233
1148
  },
1234
- "query_schema": "\n query fetchGeneOntologyTerms($goIds: [String!]!) {\n geneOntologyTerms(goIds: $goIds) {\n id\n name\n }\n }\n ",
1235
- "label": [
1236
- "GeneOntology",
1237
- "Data Retrieval and Aggregation",
1238
- "OpenTarget",
1239
- "GraphQL"
1240
- ],
1241
- "type": "OpenTarget"
1242
- },
1243
- {
1244
- "name": "OpenTargets_get_target_constraint_info_by_ensemblID",
1245
- "description": "Retrieve genetic constraint information for a specific target ensemblID, including expected and observed values, and scores.",
1246
- "parameter": {
1247
- "type": "object",
1248
- "properties": {
1249
- "ensemblId": {
1250
- "type": "string",
1251
- "description": "The Ensembl ID of the target.",
1252
- "required": true
1253
- }
1149
+ "page": {
1150
+ "type": "object",
1151
+ "description": "Pagination options.",
1152
+ "properties": {
1153
+ "index": {
1154
+ "type": "integer",
1155
+ "description": "Pagination index.",
1156
+ "required": true
1157
+ },
1158
+ "size": {
1159
+ "type": "integer",
1160
+ "description": "Number of records to fetch per page.",
1161
+ "required": true
1254
1162
  }
1255
- },
1256
- "query_schema": "\n query targetConstraintInfo($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneticConstraint {\n constraintType\n exp\n obs\n oe\n oeLower\n oeUpper\n score\n upperBin\n upperBin6\n upperRank\n }\n }\n }\n ",
1257
- "label": [
1258
- "Target",
1259
- "Constraint",
1260
- "Data Retrieval and Aggregation",
1261
- "OpenTarget",
1262
- "GraphQL"
1263
- ],
1264
- "type": "OpenTarget"
1163
+ }
1164
+ }
1165
+ },
1166
+ "required": [
1167
+ "chemblId"
1168
+ ]
1265
1169
  },
1266
- {
1267
- "name": "OpenTargets_get_publications_by_disease_efoId",
1268
- "description": "Retrieve publications related to a disease efoId, including PubMed IDs and publication dates.",
1269
- "parameter": {
1270
- "type": "object",
1271
- "properties": {
1272
- "entityId": {
1273
- "type": "string",
1274
- "description": "The ID of the entity (efoId).",
1275
- "required": true
1276
- },
1277
- "additionalIds": {
1278
- "type": "array",
1279
- "items": {
1280
- "type": "string"
1281
- },
1282
- "description": "List of additional IDs to include in the search.",
1283
- "required": false
1284
- },
1285
- "startYear": {
1286
- "type": "integer",
1287
- "description": "Year at the lower end of the filter.",
1288
- "required": false
1289
- },
1290
- "startMonth": {
1291
- "type": "integer",
1292
- "description": "Month at the lower end of the filter.",
1293
- "required": false
1294
- },
1295
- "endYear": {
1296
- "type": "integer",
1297
- "description": "Year at the higher end of the filter.",
1298
- "required": false
1299
- },
1300
- "endMonth": {
1301
- "type": "integer",
1302
- "description": "Month at the higher end of the filter.",
1303
- "required": false
1304
- }
1305
- }
1170
+ "query_schema": "\n query drugPharmacogenomicsData($chemblId: String!, $page: Pagination) {\n drug(chemblId: $chemblId) {\n id\n name\n pharmacogenomics(page: $page) {\n datasourceId\n datatypeId\n genotype\n evidenceLevel\n genotypeAnnotationText\n genotypeId\n haplotypeFromSourceId\n haplotypeId\n literature\n pgxCategory\n phenotypeFromSourceId\n phenotypeText\n studyId\n targetFromSourceId\n variantFunctionalConsequenceId\n variantRsId\n isDirectTarget\n variantFunctionalConsequence {\n id\n label\n }\n drugs {\n drugId\n drug {\n name\n }\n }\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n ",
1171
+ "type": "OpenTarget"
1172
+ },
1173
+ {
1174
+ "name": "OpenTargets_get_associated_drugs_by_target_ensemblID",
1175
+ "description": "Get known drugs and information (e.g. id, name, MoA) associated with a specific target ensemblID, including clinical trial phase and mechanism of action of the drugs.",
1176
+ "parameter": {
1177
+ "type": "object",
1178
+ "properties": {
1179
+ "ensemblId": {
1180
+ "type": "string",
1181
+ "description": "The Ensembl ID of the target."
1306
1182
  },
1307
- "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n disease(efoId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1308
- "label": [
1309
- "Publications",
1310
- "Data Retrieval and Aggregation",
1311
- "GraphQL",
1312
- "OpenTarget"
1313
- ],
1314
- "type": "OpenTarget"
1183
+ "size": {
1184
+ "type": "integer",
1185
+ "description": "Number of entries to fetch."
1186
+ },
1187
+ "cursor": {
1188
+ "type": "string",
1189
+ "description": "Cursor for pagination."
1190
+ }
1191
+ },
1192
+ "required": [
1193
+ "ensemblId",
1194
+ "size"
1195
+ ]
1196
+ },
1197
+ "query_schema": "\n query targetKnownDrugs($ensemblId: String!, $size: Int!, $cursor: String) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n knownDrugs(size: $size, cursor: $cursor) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n disease {\n id\n name\n }\n }\n }\n }\n }\n ",
1198
+ "label": [
1199
+ "Target",
1200
+ "Drug",
1201
+ "MechanismsOfAction",
1202
+ "Pagination",
1203
+ "OpenTarget",
1204
+ "GraphQL"
1205
+ ],
1206
+ "type": "OpenTarget"
1207
+ },
1208
+ {
1209
+ "name": "OpenTargets_get_associated_diseases_by_drug_chemblId",
1210
+ "description": "Retrieve the list of diseases associated with a specific drug chemblId based on clinical trial data or post-marketed drugs.",
1211
+ "parameter": {
1212
+ "type": "object",
1213
+ "properties": {
1214
+ "chemblId": {
1215
+ "type": "string",
1216
+ "description": "The ChEMBL ID of the drug."
1217
+ }
1218
+ },
1219
+ "required": [
1220
+ "chemblId"
1221
+ ]
1222
+ },
1223
+ "query_schema": "\n query fetchLinkedDiseasesForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedDiseases {\n count\n rows {\n id\n name\n description\n }\n }\n }\n }\n ",
1224
+ "label": [
1225
+ "Drug",
1226
+ "Disease",
1227
+ "OpenTarget",
1228
+ "Drug Information",
1229
+ "GraphQL"
1230
+ ],
1231
+ "type": "OpenTarget"
1232
+ },
1233
+ {
1234
+ "name": "OpenTargets_get_associated_targets_by_drug_chemblId",
1235
+ "description": "Retrieve the list of targets linked to a specific drug chemblId based on its mechanism of action.",
1236
+ "parameter": {
1237
+ "type": "object",
1238
+ "properties": {
1239
+ "chemblId": {
1240
+ "type": "string",
1241
+ "description": "The ChEMBL ID of the drug."
1242
+ }
1243
+ },
1244
+ "required": [
1245
+ "chemblId"
1246
+ ]
1315
1247
  },
1316
- {
1317
- "name": "OpenTargets_get_publications_by_target_ensemblID",
1318
- "description": "Retrieve publications related to a target ensemblID, including PubMed IDs and publication dates.",
1319
- "parameter": {
1320
- "type": "object",
1321
- "properties": {
1322
- "entityId": {
1323
- "type": "string",
1324
- "description": "The ID of the entity (ensemblID).",
1325
- "required": true
1326
- },
1327
- "additionalIds": {
1328
- "type": "array",
1329
- "items": {
1330
- "type": "string"
1331
- },
1332
- "description": "List of additional IDs to include in the search.",
1333
- "required": false
1334
- },
1335
- "startYear": {
1336
- "type": "integer",
1337
- "description": "Year at the lower end of the filter.",
1338
- "required": false
1339
- },
1340
- "startMonth": {
1341
- "type": "integer",
1342
- "description": "Month at the lower end of the filter.",
1343
- "required": false
1344
- },
1345
- "endYear": {
1346
- "type": "integer",
1347
- "description": "Year at the higher end of the filter.",
1348
- "required": false
1349
- },
1350
- "endMonth": {
1351
- "type": "integer",
1352
- "description": "Month at the higher end of the filter.",
1353
- "required": false
1354
- }
1248
+ "query_schema": "\n query fetchLinkedTargetsForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedTargets {\n count\n rows {\n id\n approvedSymbol\n approvedName\n }\n }\n }\n }\n ",
1249
+ "label": [
1250
+ "Drug",
1251
+ "Target",
1252
+ "MechanismsOfAction",
1253
+ "OpenTarget",
1254
+ "GraphQL"
1255
+ ],
1256
+ "type": "OpenTarget"
1257
+ },
1258
+ {
1259
+ "name": "OpenTargets_multi_entity_search_by_query_string",
1260
+ "description": "Perform a multi-entity search based on a query string, filtering by entity names and pagination settings.",
1261
+ "parameter": {
1262
+ "type": "object",
1263
+ "properties": {
1264
+ "queryString": {
1265
+ "type": "string",
1266
+ "description": "The search string for querying information."
1267
+ },
1268
+ "entityNames": {
1269
+ "type": "array",
1270
+ "items": {
1271
+ "type": "string"
1272
+ },
1273
+ "description": "List of entity names to search for (e.g., target, disease, drug)."
1274
+ },
1275
+ "page": {
1276
+ "type": "object",
1277
+ "properties": {
1278
+ "index": {
1279
+ "type": "integer",
1280
+ "description": "Pagination index.",
1281
+ "required": "True"
1282
+ },
1283
+ "size": {
1284
+ "type": "integer",
1285
+ "description": "Pagination size.",
1286
+ "required": "True"
1355
1287
  }
1288
+ },
1289
+ "description": "Pagination settings with index and size."
1290
+ }
1291
+ },
1292
+ "required": [
1293
+ "queryString"
1294
+ ]
1295
+ },
1296
+ "query_schema": "\n query multiEntitySearch($queryString: String!, $entityNames: [String!], $page: Pagination) {\n search(queryString: $queryString, entityNames: $entityNames, page: $page) {\n total\n hits {\n id\n entity\n description\n name\n score\n }\n }\n }\n ",
1297
+ "label": [
1298
+ "Search and Mapping Functions",
1299
+ "MultiEntitySearch",
1300
+ "Pagination",
1301
+ "OpenTarget",
1302
+ "GraphQL"
1303
+ ],
1304
+ "type": "OpenTarget"
1305
+ },
1306
+ {
1307
+ "name": "OpenTargets_get_gene_ontology_terms_by_goID",
1308
+ "description": "Retrieve Gene Ontology terms based on a list of GO IDs.",
1309
+ "parameter": {
1310
+ "type": "object",
1311
+ "properties": {
1312
+ "goIds": {
1313
+ "type": "array",
1314
+ "items": {
1315
+ "type": "string"
1316
+ },
1317
+ "description": "A list of Gene Ontology (GO) IDs to fetch the corresponding terms."
1318
+ }
1319
+ },
1320
+ "required": [
1321
+ "goIds"
1322
+ ]
1323
+ },
1324
+ "query_schema": "\n query fetchGeneOntologyTerms($goIds: [String!]!) {\n geneOntologyTerms(goIds: $goIds) {\n id\n name\n }\n }\n ",
1325
+ "label": [
1326
+ "GeneOntology",
1327
+ "Data Retrieval and Aggregation",
1328
+ "OpenTarget",
1329
+ "GraphQL"
1330
+ ],
1331
+ "type": "OpenTarget"
1332
+ },
1333
+ {
1334
+ "name": "OpenTargets_get_target_constraint_info_by_ensemblID",
1335
+ "description": "Retrieve genetic constraint information for a specific target ensemblID, including expected and observed values, and scores.",
1336
+ "parameter": {
1337
+ "type": "object",
1338
+ "properties": {
1339
+ "ensemblId": {
1340
+ "type": "string",
1341
+ "description": "The Ensembl ID of the target."
1342
+ }
1343
+ },
1344
+ "required": [
1345
+ "ensemblId"
1346
+ ]
1347
+ },
1348
+ "query_schema": "\n query targetConstraintInfo($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneticConstraint {\n constraintType\n exp\n obs\n oe\n oeLower\n oeUpper\n score\n upperBin\n upperBin6\n upperRank\n }\n }\n }\n ",
1349
+ "label": [
1350
+ "Target",
1351
+ "Constraint",
1352
+ "Data Retrieval and Aggregation",
1353
+ "OpenTarget",
1354
+ "GraphQL"
1355
+ ],
1356
+ "type": "OpenTarget"
1357
+ },
1358
+ {
1359
+ "name": "OpenTargets_get_publications_by_disease_efoId",
1360
+ "description": "Retrieve publications related to a disease efoId, including PubMed IDs and publication dates.",
1361
+ "parameter": {
1362
+ "type": "object",
1363
+ "properties": {
1364
+ "entityId": {
1365
+ "type": "string",
1366
+ "description": "The ID of the entity (efoId)."
1367
+ },
1368
+ "additionalIds": {
1369
+ "type": "array",
1370
+ "items": {
1371
+ "type": "string"
1372
+ },
1373
+ "description": "List of additional IDs to include in the search."
1374
+ },
1375
+ "startYear": {
1376
+ "type": "integer",
1377
+ "description": "Year at the lower end of the filter."
1356
1378
  },
1357
- "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n target(ensemblId: $entityId) {\n id\n approvedSymbol\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1358
- "label": [
1359
- "Publications",
1360
- "Data Retrieval and Aggregation",
1361
- "GraphQL",
1362
- "OpenTarget"
1363
- ],
1364
- "type": "OpenTarget"
1379
+ "startMonth": {
1380
+ "type": "integer",
1381
+ "description": "Month at the lower end of the filter."
1382
+ },
1383
+ "endYear": {
1384
+ "type": "integer",
1385
+ "description": "Year at the higher end of the filter."
1386
+ },
1387
+ "endMonth": {
1388
+ "type": "integer",
1389
+ "description": "Month at the higher end of the filter."
1390
+ }
1391
+ },
1392
+ "required": [
1393
+ "entityId"
1394
+ ]
1365
1395
  },
1366
- {
1367
- "name": "OpenTargets_get_publications_by_drug_chemblId",
1368
- "description": "Retrieve publications related to a drug chemblId, including PubMed IDs and publication dates.",
1369
- "parameter": {
1370
- "type": "object",
1371
- "properties": {
1372
- "entityId": {
1373
- "type": "string",
1374
- "description": "The ID of the entity (chemblId).",
1375
- "required": true
1376
- },
1377
- "additionalIds": {
1378
- "type": "array",
1379
- "items": {
1380
- "type": "string"
1381
- },
1382
- "description": "List of additional IDs to include in the search.",
1383
- "required": false
1384
- },
1385
- "startYear": {
1386
- "type": "integer",
1387
- "description": "Year at the lower end of the filter.",
1388
- "required": false
1389
- },
1390
- "startMonth": {
1391
- "type": "integer",
1392
- "description": "Month at the lower end of the filter.",
1393
- "required": false
1394
- },
1395
- "endYear": {
1396
- "type": "integer",
1397
- "description": "Year at the higher end of the filter.",
1398
- "required": false
1399
- },
1400
- "endMonth": {
1401
- "type": "integer",
1402
- "description": "Month at the higher end of the filter.",
1403
- "required": false
1404
- }
1405
- }
1396
+ "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n disease(efoId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1397
+ "label": [
1398
+ "Publications",
1399
+ "Data Retrieval and Aggregation",
1400
+ "GraphQL",
1401
+ "OpenTarget"
1402
+ ],
1403
+ "type": "OpenTarget"
1404
+ },
1405
+ {
1406
+ "name": "OpenTargets_get_publications_by_target_ensemblID",
1407
+ "description": "Retrieve publications related to a target ensemblID, including PubMed IDs and publication dates.",
1408
+ "parameter": {
1409
+ "type": "object",
1410
+ "properties": {
1411
+ "entityId": {
1412
+ "type": "string",
1413
+ "description": "The ID of the entity (ensemblID)."
1414
+ },
1415
+ "additionalIds": {
1416
+ "type": "array",
1417
+ "items": {
1418
+ "type": "string"
1419
+ },
1420
+ "description": "List of additional IDs to include in the search."
1421
+ },
1422
+ "startYear": {
1423
+ "type": "integer",
1424
+ "description": "Year at the lower end of the filter."
1425
+ },
1426
+ "startMonth": {
1427
+ "type": "integer",
1428
+ "description": "Month at the lower end of the filter."
1429
+ },
1430
+ "endYear": {
1431
+ "type": "integer",
1432
+ "description": "Year at the higher end of the filter."
1406
1433
  },
1407
- "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n drug(chemblId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1408
- "label": [
1409
- "Publications",
1410
- "Data Retrieval and Aggregation",
1411
- "GraphQL",
1412
- "OpenTarget"
1413
- ],
1414
- "type": "OpenTarget"
1434
+ "endMonth": {
1435
+ "type": "integer",
1436
+ "description": "Month at the higher end of the filter."
1437
+ }
1438
+ },
1439
+ "required": [
1440
+ "entityId"
1441
+ ]
1415
1442
  },
1416
- {
1417
- "name": "OpenTargets_get_target_id_description_by_name",
1418
- "description": "Get the ensemblId and description based on the target name.",
1419
- "parameter": {
1420
- "type": "object",
1421
- "properties": {
1422
- "targetName": {
1423
- "type": "string",
1424
- "description": "The name of the target for which the ID is required.",
1425
- "required": true
1426
- }
1427
- }
1443
+ "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n target(ensemblId: $entityId) {\n id\n approvedSymbol\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1444
+ "label": [
1445
+ "Publications",
1446
+ "Data Retrieval and Aggregation",
1447
+ "GraphQL",
1448
+ "OpenTarget"
1449
+ ],
1450
+ "type": "OpenTarget"
1451
+ },
1452
+ {
1453
+ "name": "OpenTargets_get_publications_by_drug_chemblId",
1454
+ "description": "Retrieve publications related to a drug chemblId, including PubMed IDs and publication dates.",
1455
+ "parameter": {
1456
+ "type": "object",
1457
+ "properties": {
1458
+ "entityId": {
1459
+ "type": "string",
1460
+ "description": "The ID of the entity (chemblId)."
1461
+ },
1462
+ "additionalIds": {
1463
+ "type": "array",
1464
+ "items": {
1465
+ "type": "string"
1466
+ },
1467
+ "description": "List of additional IDs to include in the search."
1468
+ },
1469
+ "startYear": {
1470
+ "type": "integer",
1471
+ "description": "Year at the lower end of the filter."
1472
+ },
1473
+ "startMonth": {
1474
+ "type": "integer",
1475
+ "description": "Month at the lower end of the filter."
1428
1476
  },
1429
- "query_schema": "\n query getTargetIdByName($targetName: String!) {\n search(queryString: $targetName, entityNames: [\"target\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
1430
- "label": [
1431
- "Search",
1432
- "Name",
1433
- "Target",
1434
- "OpenTarget",
1435
- "GraphQL"
1436
- ],
1437
- "type": "OpenTarget"
1438
- }
1477
+ "endYear": {
1478
+ "type": "integer",
1479
+ "description": "Year at the higher end of the filter."
1480
+ },
1481
+ "endMonth": {
1482
+ "type": "integer",
1483
+ "description": "Month at the higher end of the filter."
1484
+ }
1485
+ },
1486
+ "required": [
1487
+ "entityId"
1488
+ ]
1489
+ },
1490
+ "query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n drug(chemblId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
1491
+ "label": [
1492
+ "Publications",
1493
+ "Data Retrieval and Aggregation",
1494
+ "GraphQL",
1495
+ "OpenTarget"
1496
+ ],
1497
+ "type": "OpenTarget"
1498
+ },
1499
+ {
1500
+ "name": "OpenTargets_get_target_id_description_by_name",
1501
+ "description": "Get the ensemblId and description based on the target name.",
1502
+ "parameter": {
1503
+ "type": "object",
1504
+ "properties": {
1505
+ "targetName": {
1506
+ "type": "string",
1507
+ "description": "The name of the target for which the ID is required."
1508
+ }
1509
+ },
1510
+ "required": [
1511
+ "targetName"
1512
+ ]
1513
+ },
1514
+ "query_schema": "\n query getTargetIdByName($targetName: String!) {\n search(queryString: $targetName, entityNames: [\"target\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
1515
+ "label": [
1516
+ "Search",
1517
+ "Name",
1518
+ "Target",
1519
+ "OpenTarget",
1520
+ "GraphQL"
1521
+ ],
1522
+ "type": "OpenTarget"
1523
+ }
1439
1524
  ]