tooluniverse 0.1.4__py3-none-any.whl → 1.0.0__py3-none-any.whl

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  1. tooluniverse/__init__.py +340 -4
  2. tooluniverse/admetai_tool.py +84 -0
  3. tooluniverse/agentic_tool.py +563 -0
  4. tooluniverse/alphafold_tool.py +96 -0
  5. tooluniverse/base_tool.py +129 -6
  6. tooluniverse/boltz_tool.py +207 -0
  7. tooluniverse/chem_tool.py +192 -0
  8. tooluniverse/compose_scripts/__init__.py +1 -0
  9. tooluniverse/compose_scripts/biomarker_discovery.py +293 -0
  10. tooluniverse/compose_scripts/comprehensive_drug_discovery.py +186 -0
  11. tooluniverse/compose_scripts/drug_safety_analyzer.py +89 -0
  12. tooluniverse/compose_scripts/literature_tool.py +34 -0
  13. tooluniverse/compose_scripts/output_summarizer.py +279 -0
  14. tooluniverse/compose_scripts/tool_description_optimizer.py +681 -0
  15. tooluniverse/compose_scripts/tool_discover.py +705 -0
  16. tooluniverse/compose_scripts/tool_graph_composer.py +448 -0
  17. tooluniverse/compose_tool.py +371 -0
  18. tooluniverse/ctg_tool.py +1002 -0
  19. tooluniverse/custom_tool.py +81 -0
  20. tooluniverse/dailymed_tool.py +108 -0
  21. tooluniverse/data/admetai_tools.json +155 -0
  22. tooluniverse/data/agentic_tools.json +1156 -0
  23. tooluniverse/data/alphafold_tools.json +87 -0
  24. tooluniverse/data/boltz_tools.json +9 -0
  25. tooluniverse/data/chembl_tools.json +16 -0
  26. tooluniverse/data/clait_tools.json +108 -0
  27. tooluniverse/data/clinicaltrials_gov_tools.json +326 -0
  28. tooluniverse/data/compose_tools.json +202 -0
  29. tooluniverse/data/dailymed_tools.json +70 -0
  30. tooluniverse/data/dataset_tools.json +646 -0
  31. tooluniverse/data/disease_target_score_tools.json +712 -0
  32. tooluniverse/data/efo_tools.json +17 -0
  33. tooluniverse/data/embedding_tools.json +319 -0
  34. tooluniverse/data/enrichr_tools.json +31 -0
  35. tooluniverse/data/europe_pmc_tools.json +22 -0
  36. tooluniverse/data/expert_feedback_tools.json +10 -0
  37. tooluniverse/data/fda_drug_adverse_event_tools.json +491 -0
  38. tooluniverse/data/fda_drug_labeling_tools.json +544 -168
  39. tooluniverse/data/fda_drugs_with_brand_generic_names_for_tool.py +76929 -148860
  40. tooluniverse/data/finder_tools.json +209 -0
  41. tooluniverse/data/gene_ontology_tools.json +113 -0
  42. tooluniverse/data/gwas_tools.json +1082 -0
  43. tooluniverse/data/hpa_tools.json +333 -0
  44. tooluniverse/data/humanbase_tools.json +47 -0
  45. tooluniverse/data/idmap_tools.json +74 -0
  46. tooluniverse/data/mcp_client_tools_example.json +113 -0
  47. tooluniverse/data/mcpautoloadertool_defaults.json +28 -0
  48. tooluniverse/data/medlineplus_tools.json +141 -0
  49. tooluniverse/data/monarch_tools.json +1 -1
  50. tooluniverse/data/openalex_tools.json +36 -0
  51. tooluniverse/data/opentarget_tools.json +82 -58
  52. tooluniverse/data/output_summarization_tools.json +101 -0
  53. tooluniverse/data/packages/bioinformatics_core_tools.json +1756 -0
  54. tooluniverse/data/packages/categorized_tools.txt +206 -0
  55. tooluniverse/data/packages/cheminformatics_tools.json +347 -0
  56. tooluniverse/data/packages/earth_sciences_tools.json +74 -0
  57. tooluniverse/data/packages/genomics_tools.json +776 -0
  58. tooluniverse/data/packages/image_processing_tools.json +38 -0
  59. tooluniverse/data/packages/machine_learning_tools.json +789 -0
  60. tooluniverse/data/packages/neuroscience_tools.json +62 -0
  61. tooluniverse/data/packages/original_tools.txt +0 -0
  62. tooluniverse/data/packages/physics_astronomy_tools.json +62 -0
  63. tooluniverse/data/packages/scientific_computing_tools.json +560 -0
  64. tooluniverse/data/packages/single_cell_tools.json +453 -0
  65. tooluniverse/data/packages/software_tools.json +4954 -0
  66. tooluniverse/data/packages/structural_biology_tools.json +396 -0
  67. tooluniverse/data/packages/visualization_tools.json +399 -0
  68. tooluniverse/data/pubchem_tools.json +215 -0
  69. tooluniverse/data/pubtator_tools.json +68 -0
  70. tooluniverse/data/rcsb_pdb_tools.json +1332 -0
  71. tooluniverse/data/reactome_tools.json +19 -0
  72. tooluniverse/data/semantic_scholar_tools.json +26 -0
  73. tooluniverse/data/special_tools.json +2 -25
  74. tooluniverse/data/tool_composition_tools.json +88 -0
  75. tooluniverse/data/toolfinderkeyword_defaults.json +34 -0
  76. tooluniverse/data/txagent_client_tools.json +9 -0
  77. tooluniverse/data/uniprot_tools.json +211 -0
  78. tooluniverse/data/url_fetch_tools.json +94 -0
  79. tooluniverse/data/uspto_downloader_tools.json +9 -0
  80. tooluniverse/data/uspto_tools.json +811 -0
  81. tooluniverse/data/xml_tools.json +3275 -0
  82. tooluniverse/dataset_tool.py +296 -0
  83. tooluniverse/default_config.py +165 -0
  84. tooluniverse/efo_tool.py +42 -0
  85. tooluniverse/embedding_database.py +630 -0
  86. tooluniverse/embedding_sync.py +396 -0
  87. tooluniverse/enrichr_tool.py +266 -0
  88. tooluniverse/europe_pmc_tool.py +52 -0
  89. tooluniverse/execute_function.py +1775 -95
  90. tooluniverse/extended_hooks.py +444 -0
  91. tooluniverse/gene_ontology_tool.py +194 -0
  92. tooluniverse/graphql_tool.py +158 -36
  93. tooluniverse/gwas_tool.py +358 -0
  94. tooluniverse/hpa_tool.py +1645 -0
  95. tooluniverse/humanbase_tool.py +389 -0
  96. tooluniverse/logging_config.py +254 -0
  97. tooluniverse/mcp_client_tool.py +764 -0
  98. tooluniverse/mcp_integration.py +413 -0
  99. tooluniverse/mcp_tool_registry.py +925 -0
  100. tooluniverse/medlineplus_tool.py +337 -0
  101. tooluniverse/openalex_tool.py +228 -0
  102. tooluniverse/openfda_adv_tool.py +283 -0
  103. tooluniverse/openfda_tool.py +393 -160
  104. tooluniverse/output_hook.py +1122 -0
  105. tooluniverse/package_tool.py +195 -0
  106. tooluniverse/pubchem_tool.py +158 -0
  107. tooluniverse/pubtator_tool.py +168 -0
  108. tooluniverse/rcsb_pdb_tool.py +38 -0
  109. tooluniverse/reactome_tool.py +108 -0
  110. tooluniverse/remote/boltz/boltz_mcp_server.py +50 -0
  111. tooluniverse/remote/depmap_24q2/depmap_24q2_mcp_tool.py +442 -0
  112. tooluniverse/remote/expert_feedback/human_expert_mcp_tools.py +2013 -0
  113. tooluniverse/remote/expert_feedback/simple_test.py +23 -0
  114. tooluniverse/remote/expert_feedback/start_web_interface.py +188 -0
  115. tooluniverse/remote/expert_feedback/web_only_interface.py +0 -0
  116. tooluniverse/remote/expert_feedback_mcp/human_expert_mcp_server.py +1611 -0
  117. tooluniverse/remote/expert_feedback_mcp/simple_test.py +34 -0
  118. tooluniverse/remote/expert_feedback_mcp/start_web_interface.py +91 -0
  119. tooluniverse/remote/immune_compass/compass_tool.py +327 -0
  120. tooluniverse/remote/pinnacle/pinnacle_tool.py +328 -0
  121. tooluniverse/remote/transcriptformer/transcriptformer_tool.py +586 -0
  122. tooluniverse/remote/uspto_downloader/uspto_downloader_mcp_server.py +61 -0
  123. tooluniverse/remote/uspto_downloader/uspto_downloader_tool.py +120 -0
  124. tooluniverse/remote_tool.py +99 -0
  125. tooluniverse/restful_tool.py +53 -30
  126. tooluniverse/scripts/generate_tool_graph.py +408 -0
  127. tooluniverse/scripts/visualize_tool_graph.py +829 -0
  128. tooluniverse/semantic_scholar_tool.py +62 -0
  129. tooluniverse/smcp.py +2452 -0
  130. tooluniverse/smcp_server.py +975 -0
  131. tooluniverse/test/mcp_server_test.py +0 -0
  132. tooluniverse/test/test_admetai_tool.py +370 -0
  133. tooluniverse/test/test_agentic_tool.py +129 -0
  134. tooluniverse/test/test_alphafold_tool.py +71 -0
  135. tooluniverse/test/test_chem_tool.py +37 -0
  136. tooluniverse/test/test_compose_lieraturereview.py +63 -0
  137. tooluniverse/test/test_compose_tool.py +448 -0
  138. tooluniverse/test/test_dailymed.py +69 -0
  139. tooluniverse/test/test_dataset_tool.py +200 -0
  140. tooluniverse/test/test_disease_target_score.py +56 -0
  141. tooluniverse/test/test_drugbank_filter_examples.py +179 -0
  142. tooluniverse/test/test_efo.py +31 -0
  143. tooluniverse/test/test_enrichr_tool.py +21 -0
  144. tooluniverse/test/test_europe_pmc_tool.py +20 -0
  145. tooluniverse/test/test_fda_adv.py +95 -0
  146. tooluniverse/test/test_fda_drug_labeling.py +91 -0
  147. tooluniverse/test/test_gene_ontology_tools.py +66 -0
  148. tooluniverse/test/test_gwas_tool.py +139 -0
  149. tooluniverse/test/test_hpa.py +625 -0
  150. tooluniverse/test/test_humanbase_tool.py +20 -0
  151. tooluniverse/test/test_idmap_tools.py +61 -0
  152. tooluniverse/test/test_mcp_server.py +211 -0
  153. tooluniverse/test/test_mcp_tool.py +247 -0
  154. tooluniverse/test/test_medlineplus.py +220 -0
  155. tooluniverse/test/test_openalex_tool.py +32 -0
  156. tooluniverse/test/test_opentargets.py +28 -0
  157. tooluniverse/test/test_pubchem_tool.py +116 -0
  158. tooluniverse/test/test_pubtator_tool.py +37 -0
  159. tooluniverse/test/test_rcsb_pdb_tool.py +86 -0
  160. tooluniverse/test/test_reactome.py +54 -0
  161. tooluniverse/test/test_semantic_scholar_tool.py +24 -0
  162. tooluniverse/test/test_software_tools.py +147 -0
  163. tooluniverse/test/test_tool_description_optimizer.py +49 -0
  164. tooluniverse/test/test_tool_finder.py +26 -0
  165. tooluniverse/test/test_tool_finder_llm.py +252 -0
  166. tooluniverse/test/test_tools_find.py +195 -0
  167. tooluniverse/test/test_uniprot_tools.py +74 -0
  168. tooluniverse/test/test_uspto_tool.py +72 -0
  169. tooluniverse/test/test_xml_tool.py +113 -0
  170. tooluniverse/tool_finder_embedding.py +267 -0
  171. tooluniverse/tool_finder_keyword.py +693 -0
  172. tooluniverse/tool_finder_llm.py +699 -0
  173. tooluniverse/tool_graph_web_ui.py +955 -0
  174. tooluniverse/tool_registry.py +416 -0
  175. tooluniverse/uniprot_tool.py +155 -0
  176. tooluniverse/url_tool.py +253 -0
  177. tooluniverse/uspto_tool.py +240 -0
  178. tooluniverse/utils.py +369 -41
  179. tooluniverse/xml_tool.py +369 -0
  180. tooluniverse-1.0.0.dist-info/METADATA +377 -0
  181. tooluniverse-1.0.0.dist-info/RECORD +186 -0
  182. {tooluniverse-0.1.4.dist-info → tooluniverse-1.0.0.dist-info}/WHEEL +1 -1
  183. tooluniverse-1.0.0.dist-info/entry_points.txt +9 -0
  184. tooluniverse-0.1.4.dist-info/METADATA +0 -141
  185. tooluniverse-0.1.4.dist-info/RECORD +0 -18
  186. {tooluniverse-0.1.4.dist-info → tooluniverse-1.0.0.dist-info}/licenses/LICENSE +0 -0
  187. {tooluniverse-0.1.4.dist-info → tooluniverse-1.0.0.dist-info}/top_level.txt +0 -0
tooluniverse/data/gwas_tools.json ADDED
@@ -0,0 +1,1082 @@
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+ [
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+ {
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+ "type": "GWASAssociationSearch",
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+ "name": "gwas_search_associations",
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+ "description": "Search for GWAS associations by various criteria including EFO trait, rs ID, accession ID, with sorting and pagination support.",
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+ "parameter": {
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+ "type": "object",
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+ "properties": {
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+ "efo_trait": {
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+ "type": "string",
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+ "description": "EFO trait identifier or name",
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+ "required": false
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+ },
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+ "rs_id": {
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+ "type": "string",
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+ "description": "dbSNP rs identifier",
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+ "required": false
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+ },
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+ "accession_id": {
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+ "type": "string",
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+ "description": "Study accession identifier",
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+ "required": false
23
+ },
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+ "sort": {
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+ "type": "string",
26
+ "description": "Sort field (e.g., 'p_value', 'or_value')",
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+ "required": false
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+ },
29
+ "direction": {
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+ "type": "string",
31
+ "description": "Sort direction ('asc' or 'desc')",
32
+ "required": false
33
+ },
34
+ "size": {
35
+ "type": "integer",
36
+ "description": "Number of results to return",
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+ "required": false
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+ },
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+ "page": {
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+ "type": "integer",
41
+ "description": "Page number for pagination",
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+ "required": false
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+ }
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+ }
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+ },
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+ "label": [
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+ "GWAS",
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+ "Association",
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+ "Genetics",
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+ "Search"
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+ ],
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+ "return_schema": {
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+ "type": "object",
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+ "description": "GWAS associations search results with pagination metadata",
55
+ "properties": {
56
+ "data": {
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+ "type": "array",
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+ "description": "Array of GWAS association objects",
59
+ "items": {
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+ "type": "object",
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+ "properties": {
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+ "association_id": {"type": "integer", "description": "Unique association identifier"},
63
+ "p_value": {"type": "number", "description": "Statistical p-value"},
64
+ "beta": {"type": "string", "description": "Effect size (beta coefficient)"},
65
+ "efo_traits": {
66
+ "type": "array",
67
+ "items": {
68
+ "type": "object",
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+ "properties": {
70
+ "efo_id": {"type": "string"},
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+ "efo_trait": {"type": "string"}
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+ }
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+ }
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+ },
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+ "reported_trait": {"type": "array", "items": {"type": "string"}},
76
+ "accession_id": {"type": "string", "description": "Study accession ID"},
77
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
78
+ "first_author": {"type": "string", "description": "First author name"},
79
+ "snp_effect_allele": {"type": "array", "items": {"type": "string"}},
80
+ "snp_allele": {
81
+ "type": "array",
82
+ "items": {
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+ "type": "object",
84
+ "properties": {
85
+ "rs_id": {"type": "string"},
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+ "effect_allele": {"type": "string"}
87
+ }
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+ }
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+ },
90
+ "locations": {"type": "array", "items": {"type": "string"}},
91
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
92
+ "ci_lower": {"type": "number", "description": "Lower confidence interval"},
93
+ "ci_upper": {"type": "number", "description": "Upper confidence interval"},
94
+ "risk_frequency": {"type": "string", "description": "Risk allele frequency"},
95
+ "range": {"type": "string", "description": "Effect size range"},
96
+ "_links": {"type": "object", "description": "API links"}
97
+ }
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+ }
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+ },
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+ "metadata": {
101
+ "type": "object",
102
+ "description": "Pagination and navigation metadata",
103
+ "properties": {
104
+ "pagination": {
105
+ "type": "object",
106
+ "properties": {
107
+ "size": {"type": "integer"},
108
+ "totalElements": {"type": "integer"},
109
+ "totalPages": {"type": "integer"},
110
+ "number": {"type": "integer"}
111
+ }
112
+ },
113
+ "links": {"type": "object", "description": "Navigation links"}
114
+ }
115
+ }
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+ }
117
+ }
118
+ },
119
+ {
120
+ "type": "GWASStudySearch",
121
+ "name": "gwas_search_studies",
122
+ "description": "Search for GWAS studies by various criteria including EFO trait, disease trait, cohort, GxE interactions, and summary statistics availability.",
123
+ "parameter": {
124
+ "type": "object",
125
+ "properties": {
126
+ "efo_trait": {
127
+ "type": "string",
128
+ "description": "EFO trait identifier or name",
129
+ "required": false
130
+ },
131
+ "disease_trait": {
132
+ "type": "string",
133
+ "description": "Disease trait name",
134
+ "required": false
135
+ },
136
+ "cohort": {
137
+ "type": "string",
138
+ "description": "Cohort name (e.g., 'UKB' for UK Biobank)",
139
+ "required": false
140
+ },
141
+ "gxe": {
142
+ "type": "boolean",
143
+ "description": "Filter for Gene-by-Environment interaction studies",
144
+ "required": false
145
+ },
146
+ "full_pvalue_set": {
147
+ "type": "boolean",
148
+ "description": "Filter for studies with full summary statistics",
149
+ "required": false
150
+ },
151
+ "size": {
152
+ "type": "integer",
153
+ "description": "Number of results to return",
154
+ "required": false
155
+ },
156
+ "page": {
157
+ "type": "integer",
158
+ "description": "Page number for pagination",
159
+ "required": false
160
+ }
161
+ }
162
+ },
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+ "label": [
164
+ "GWAS",
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+ "Study",
166
+ "Research",
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+ "Search"
168
+ ],
169
+ "return_schema": {
170
+ "type": "object",
171
+ "description": "GWAS studies search results with pagination metadata",
172
+ "properties": {
173
+ "data": {
174
+ "type": "array",
175
+ "description": "Array of GWAS study objects",
176
+ "items": {
177
+ "type": "object",
178
+ "properties": {
179
+ "accession_id": {"type": "string", "description": "Study accession identifier"},
180
+ "disease_trait": {"type": "string", "description": "Disease or trait name"},
181
+ "efo_traits": {
182
+ "type": "array",
183
+ "items": {
184
+ "type": "object",
185
+ "properties": {
186
+ "efo_id": {"type": "string"},
187
+ "efo_trait": {"type": "string"}
188
+ }
189
+ }
190
+ },
191
+ "initial_sample_size": {"type": "string", "description": "Initial sample size description"},
192
+ "replication_sample_size": {"type": "string", "description": "Replication sample size"},
193
+ "discovery_ancestry": {"type": "array", "items": {"type": "string"}},
194
+ "replication_ancestry": {"type": "array", "items": {"type": "string"}},
195
+ "cohort": {"type": "array", "items": {"type": "string"}},
196
+ "genotyping_technologies": {"type": "array", "items": {"type": "string"}},
197
+ "platforms": {"type": "string", "description": "Genotyping platforms used"},
198
+ "snp_count": {"type": "integer", "description": "Number of SNPs analyzed"},
199
+ "imputed": {"type": "boolean", "description": "Whether data was imputed"},
200
+ "pooled": {"type": "boolean", "description": "Whether data was pooled"},
201
+ "gxe": {"type": "boolean", "description": "Gene-environment interaction study"},
202
+ "gxg": {"type": "boolean", "description": "Gene-gene interaction study"},
203
+ "full_summary_stats_available": {"type": "boolean", "description": "Full summary statistics available"},
204
+ "full_summary_stats": {"type": "string", "description": "URL to full summary statistics"},
205
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
206
+ "terms_of_license": {"type": "string", "description": "Data usage license"},
207
+ "array_manufacturer": {"type": "array", "items": {"type": "string"}},
208
+ "_links": {"type": "object", "description": "API links"}
209
+ }
210
+ }
211
+ },
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+ "metadata": {
213
+ "type": "object",
214
+ "description": "Pagination and navigation metadata",
215
+ "properties": {
216
+ "pagination": {
217
+ "type": "object",
218
+ "properties": {
219
+ "size": {"type": "integer"},
220
+ "totalElements": {"type": "integer"},
221
+ "totalPages": {"type": "integer"},
222
+ "number": {"type": "integer"}
223
+ }
224
+ },
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+ "links": {"type": "object", "description": "Navigation links"}
226
+ }
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+ }
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+ }
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+ }
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+ },
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+ {
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+ "type": "GWASSNPSearch",
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+ "name": "gwas_search_snps",
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+ "description": "Search for GWAS single nucleotide polymorphisms (SNPs) by rs ID or mapped gene.",
235
+ "parameter": {
236
+ "type": "object",
237
+ "properties": {
238
+ "rs_id": {
239
+ "type": "string",
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+ "description": "dbSNP rs identifier",
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+ "required": false
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+ },
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+ "mapped_gene": {
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+ "type": "string",
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+ "description": "Gene name or symbol",
246
+ "required": false
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+ },
248
+ "size": {
249
+ "type": "integer",
250
+ "description": "Number of results to return",
251
+ "required": false
252
+ },
253
+ "page": {
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+ "type": "integer",
255
+ "description": "Page number for pagination",
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+ "required": false
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+ }
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+ }
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+ },
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+ "label": [
261
+ "GWAS",
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+ "SNP",
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+ "Variant",
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+ "Search"
265
+ ],
266
+ "return_schema": {
267
+ "type": "object",
268
+ "description": "GWAS SNPs search results with pagination metadata",
269
+ "properties": {
270
+ "data": {
271
+ "type": "array",
272
+ "description": "Array of SNP objects",
273
+ "items": {
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+ "type": "object",
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+ "properties": {
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+ "rs_id": {"type": "string", "description": "dbSNP rs identifier"},
277
+ "merged": {"type": "integer", "description": "Merged status"},
278
+ "functional_class": {"type": "string", "description": "Functional classification"},
279
+ "last_update_date": {"type": "string", "description": "Last update timestamp"},
280
+ "locations": {
281
+ "type": "array",
282
+ "items": {
283
+ "type": "object",
284
+ "properties": {
285
+ "chromosome_name": {"type": "string"},
286
+ "chromosome_position": {"type": "integer"},
287
+ "region": {
288
+ "type": "object",
289
+ "properties": {
290
+ "name": {"type": "string"}
291
+ }
292
+ }
293
+ }
294
+ }
295
+ },
296
+ "alleles": {"type": "string", "description": "Allele information"},
297
+ "most_severe_consequence": {"type": "string", "description": "Most severe functional consequence"},
298
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
299
+ "maf": {"type": "number", "description": "Minor allele frequency"},
300
+ "minor_allele": {"type": "string", "description": "Minor allele"},
301
+ "_links": {"type": "object", "description": "API links"}
302
+ }
303
+ }
304
+ },
305
+ "metadata": {
306
+ "type": "object",
307
+ "description": "Pagination and navigation metadata",
308
+ "properties": {
309
+ "pagination": {
310
+ "type": "object",
311
+ "properties": {
312
+ "size": {"type": "integer"},
313
+ "totalElements": {"type": "integer"},
314
+ "totalPages": {"type": "integer"},
315
+ "number": {"type": "integer"}
316
+ }
317
+ },
318
+ "links": {"type": "object", "description": "Navigation links"}
319
+ }
320
+ }
321
+ }
322
+ }
323
+ },
324
+ {
325
+ "type": "GWASAssociationByID",
326
+ "name": "gwas_get_association_by_id",
327
+ "description": "Get a specific GWAS association by its unique identifier.",
328
+ "parameter": {
329
+ "type": "object",
330
+ "properties": {
331
+ "association_id": {
332
+ "type": "string",
333
+ "description": "GWAS association identifier",
334
+ "required": true
335
+ }
336
+ }
337
+ },
338
+ "label": [
339
+ "GWAS",
340
+ "Association",
341
+ "Lookup"
342
+ ],
343
+ "return_schema": {
344
+ "type": "object",
345
+ "description": "Single GWAS association object",
346
+ "properties": {
347
+ "association_id": {"type": "integer", "description": "Unique association identifier"},
348
+ "p_value": {"type": "number", "description": "Statistical p-value"},
349
+ "beta": {"type": "string", "description": "Effect size (beta coefficient)"},
350
+ "efo_traits": {
351
+ "type": "array",
352
+ "items": {
353
+ "type": "object",
354
+ "properties": {
355
+ "efo_id": {"type": "string"},
356
+ "efo_trait": {"type": "string"}
357
+ }
358
+ }
359
+ },
360
+ "reported_trait": {"type": "array", "items": {"type": "string"}},
361
+ "accession_id": {"type": "string", "description": "Study accession ID"},
362
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
363
+ "first_author": {"type": "string", "description": "First author name"},
364
+ "snp_effect_allele": {"type": "array", "items": {"type": "string"}},
365
+ "snp_allele": {
366
+ "type": "array",
367
+ "items": {
368
+ "type": "object",
369
+ "properties": {
370
+ "rs_id": {"type": "string"},
371
+ "effect_allele": {"type": "string"}
372
+ }
373
+ }
374
+ },
375
+ "locations": {"type": "array", "items": {"type": "string"}},
376
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
377
+ "ci_lower": {"type": "number", "description": "Lower confidence interval"},
378
+ "ci_upper": {"type": "number", "description": "Upper confidence interval"},
379
+ "risk_frequency": {"type": "string", "description": "Risk allele frequency"},
380
+ "range": {"type": "string", "description": "Effect size range"},
381
+ "_links": {"type": "object", "description": "API links"}
382
+ }
383
+ }
384
+ },
385
+ {
386
+ "type": "GWASStudyByID",
387
+ "name": "gwas_get_study_by_id",
388
+ "description": "Get a specific GWAS study by its unique identifier.",
389
+ "parameter": {
390
+ "type": "object",
391
+ "properties": {
392
+ "study_id": {
393
+ "type": "string",
394
+ "description": "GWAS study identifier",
395
+ "required": true
396
+ }
397
+ }
398
+ },
399
+ "label": [
400
+ "GWAS",
401
+ "Study",
402
+ "Lookup"
403
+ ],
404
+ "return_schema": {
405
+ "type": "object",
406
+ "description": "Single GWAS study object",
407
+ "properties": {
408
+ "accession_id": {"type": "string", "description": "Study accession identifier"},
409
+ "disease_trait": {"type": "string", "description": "Disease or trait name"},
410
+ "efo_traits": {
411
+ "type": "array",
412
+ "items": {
413
+ "type": "object",
414
+ "properties": {
415
+ "efo_id": {"type": "string"},
416
+ "efo_trait": {"type": "string"}
417
+ }
418
+ }
419
+ },
420
+ "initial_sample_size": {"type": "string", "description": "Initial sample size description"},
421
+ "replication_sample_size": {"type": "string", "description": "Replication sample size"},
422
+ "discovery_ancestry": {"type": "array", "items": {"type": "string"}},
423
+ "replication_ancestry": {"type": "array", "items": {"type": "string"}},
424
+ "cohort": {"type": "array", "items": {"type": "string"}},
425
+ "genotyping_technologies": {"type": "array", "items": {"type": "string"}},
426
+ "platforms": {"type": "string", "description": "Genotyping platforms used"},
427
+ "snp_count": {"type": "integer", "description": "Number of SNPs analyzed"},
428
+ "imputed": {"type": "boolean", "description": "Whether data was imputed"},
429
+ "pooled": {"type": "boolean", "description": "Whether data was pooled"},
430
+ "gxe": {"type": "boolean", "description": "Gene-environment interaction study"},
431
+ "gxg": {"type": "boolean", "description": "Gene-gene interaction study"},
432
+ "full_summary_stats_available": {"type": "boolean", "description": "Full summary statistics available"},
433
+ "full_summary_stats": {"type": "string", "description": "URL to full summary statistics"},
434
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
435
+ "terms_of_license": {"type": "string", "description": "Data usage license"},
436
+ "array_manufacturer": {"type": "array", "items": {"type": "string"}},
437
+ "_links": {"type": "object", "description": "API links"}
438
+ }
439
+ }
440
+ },
441
+ {
442
+ "type": "GWASSNPByID",
443
+ "name": "gwas_get_snp_by_id",
444
+ "description": "Get a specific GWAS SNP by its rs ID.",
445
+ "parameter": {
446
+ "type": "object",
447
+ "properties": {
448
+ "rs_id": {
449
+ "type": "string",
450
+ "description": "dbSNP rs identifier",
451
+ "required": true
452
+ }
453
+ }
454
+ },
455
+ "label": [
456
+ "GWAS",
457
+ "SNP",
458
+ "Lookup"
459
+ ],
460
+ "return_schema": {
461
+ "type": "object",
462
+ "description": "Single SNP object",
463
+ "properties": {
464
+ "rs_id": {"type": "string", "description": "dbSNP rs identifier"},
465
+ "merged": {"type": "integer", "description": "Merged status"},
466
+ "functional_class": {"type": "string", "description": "Functional classification"},
467
+ "last_update_date": {"type": "string", "description": "Last update timestamp"},
468
+ "locations": {
469
+ "type": "array",
470
+ "items": {
471
+ "type": "object",
472
+ "properties": {
473
+ "chromosome_name": {"type": "string"},
474
+ "chromosome_position": {"type": "integer"},
475
+ "region": {
476
+ "type": "object",
477
+ "properties": {
478
+ "name": {"type": "string"}
479
+ }
480
+ }
481
+ }
482
+ }
483
+ },
484
+ "alleles": {"type": "string", "description": "Allele information"},
485
+ "most_severe_consequence": {"type": "string", "description": "Most severe functional consequence"},
486
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
487
+ "maf": {"type": "number", "description": "Minor allele frequency"},
488
+ "minor_allele": {"type": "string", "description": "Minor allele"},
489
+ "_links": {"type": "object", "description": "API links"}
490
+ }
491
+ }
492
+ },
493
+ {
494
+ "type": "GWASVariantsForTrait",
495
+ "name": "gwas_get_variants_for_trait",
496
+ "description": "Get all variants associated with a specific trait with pagination support.",
497
+ "parameter": {
498
+ "type": "object",
499
+ "properties": {
500
+ "efo_trait": {
501
+ "type": "string",
502
+ "description": "EFO trait identifier or name",
503
+ "required": true
504
+ },
505
+ "size": {
506
+ "type": "integer",
507
+ "description": "Number of results to return per page",
508
+ "required": false
509
+ },
510
+ "page": {
511
+ "type": "integer",
512
+ "description": "Page number for pagination",
513
+ "required": false
514
+ }
515
+ }
516
+ },
517
+ "label": [
518
+ "GWAS",
519
+ "Variants",
520
+ "Trait",
521
+ "Genetics"
522
+ ],
523
+ "return_schema": {
524
+ "type": "object",
525
+ "description": "GWAS variants for trait results with pagination metadata",
526
+ "properties": {
527
+ "data": {
528
+ "type": "array",
529
+ "description": "Array of variant objects",
530
+ "items": {
531
+ "type": "object",
532
+ "properties": {
533
+ "rs_id": {"type": "string", "description": "dbSNP rs identifier"},
534
+ "merged": {"type": "integer", "description": "Merged status"},
535
+ "functional_class": {"type": "string", "description": "Functional classification"},
536
+ "last_update_date": {"type": "string", "description": "Last update timestamp"},
537
+ "locations": {
538
+ "type": "array",
539
+ "items": {
540
+ "type": "object",
541
+ "properties": {
542
+ "chromosome_name": {"type": "string"},
543
+ "chromosome_position": {"type": "integer"},
544
+ "region": {
545
+ "type": "object",
546
+ "properties": {
547
+ "name": {"type": "string"}
548
+ }
549
+ }
550
+ }
551
+ }
552
+ },
553
+ "alleles": {"type": "string", "description": "Allele information"},
554
+ "most_severe_consequence": {"type": "string", "description": "Most severe functional consequence"},
555
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
556
+ "maf": {"type": "number", "description": "Minor allele frequency"},
557
+ "minor_allele": {"type": "string", "description": "Minor allele"},
558
+ "_links": {"type": "object", "description": "API links"}
559
+ }
560
+ }
561
+ },
562
+ "metadata": {
563
+ "type": "object",
564
+ "description": "Pagination and navigation metadata",
565
+ "properties": {
566
+ "pagination": {
567
+ "type": "object",
568
+ "properties": {
569
+ "size": {"type": "integer"},
570
+ "totalElements": {"type": "integer"},
571
+ "totalPages": {"type": "integer"},
572
+ "number": {"type": "integer"}
573
+ }
574
+ },
575
+ "links": {"type": "object", "description": "Navigation links"}
576
+ }
577
+ }
578
+ }
579
+ }
580
+ },
581
+ {
582
+ "type": "GWASAssociationsForTrait",
583
+ "name": "gwas_get_associations_for_trait",
584
+ "description": "Get all associations for a specific trait, sorted by p-value (most significant first).",
585
+ "parameter": {
586
+ "type": "object",
587
+ "properties": {
588
+ "efo_trait": {
589
+ "type": "string",
590
+ "description": "EFO trait identifier or name",
591
+ "required": true
592
+ },
593
+ "size": {
594
+ "type": "integer",
595
+ "description": "Number of results to return per page",
596
+ "required": false
597
+ },
598
+ "page": {
599
+ "type": "integer",
600
+ "description": "Page number for pagination",
601
+ "required": false
602
+ }
603
+ }
604
+ },
605
+ "label": [
606
+ "GWAS",
607
+ "Associations",
608
+ "Trait",
609
+ "Significance"
610
+ ],
611
+ "return_schema": {
612
+ "type": "object",
613
+ "description": "GWAS associations for trait results with pagination metadata",
614
+ "properties": {
615
+ "data": {
616
+ "type": "array",
617
+ "description": "Array of GWAS association objects",
618
+ "items": {
619
+ "type": "object",
620
+ "properties": {
621
+ "association_id": {"type": "integer", "description": "Unique association identifier"},
622
+ "p_value": {"type": "number", "description": "Statistical p-value"},
623
+ "beta": {"type": "string", "description": "Effect size (beta coefficient)"},
624
+ "efo_traits": {
625
+ "type": "array",
626
+ "items": {
627
+ "type": "object",
628
+ "properties": {
629
+ "efo_id": {"type": "string"},
630
+ "efo_trait": {"type": "string"}
631
+ }
632
+ }
633
+ },
634
+ "reported_trait": {"type": "array", "items": {"type": "string"}},
635
+ "accession_id": {"type": "string", "description": "Study accession ID"},
636
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
637
+ "first_author": {"type": "string", "description": "First author name"},
638
+ "snp_effect_allele": {"type": "array", "items": {"type": "string"}},
639
+ "snp_allele": {
640
+ "type": "array",
641
+ "items": {
642
+ "type": "object",
643
+ "properties": {
644
+ "rs_id": {"type": "string"},
645
+ "effect_allele": {"type": "string"}
646
+ }
647
+ }
648
+ },
649
+ "locations": {"type": "array", "items": {"type": "string"}},
650
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
651
+ "ci_lower": {"type": "number", "description": "Lower confidence interval"},
652
+ "ci_upper": {"type": "number", "description": "Upper confidence interval"},
653
+ "risk_frequency": {"type": "string", "description": "Risk allele frequency"},
654
+ "range": {"type": "string", "description": "Effect size range"},
655
+ "_links": {"type": "object", "description": "API links"}
656
+ }
657
+ }
658
+ },
659
+ "metadata": {
660
+ "type": "object",
661
+ "description": "Pagination and navigation metadata",
662
+ "properties": {
663
+ "pagination": {
664
+ "type": "object",
665
+ "properties": {
666
+ "size": {"type": "integer"},
667
+ "totalElements": {"type": "integer"},
668
+ "totalPages": {"type": "integer"},
669
+ "number": {"type": "integer"}
670
+ }
671
+ },
672
+ "links": {"type": "object", "description": "Navigation links"}
673
+ }
674
+ }
675
+ }
676
+ }
677
+ },
678
+ {
679
+ "type": "GWASAssociationsForSNP",
680
+ "name": "gwas_get_associations_for_snp",
681
+ "description": "Get all associations for a specific SNP with optional sorting.",
682
+ "parameter": {
683
+ "type": "object",
684
+ "properties": {
685
+ "rs_id": {
686
+ "type": "string",
687
+ "description": "dbSNP rs identifier",
688
+ "required": true
689
+ },
690
+ "sort": {
691
+ "type": "string",
692
+ "description": "Sort field (e.g., 'p_value', 'or_value')",
693
+ "required": false
694
+ },
695
+ "direction": {
696
+ "type": "string",
697
+ "description": "Sort direction ('asc' or 'desc')",
698
+ "required": false
699
+ },
700
+ "size": {
701
+ "type": "integer",
702
+ "description": "Number of results to return per page",
703
+ "required": false
704
+ },
705
+ "page": {
706
+ "type": "integer",
707
+ "description": "Page number for pagination",
708
+ "required": false
709
+ }
710
+ }
711
+ },
712
+ "label": [
713
+ "GWAS",
714
+ "Associations",
715
+ "SNP",
716
+ "Traits"
717
+ ],
718
+ "return_schema": {
719
+ "type": "object",
720
+ "description": "GWAS associations for SNP results with pagination metadata",
721
+ "properties": {
722
+ "data": {
723
+ "type": "array",
724
+ "description": "Array of GWAS association objects",
725
+ "items": {
726
+ "type": "object",
727
+ "properties": {
728
+ "association_id": {"type": "integer", "description": "Unique association identifier"},
729
+ "p_value": {"type": "number", "description": "Statistical p-value"},
730
+ "beta": {"type": "string", "description": "Effect size (beta coefficient)"},
731
+ "efo_traits": {
732
+ "type": "array",
733
+ "items": {
734
+ "type": "object",
735
+ "properties": {
736
+ "efo_id": {"type": "string"},
737
+ "efo_trait": {"type": "string"}
738
+ }
739
+ }
740
+ },
741
+ "reported_trait": {"type": "array", "items": {"type": "string"}},
742
+ "accession_id": {"type": "string", "description": "Study accession ID"},
743
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
744
+ "first_author": {"type": "string", "description": "First author name"},
745
+ "snp_effect_allele": {"type": "array", "items": {"type": "string"}},
746
+ "snp_allele": {
747
+ "type": "array",
748
+ "items": {
749
+ "type": "object",
750
+ "properties": {
751
+ "rs_id": {"type": "string"},
752
+ "effect_allele": {"type": "string"}
753
+ }
754
+ }
755
+ },
756
+ "locations": {"type": "array", "items": {"type": "string"}},
757
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
758
+ "ci_lower": {"type": "number", "description": "Lower confidence interval"},
759
+ "ci_upper": {"type": "number", "description": "Upper confidence interval"},
760
+ "risk_frequency": {"type": "string", "description": "Risk allele frequency"},
761
+ "range": {"type": "string", "description": "Effect size range"},
762
+ "_links": {"type": "object", "description": "API links"}
763
+ }
764
+ }
765
+ },
766
+ "metadata": {
767
+ "type": "object",
768
+ "description": "Pagination and navigation metadata",
769
+ "properties": {
770
+ "pagination": {
771
+ "type": "object",
772
+ "properties": {
773
+ "size": {"type": "integer"},
774
+ "totalElements": {"type": "integer"},
775
+ "totalPages": {"type": "integer"},
776
+ "number": {"type": "integer"}
777
+ }
778
+ },
779
+ "links": {"type": "object", "description": "Navigation links"}
780
+ }
781
+ }
782
+ }
783
+ }
784
+ },
785
+ {
786
+ "type": "GWASStudiesForTrait",
787
+ "name": "gwas_get_studies_for_trait",
788
+ "description": "Get studies for a specific trait with optional filters for cohort, GxE interactions, and summary statistics.",
789
+ "parameter": {
790
+ "type": "object",
791
+ "properties": {
792
+ "efo_trait": {
793
+ "type": "string",
794
+ "description": "EFO trait identifier or name",
795
+ "required": false
796
+ },
797
+ "disease_trait": {
798
+ "type": "string",
799
+ "description": "Disease trait name",
800
+ "required": false
801
+ },
802
+ "cohort": {
803
+ "type": "string",
804
+ "description": "Cohort name (e.g., 'UKB' for UK Biobank)",
805
+ "required": false
806
+ },
807
+ "gxe": {
808
+ "type": "boolean",
809
+ "description": "Filter for Gene-by-Environment interaction studies",
810
+ "required": false
811
+ },
812
+ "full_pvalue_set": {
813
+ "type": "boolean",
814
+ "description": "Filter for studies with full summary statistics",
815
+ "required": false
816
+ },
817
+ "size": {
818
+ "type": "integer",
819
+ "description": "Number of results to return per page",
820
+ "required": false
821
+ },
822
+ "page": {
823
+ "type": "integer",
824
+ "description": "Page number for pagination",
825
+ "required": false
826
+ }
827
+ }
828
+ },
829
+ "label": [
830
+ "GWAS",
831
+ "Studies",
832
+ "Trait",
833
+ "Research"
834
+ ],
835
+ "return_schema": {
836
+ "type": "object",
837
+ "description": "GWAS studies for trait results with pagination metadata",
838
+ "properties": {
839
+ "data": {
840
+ "type": "array",
841
+ "description": "Array of GWAS study objects",
842
+ "items": {
843
+ "type": "object",
844
+ "properties": {
845
+ "accession_id": {"type": "string", "description": "Study accession identifier"},
846
+ "disease_trait": {"type": "string", "description": "Disease or trait name"},
847
+ "efo_traits": {
848
+ "type": "array",
849
+ "items": {
850
+ "type": "object",
851
+ "properties": {
852
+ "efo_id": {"type": "string"},
853
+ "efo_trait": {"type": "string"}
854
+ }
855
+ }
856
+ },
857
+ "initial_sample_size": {"type": "string", "description": "Initial sample size description"},
858
+ "replication_sample_size": {"type": "string", "description": "Replication sample size"},
859
+ "discovery_ancestry": {"type": "array", "items": {"type": "string"}},
860
+ "replication_ancestry": {"type": "array", "items": {"type": "string"}},
861
+ "cohort": {"type": "array", "items": {"type": "string"}},
862
+ "genotyping_technologies": {"type": "array", "items": {"type": "string"}},
863
+ "platforms": {"type": "string", "description": "Genotyping platforms used"},
864
+ "snp_count": {"type": "integer", "description": "Number of SNPs analyzed"},
865
+ "imputed": {"type": "boolean", "description": "Whether data was imputed"},
866
+ "pooled": {"type": "boolean", "description": "Whether data was pooled"},
867
+ "gxe": {"type": "boolean", "description": "Gene-environment interaction study"},
868
+ "gxg": {"type": "boolean", "description": "Gene-gene interaction study"},
869
+ "full_summary_stats_available": {"type": "boolean", "description": "Full summary statistics available"},
870
+ "full_summary_stats": {"type": "string", "description": "URL to full summary statistics"},
871
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
872
+ "terms_of_license": {"type": "string", "description": "Data usage license"},
873
+ "array_manufacturer": {"type": "array", "items": {"type": "string"}},
874
+ "_links": {"type": "object", "description": "API links"}
875
+ }
876
+ }
877
+ },
878
+ "metadata": {
879
+ "type": "object",
880
+ "description": "Pagination and navigation metadata",
881
+ "properties": {
882
+ "pagination": {
883
+ "type": "object",
884
+ "properties": {
885
+ "size": {"type": "integer"},
886
+ "totalElements": {"type": "integer"},
887
+ "totalPages": {"type": "integer"},
888
+ "number": {"type": "integer"}
889
+ }
890
+ },
891
+ "links": {"type": "object", "description": "Navigation links"}
892
+ }
893
+ }
894
+ }
895
+ }
896
+ },
897
+ {
898
+ "type": "GWASSNPsForGene",
899
+ "name": "gwas_get_snps_for_gene",
900
+ "description": "Get all SNPs mapped to a specific gene.",
901
+ "parameter": {
902
+ "type": "object",
903
+ "properties": {
904
+ "mapped_gene": {
905
+ "type": "string",
906
+ "description": "Gene name or symbol",
907
+ "required": true
908
+ },
909
+ "size": {
910
+ "type": "integer",
911
+ "description": "Number of results to return per page",
912
+ "required": false
913
+ },
914
+ "page": {
915
+ "type": "integer",
916
+ "description": "Page number for pagination",
917
+ "required": false
918
+ }
919
+ }
920
+ },
921
+ "label": [
922
+ "GWAS",
923
+ "SNPs",
924
+ "Gene",
925
+ "Mapping"
926
+ ],
927
+ "return_schema": {
928
+ "type": "object",
929
+ "description": "GWAS SNPs for gene results with pagination metadata",
930
+ "properties": {
931
+ "data": {
932
+ "type": "array",
933
+ "description": "Array of SNP objects",
934
+ "items": {
935
+ "type": "object",
936
+ "properties": {
937
+ "rs_id": {"type": "string", "description": "dbSNP rs identifier"},
938
+ "merged": {"type": "integer", "description": "Merged status"},
939
+ "functional_class": {"type": "string", "description": "Functional classification"},
940
+ "last_update_date": {"type": "string", "description": "Last update timestamp"},
941
+ "locations": {
942
+ "type": "array",
943
+ "items": {
944
+ "type": "object",
945
+ "properties": {
946
+ "chromosome_name": {"type": "string"},
947
+ "chromosome_position": {"type": "integer"},
948
+ "region": {
949
+ "type": "object",
950
+ "properties": {
951
+ "name": {"type": "string"}
952
+ }
953
+ }
954
+ }
955
+ }
956
+ },
957
+ "alleles": {"type": "string", "description": "Allele information"},
958
+ "most_severe_consequence": {"type": "string", "description": "Most severe functional consequence"},
959
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
960
+ "maf": {"type": "number", "description": "Minor allele frequency"},
961
+ "minor_allele": {"type": "string", "description": "Minor allele"},
962
+ "_links": {"type": "object", "description": "API links"}
963
+ }
964
+ }
965
+ },
966
+ "metadata": {
967
+ "type": "object",
968
+ "description": "Pagination and navigation metadata",
969
+ "properties": {
970
+ "pagination": {
971
+ "type": "object",
972
+ "properties": {
973
+ "size": {"type": "integer"},
974
+ "totalElements": {"type": "integer"},
975
+ "totalPages": {"type": "integer"},
976
+ "number": {"type": "integer"}
977
+ }
978
+ },
979
+ "links": {"type": "object", "description": "Navigation links"}
980
+ }
981
+ }
982
+ }
983
+ }
984
+ },
985
+ {
986
+ "type": "GWASAssociationsForStudy",
987
+ "name": "gwas_get_associations_for_study",
988
+ "description": "Get all associations for a specific study, sorted by p-value.",
989
+ "parameter": {
990
+ "type": "object",
991
+ "properties": {
992
+ "accession_id": {
993
+ "type": "string",
994
+ "description": "Study accession identifier",
995
+ "required": true
996
+ },
997
+ "size": {
998
+ "type": "integer",
999
+ "description": "Number of results to return per page",
1000
+ "required": false
1001
+ },
1002
+ "page": {
1003
+ "type": "integer",
1004
+ "description": "Page number for pagination",
1005
+ "required": false
1006
+ }
1007
+ }
1008
+ },
1009
+ "label": [
1010
+ "GWAS",
1011
+ "Associations",
1012
+ "Study",
1013
+ "Results"
1014
+ ],
1015
+ "return_schema": {
1016
+ "type": "object",
1017
+ "description": "GWAS associations for study results with pagination metadata",
1018
+ "properties": {
1019
+ "data": {
1020
+ "type": "array",
1021
+ "description": "Array of GWAS association objects",
1022
+ "items": {
1023
+ "type": "object",
1024
+ "properties": {
1025
+ "association_id": {"type": "integer", "description": "Unique association identifier"},
1026
+ "p_value": {"type": "number", "description": "Statistical p-value"},
1027
+ "beta": {"type": "string", "description": "Effect size (beta coefficient)"},
1028
+ "efo_traits": {
1029
+ "type": "array",
1030
+ "items": {
1031
+ "type": "object",
1032
+ "properties": {
1033
+ "efo_id": {"type": "string"},
1034
+ "efo_trait": {"type": "string"}
1035
+ }
1036
+ }
1037
+ },
1038
+ "reported_trait": {"type": "array", "items": {"type": "string"}},
1039
+ "accession_id": {"type": "string", "description": "Study accession ID"},
1040
+ "pubmed_id": {"type": "string", "description": "PubMed reference"},
1041
+ "first_author": {"type": "string", "description": "First author name"},
1042
+ "snp_effect_allele": {"type": "array", "items": {"type": "string"}},
1043
+ "snp_allele": {
1044
+ "type": "array",
1045
+ "items": {
1046
+ "type": "object",
1047
+ "properties": {
1048
+ "rs_id": {"type": "string"},
1049
+ "effect_allele": {"type": "string"}
1050
+ }
1051
+ }
1052
+ },
1053
+ "locations": {"type": "array", "items": {"type": "string"}},
1054
+ "mapped_genes": {"type": "array", "items": {"type": "string"}},
1055
+ "ci_lower": {"type": "number", "description": "Lower confidence interval"},
1056
+ "ci_upper": {"type": "number", "description": "Upper confidence interval"},
1057
+ "risk_frequency": {"type": "string", "description": "Risk allele frequency"},
1058
+ "range": {"type": "string", "description": "Effect size range"},
1059
+ "_links": {"type": "object", "description": "API links"}
1060
+ }
1061
+ }
1062
+ },
1063
+ "metadata": {
1064
+ "type": "object",
1065
+ "description": "Pagination and navigation metadata",
1066
+ "properties": {
1067
+ "pagination": {
1068
+ "type": "object",
1069
+ "properties": {
1070
+ "size": {"type": "integer"},
1071
+ "totalElements": {"type": "integer"},
1072
+ "totalPages": {"type": "integer"},
1073
+ "number": {"type": "integer"}
1074
+ }
1075
+ },
1076
+ "links": {"type": "object", "description": "Navigation links"}
1077
+ }
1078
+ }
1079
+ }
1080
+ }
1081
+ }
1082
+ ]