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  6. specialties.json +38 -0
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+ <!DOCTYPE html>
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+ <html>
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+ <head>
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+ <meta charset="utf-8" />
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+ <!-- Meta tags for social media banners, these should be filled in appropriatly as they are your "business card" -->
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+ <!-- Replace the content tag with appropriate information -->
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+ <meta name="description" content="Project page of TxAgent" />
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+ <meta property="og:title" content="TxAgent" />
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+ <meta
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+ property="og:description"
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+ content="An AI Agent for therapeutic reasoning across a universe of tools"
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+ />
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+ <meta
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+ property="og:url"
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+ content="https://zitniklab.hms.harvard.edu/TxAgent/"
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+ />
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+ <!-- Path to banner image, should be in the path listed below. Optimal dimenssions are 1200X630-->
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+ <meta property="og:image" content="static/image/TxAgent.jpg" />
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+ <meta property="og:image:width" content="1200" />
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+ <meta property="og:image:height" content="630" />
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+
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+ <meta name="twitter:title" content="TxAgent" />
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+ <meta
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+ name="twitter:description"
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+ content="An AI Agent for therapeutic reasoning across a universe of tools"
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+ />
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+ <!-- Path to banner image, should be in the path listed below. Optimal dimenssions are 1200X600-->
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+ <meta name="twitter:image" content="static/image/TxAgent.jpg" />
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+ <meta name="twitter:card" content="summary_large_image" />
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+ <!-- Keywords for your paper to be indexed by-->
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+ <meta
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+ name="keywords"
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+ content="AI Agent, Agentic AI, therapeutic reasoning, tool use, tool universe, AI scientist"
34
+ />
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+ <meta name="viewport" content="width=device-width, initial-scale=1" />
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+
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+ <title>
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+ TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools
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+ </title>
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+ <link rel="icon" type="image/x-icon" href="static/images/favicon.ico" />
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+ <link
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+ href="https://fonts.googleapis.com/css?family=Google+Sans|Noto+Sans|Castoro"
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+ <script src="static/js/bulma-slider.min.js"></script>
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+ <script src="static/js/index.js"></script>
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+ <script src="https://code.highcharts.com/highcharts.js"></script>
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+ <script src="https://code.highcharts.com/modules/sunburst.js"></script>
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+ <script src="https://code.highcharts.com/modules/exporting.js"></script>
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+
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+ <style>
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+ .tooluniverse-wrapper {
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+ display: flex;
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+ justify-content: center;
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+ align-items: center;
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+ width: 100%;
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+ height: 100%;
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+ }
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+
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+ #tooluniverse-container {
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+ width: 65%;
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+ height: 65%;
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+ }
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+ .small-text {
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+ font-size: 0.65rem;
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+ }
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+
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+ /* Fixed styles for centering all images */
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+ img {
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+ display: block;
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+ margin-left: auto !important;
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+ margin-right: auto !important;
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+ max-width: 100%;
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+ height: auto;
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+ }
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+
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+ /* Fix carousel images */
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+ .item img {
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+ margin: 0 auto !important;
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+ }
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+
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+ /* Center videos too */
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+ video {
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+ display: block;
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+ margin: 0 auto !important;
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+ max-width: 100%;
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+ }
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+
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+ /* Force responsive image centering */
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+ .responsive-image {
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+ display: block !important;
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+ margin: 0 auto !important;
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+ max-width: 90% !important;
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+ }
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+
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+ /* Simplify content container centering */
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+ .content-container {
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+ text-align: center;
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+ }
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+
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+ /* Ensure container centering */
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+ .container.is-centered {
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+ text-align: center;
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+ }
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+
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+ /* Center title and author affiliations */
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+ .publication-title,
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+ .publication-authors,
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+ .publication-links {
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+ text-align: center;
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+ }
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+ </style>
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+ </head>
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+ <body>
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+ <!-- Model overview -->
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+ <section class="hero is-small">
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+ <div class="hero-body content-container">
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+ <div class="container">
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+ <h2 class="title is-2 has-text-centered">TxAgent model</h2>
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+ <div class="container is-centered has-text-centered">
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+ <img
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+ src="static/images/txagent.jpg"
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+ alt="TxAgent model"
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+ style="height: auto; max-width: 48vw"
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+ class="responsive-image"
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+ />
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+ </div>
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+ </div>
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+ </div>
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+ </section>
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+ <!-- End model overview -->
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+
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+ <!-- Paper abstract -->
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+ <section class="section hero is-light">
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+ <div class="container is-max-desktop">
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+ <div class="columns is-centered has-text-centered">
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+ <div class="column is-four-fifths">
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+ <h2 class="title is-3">Abstract</h2>
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+ <div class="content has-text-justified">
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+ <p>
156
+ Precision therapeutics require multimodal adaptive models that
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+ generate personalized treatment recommendations. We introduce
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+ TxAgent, an AI agent that leverages multi-step reasoning and
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+ real-time biomedical knowledge retrieval across a toolbox of 211
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+ tools to analyze drug interactions, contraindications, and
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+ patient-specific treatment strategies. TxAgent evaluates how
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+ drugs interact at molecular, pharmacokinetic, and clinical
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+ levels, identifies contraindications based on patient
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+ comorbidities and concurrent medications, and tailors treatment
165
+ strategies to individual patient characteristics, including age,
166
+ genetic factors, and disease progression. TxAgent retrieves and
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+ synthesizes evidence from multiple biomedical sources, assesses
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+ interactions between drugs and patient conditions, and refines
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+ treatment recommendations through iterative reasoning. It
170
+ selects tools based on task objectives and executes structured
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+ function calls to solve therapeutic tasks that require clinical
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+ reasoning and cross-source validation. The ToolUniverse
173
+ consolidates 211 tools from trusted sources, including all US
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+ FDA-approved drugs since 1939 and validated clinical insights
175
+ from Open Targets. TxAgent outperforms leading LLMs, tool-use
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+ models, and reasoning agents across five new benchmarks: DrugPC,
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+ BrandPC, GenericPC, TreatmentPC, and DescriptionPC, covering
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+ 3,168 drug reasoning tasks and 456 personalized treatment
179
+ scenarios. It achieves 92.1% accuracy in open-ended drug
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+ reasoning tasks, surpassing GPT-4o by up to 25.8% and
181
+ outperforming DeepSeek-R1 (671B) in structured multi-step
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+ reasoning. TxAgent generalizes across drug name variants and
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+ descriptions, maintaining a variance of &lt;0.01 between brand,
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+ generic, and description-based drug references, exceeding
185
+ existing tool-use LLMs by over 55%. By integrating multi-step
186
+ inference, real-time knowledge grounding, and tool- assisted
187
+ decision-making, TxAgent ensures that treatment recommendations
188
+ align with established clinical guidelines and real-world
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+ evidence, reducing the risk of adverse events and improving
190
+ therapeutic decision-making.
191
+ </p>
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+ </div>
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+ </div>
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+ </div>
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+ </div>
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+ </section>
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+ <!-- End paper abstract -->
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+
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+ <!-- Model capabilities -->
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+ <section class="hero is-small">
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+ <div class="hero-body content-container">
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+ <div class="container">
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+ <h2 class="title is-2 has-text-centered">TxAgent capabilities</h2>
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+ <div class="container is-centered has-text-centered">
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+ <img
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+ src="static/images/txagent_capabilities.jpg"
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+ alt="TxAgent Capabilities"
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+ style="height: auto; max-width: 50vw"
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+ class="responsive-image"
210
+ />
211
+ </div>
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+ <div class="container is-centered has-text-centered is-max-desktop">
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+ <section class="section hero is-light py-2 content">
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+ <div class="has-text-left py-2">
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+ <ul>
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+ <li>
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+ <b>Knowledge grounding using tool calls</b>: TxAgent
218
+ utilizes tools to obtain verified knowledge and provides
219
+ outputs based on it.
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+ </li>
221
+ <li>
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+ <b>Goal-oriented tool selection</b>: TxAgent proactively
223
+ requests tools from ToolUniverse using the ToolRAG model and
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+ selects and applies the most suitable tool from the
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+ available candidates.
226
+ </li>
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+ <li>
228
+ <b>Problem solving with multi-step reasoning</b>: TxAgent
229
+ manages complex tasks or unexpected responses from tools
230
+ through multiple iterations of thought and function calls.
231
+ </li>
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+ <li>
233
+ <b>Leveraging constantly updated knowledge bases</b>:
234
+ TxAgent accesses continuously updated databases via tools to
235
+ handle problems that go beyond the TxAgent’s intrinsic
236
+ knowledge.
237
+ </li>
238
+ </ul>
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+ </div>
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+ </section>
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+ </div>
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+ </div>
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+ </div>
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+ </section>
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+ <!-- End model capabilities -->
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+
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+ <!--BibTex citation -->
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+ <section class="section" id="BibTeX">
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+ <div class="container is-max-desktop content">
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+ <h2 class="title">BibTeX</h2>
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+ <pre><code>@misc{gao2025txagent,
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+ title={TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools},
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+ author={Shanghua Gao and Richard Zhu and Zhenglun Kong and Ayush Noori and Xiaorui Su and Curtis Ginder and Theodoros Tsiligkaridis and Marinka Zitnik},
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+ year={2025},
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+ eprint={2503.10970},
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+ archivePrefix={arXiv},
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+ primaryClass={cs.AI},
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+ url={https://arxiv.org/abs/2503.10970},
259
+ }</code></pre>
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+ </div>
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+ </section>
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+ <!--End BibTex citation -->
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+
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+ <!--BibTex citation -->
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+ <section class="section" id="BibTeX">
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+ <div class="container is-max-desktop content">
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+ <h2 class="title">Contact</h2>
268
+ <p>If you have any questions or suggestions, please email
269
+ <a href="mailto:shanghuagao@gmail.com">Shanghua Gao</a> and
270
+ <a href="mailto:marinka@hms.harvard.edu">Marinka Zitnik</a>.
271
+ </p>
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+ </div>
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+ </section>
274
+ <!--End BibTex citation -->
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+
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+ <footer class="footer small-text">
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+ <div class="container">
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+ <div class="columns is-centered">
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+ <div class="column is-8">
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+ <div class="content">
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+ <p>
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+ We gratefully acknowledge the support of NIH R01-HD108794, NSF CAREER 2339524, US DoD FA8702-15-D-0001, Harvard Data Science Initiative, Amazon Faculty Research, Google Research Scholar Program, AstraZeneca Research, Roche Alliance with Distinguished Scientists, Sanofi iDEA-iTECH, Pfizer Research, Gates Foundation (INV-079038), Chan Zuckerberg Initiative, John and Virginia Kaneb Fellowship at Harvard Medical School, Biswas Computational Biology Initiative in partnership with the Milken Institute, Harvard Medical School Dean's Innovation Fund for the Use of Artificial Intelligence, and Kempner Institute for the Study of Natural and Artificial Intelligence at Harvard University. Any opinions, findings, conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the funders.
283
+ We thank Owen Queen and Thomas Hartvigsen for their valuable discussions on this project and NVIDIA AI for providing access to DeepSeek R1 models.
284
+ <p>
285
+ This page was built using the
286
+ <a
287
+ href="https://github.com/eliahuhorwitz/Academic-project-page-template"
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+ target="_blank"
289
+ >Academic Project Page Template</a
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+ >
291
+ which was adopted from the <a
292
+ href="https://nerfies.github.io"
293
+ target="_blank"
294
+ >Nerfies</a
295
+ > project page. You are free to borrow the source code of this
296
+ website, we just ask that you link back to this page in the
297
+ footer.
298
+ This website is licensed under a
299
+ <a
300
+ rel="license"
301
+ href="http://creativecommons.org/licenses/by-sa/4.0/"
302
+ target="_blank"
303
+ >Creative Commons Attribution-ShareAlike 4.0 International
304
+ License</a
305
+ >.
306
+ </p>
307
+ </div>
308
+ </div>
309
+ </div>
310
+ </div>
311
+ </footer>
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+ </body>
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+ </html>
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+
315
+ <script>
316
+ const dataDict = {
317
+ "Adverse Events, Risks, Safety": {
318
+ "Adverse Events and Alarms": [
319
+ "get_drug_adverse_events_by_chemblId",
320
+ "get_drug_name_by_adverse_reaction",
321
+ "get_adverse_reactions_by_drug_name",
322
+ "get_drug_names_by_alarm",
323
+ "get_alarms_by_drug_name",
324
+ ],
325
+ "Warnings and Risks": [
326
+ "get_drug_warnings_by_chemblId",
327
+ "get_drug_names_by_boxed_warning",
328
+ "get_boxed_warning_info_by_drug_name",
329
+ "get_drug_name_by_warnings",
330
+ "get_warnings_by_drug_name",
331
+ "get_warnings_and_cautions_by_drug_name",
332
+ "get_drug_names_by_warnings_and_cautions",
333
+ "get_drug_names_by_risk",
334
+ "get_risk_info_by_drug_name",
335
+ "get_user_safety_warning_by_drug_names",
336
+ "get_drug_names_by_user_safety_warning",
337
+ "get_drug_names_by_food_safety_warnings",
338
+ "get_drug_withdrawn_blackbox_status_by_chemblId",
339
+ ],
340
+ "Nonclinical Toxicology": [
341
+ "get_drug_names_by_nonclinical_toxicology_info",
342
+ "get_nonclinical_toxicology_info_by_drug_name",
343
+ ],
344
+ "Carcinogenic, Mutagenic, Fertility, Impairment Info": [
345
+ "get_drug_names_by_carcinogenic, mutagenic, fertility, impairment_info",
346
+ "get_carcinogenic, mutagenic, fertility, impairment_info_by_drug_name",
347
+ ],
348
+ "Other Safety Info": [
349
+ "get_drug_name_by_other_safety_info",
350
+ "get_other_safety_info_by_drug_name",
351
+ ],
352
+ "Safety Summary": [
353
+ "get_drug_names_by_safety_summary",
354
+ "get_safety_summary_by_drug_name",
355
+ ],
356
+ Contraindications: [
357
+ "get_drug_names_by_contraindications",
358
+ "get_contraindications_by_drug_name",
359
+ "get_do_not_use_info_by_drug_name",
360
+ ],
361
+ Precautions: [
362
+ "get_drug_names_by_general_precautions",
363
+ "get_general_precautions_by_drug_name",
364
+ "get_drug_name_by_precautions",
365
+ "get_precautions_by_drug_name",
366
+ ],
367
+ "Nonteratogenic Effects": [
368
+ "get_drug_names_by_nonteratogenic_effects",
369
+ "get_nonteratogenic_effects_by_drug_name",
370
+ ],
371
+ "Teratogenic Effects": [
372
+ "get_drug_names_by_teratogenic_effects",
373
+ "get_teratogenic_effects_by_drug_name",
374
+ ],
375
+ "Overdosage Info": [
376
+ "get_drug_names_by_overdosage_info",
377
+ "get_overdosage_info_by_drug_name",
378
+ ],
379
+ "Stop Use Info": [
380
+ "get_drug_name_by_stop_use_info",
381
+ "get_stop_use_info_by_drug_name",
382
+ ],
383
+ "Lab Test Interference": [
384
+ "get_drug_names_by_lab_test_interference",
385
+ "get_lab_test_interference_info_by_drug_name",
386
+ ],
387
+ "Residue Warning": [
388
+ "get_drug_names_by_residue_warning",
389
+ "get_residue_warning_by_drug_name",
390
+ ],
391
+ "Environmental Warning": [
392
+ "get_drug_name_by_environmental_warning",
393
+ "get_environmental_warning_by_drug_name",
394
+ ],
395
+ "Target Safety Profile": ["get_target_safety_profile_by_ensemblID"],
396
+ },
397
+ "Addiction and Abuse": {
398
+ "Drug Abuse": [
399
+ "get_drug_names_by_abuse_info",
400
+ "get_abuse_info_by_drug_name",
401
+ "get_drug_name_by_abuse_types_and_related_adverse_reactions_and_controlled_substance_status",
402
+ "get_abuse_types_and_related_adverse_reactions_and_controlled_substance_status_by_drug_name",
403
+ ],
404
+ "Drug Dependence": [
405
+ "get_drug_name_by_dependence_info",
406
+ "get_dependence_info_by_drug_name",
407
+ ],
408
+ "Controlled Substance": [
409
+ "get_drug_names_by_controlled_substance_DEA_schedule",
410
+ "get_controlled_substance_DEA_schedule_info_by_drug_name",
411
+ "get_drug_name_by_abuse_types_and_related_adverse_reactions_and_controlled_substance_status",
412
+ "get_abuse_types_and_related_adverse_reactions_and_controlled_substance_status_by_drug_name",
413
+ ],
414
+ },
415
+ "Drug Patient Populations": {
416
+ Pregnancy: [
417
+ "get_drug_names_by_pregnancy_effects_info",
418
+ "get_pregnancy_effects_info_by_drug_name",
419
+ "get_drug_name_by_pregnancy_or_breastfeeding_info",
420
+ "get_pregnancy_or_breastfeeding_info_by_drug_name",
421
+ "get_drug_name_by_labor_and_delivery_info",
422
+ "get_labor_and_delivery_info_by_drug_name",
423
+ "get_drug_names_by_teratogenic_effects",
424
+ "get_teratogenic_effects_by_drug_name",
425
+ ],
426
+ "Nursing Mother": [
427
+ "get_drug_names_by_info_for_nursing_mothers",
428
+ "get_info_for_nursing_mothers_by_drug_name",
429
+ "get_drug_name_by_pregnancy_or_breastfeeding_info",
430
+ "get_pregnancy_or_breastfeeding_info_by_drug_name",
431
+ ],
432
+ "Pediatric Use": [
433
+ "get_drug_names_by_pediatric_use",
434
+ "get_pediatric_use_info_by_drug_name",
435
+ "get_drug_names_by_child_safety_info",
436
+ "get_child_safety_info_by_drug_name",
437
+ ],
438
+ "General Patient Pop. Info": [
439
+ "get_drug_names_by_population_use",
440
+ "get_population_use_info_by_drug_name",
441
+ ],
442
+ "Geriatric Use": [
443
+ "get_drug_names_by_geriatric_use",
444
+ "get_geriatric_use_info_by_drug_name",
445
+ ],
446
+ },
447
+ "Drug Administration and Handling": {
448
+ Storage: [
449
+ "get_drug_name_by_storage_and_handling_info",
450
+ "get_storage_and_handling_info_by_drug_name",
451
+ "get_dosage_and_storage_information_by_drug_name",
452
+ ],
453
+ "Safe Handling": [
454
+ "get_drug_names_by_safe_handling_warning",
455
+ "get_safe_handling_warnings_by_drug_name",
456
+ ],
457
+ Disposal: [
458
+ "get_drug_names_by_disposal_info",
459
+ "get_disposal_info_by_drug_name",
460
+ ],
461
+ Dosing: [
462
+ "get_drug_name_by_dosage_info",
463
+ "get_drug_names_by_dosage_forms_and_strengths_info",
464
+ "get_dosage_forms_and_strengths_by_drug_name",
465
+ "get_dosage_and_storage_information_by_drug_name",
466
+ ],
467
+ "Route of Administration": [
468
+ "get_drug_names_by_route",
469
+ "get_route_info_by_drug_name",
470
+ ],
471
+ "Setup Instructions": [
472
+ "get_drug_names_by_assembly_installation_info",
473
+ "get_assembly_installation_info_by_drug_name",
474
+ "get_drug_name_by_calibration_instructions",
475
+ "get_calibration_instructions_by_drug_name",
476
+ ],
477
+ "General Instructions": [
478
+ "get_drug_names_by_instructions_for_use",
479
+ "get_instructions_for_use_by_drug_name",
480
+ ],
481
+ Accessories: [
482
+ "get_drug_names_by_accessories",
483
+ "get_accessories_info_by_drug_name",
484
+ ],
485
+ "Assoc. Devices": [
486
+ "get_drug_name_by_device_use",
487
+ "get_device_use_by_drug_name",
488
+ ],
489
+ },
490
+ Pharmacology: {
491
+ Pharmacokinetics: [
492
+ "get_drug_names_by_pharmacokinetics",
493
+ "get_pharmacokinetics_by_drug_name",
494
+ ],
495
+ Pharmacodynamics: [
496
+ "get_drug_name_by_pharmacodynamics",
497
+ "get_pharmacodynamics_by_drug_name",
498
+ ],
499
+ "Clinical Pharmacology": [
500
+ "get_drug_names_by_clinical_pharmacology",
501
+ "get_clinical_pharmacology_by_drug_name",
502
+ ],
503
+ "Animal Pharmacology": [
504
+ "get_drug_names_by_animal_pharmacology_info",
505
+ "get_animal_pharmacology_info_by_drug_name",
506
+ ],
507
+ },
508
+ "Drug Use, Mechanism, Composition": {
509
+ "Mechanism of Action": [
510
+ "get_mechanism_of_action_by_drug_name",
511
+ "get_drug_names_by_mechanism_of_action",
512
+ "get_drug_mechanisms_of_action_by_chemblId",
513
+ ],
514
+ Ingredients: [
515
+ "get_active_ingredient_info_by_drug_name",
516
+ "get_drug_names_by_active_ingredient",
517
+ "get_drug_name_by_inactive_ingredient",
518
+ "get_inactive_ingredient_info_by_drug_name",
519
+ "get_drug_names_by_ingredient",
520
+ "get_ingredients_by_drug_name",
521
+ "get_active_ingredient_application_number_manufacturer_name_NDC_number_administration_route_by_drug_name",
522
+ ],
523
+ Indication: [
524
+ "get_drug_names_by_indication",
525
+ "get_indications_by_drug_name",
526
+ "get_drug_indications_by_chemblId",
527
+ "get_approved_indications_by_drug_chemblId",
528
+ "get_purpose_info_by_drug_name",
529
+ ],
530
+ },
531
+ "ID and Labeling Tools": {
532
+ "Drug Name/Description and ID Map": [
533
+ "get_brand_name_generic_name",
534
+ "get_drug_synonyms_by_chemblId",
535
+ "get_drug_trade_names_by_chemblId",
536
+ "get_drug_description_by_chemblId",
537
+ "get_drug_id_description_by_name",
538
+ "get_known_drugs_by_drug_chemblId",
539
+ ],
540
+ "Drug Label Document and Set IDs": [
541
+ "get_drug_name_by_document_id",
542
+ "get_document_id_by_drug_name",
543
+ "get_drug_name_by_set_id",
544
+ "get_drug_name_by_application_number_NUI_identifier_SPL_document_ID_SPL_set_ID",
545
+ ],
546
+ "Disease Name/Description and ID Map": [
547
+ "get_disease_synonyms_by_efoId",
548
+ "get_disease_id_description_by_name",
549
+ "get_disease_description_by_efoId",
550
+ "get_drug_name_by_set_id",
551
+ ],
552
+ "Target Name/Description and ID Map": [
553
+ "get_target_id_description_by_name",
554
+ "get_target_synonyms_by_ensemblID",
555
+ ],
556
+ "App Num., Manufacturer Name, Other IDs": [
557
+ "get_active_ingredient_application_number_manufacturer_name_NDC_number_administration_route_by_drug_name",
558
+ "get_drug_names_by_application_number_manufacturer_name_NDC_number",
559
+ "get_drug_name_by_application_number_NUI_identifier_SPL_document_ID_SPL_set_ID",
560
+ ],
561
+ "Phenotype Name and ID Map": [
562
+ "get_phenotype_by_HPO_ID",
563
+ "get_HPO_ID_by_phenotype",
564
+ ],
565
+ },
566
+ "General Clinical Annotations": {
567
+ "SPL Indexing Data Elements and Unclassified Section": [
568
+ "get_drug_names_by_spl_indexing_data_elements",
569
+ "get_spl_indexing_data_elements_by_drug_name",
570
+ "get_spl_unclassified_section_by_drug_name",
571
+ ],
572
+ "Label Effective Time": [
573
+ "get_drug_names_by_effective_time",
574
+ "get_effective_time_by_drug_name",
575
+ ],
576
+ "Approval Status": ["get_drug_approval_status_by_chemblId"],
577
+ "Dear Health Care Provider Letter and Recent Changes": [
578
+ "get_dear_health_care_provider_letter_info_by_drug_name",
579
+ "get_drug_names_by_dear_health_care_provider_letter_info",
580
+ "get_recent_changes_by_drug_name",
581
+ ],
582
+ "Health Claims": [
583
+ "get_drug_names_by_health_claim",
584
+ "get_health_claims_by_drug_name",
585
+ ],
586
+ "Questions Contact": ["get_contact_for_questions_info_by_drug_name"],
587
+ },
588
+ "Clinical Laboratory Info": {
589
+ "Lab Tests": [
590
+ "get_drug_names_by_lab_tests",
591
+ "get_lab_tests_by_drug_name",
592
+ ],
593
+ Microbiology: [
594
+ "get_drug_name_by_microbiology",
595
+ "get_microbiology_info_by_drug_name",
596
+ ],
597
+ },
598
+ "General Info for Patients and Relatives": {
599
+ "Consult Doctor/Pharmacist": [
600
+ "get_drug_name_by_info_on_doctor_consultation",
601
+ "get_info_on_doctor_consultation_by_drug_name",
602
+ "get_drug_names_by_info_on_consulting_doctor, pharmacist_for_drug_interactions",
603
+ "get_info_on_consulting_doctor, pharmacist_for_drug_interactions_by_drug_name",
604
+ ],
605
+ "Info for Owners/Caregivers": [
606
+ "get_drug_names_by_information_for_owners_or_caregivers",
607
+ "get_information_for_owners_or_caregivers_by_drug_name",
608
+ ],
609
+ "Drug Info for Patients": [
610
+ "get_info_for_patients_by_drug_name",
611
+ "get_drug_name_by_principal_display_panel",
612
+ "get_principal_display_panel_by_drug_name",
613
+ "get_drug_names_by_medication_guide",
614
+ "get_medication_guide_info_by_drug_name",
615
+ "get_drug_name_from_patient_package_insert",
616
+ "get_patient_package_insert_from_drug_name",
617
+ "get_drug_names_by_patient_medication_info",
618
+ "get_patient_medication_info_by_drug_name",
619
+ "get_when_using_info",
620
+ ],
621
+ "Avoid While Using Drug": ["get_when_using_info"],
622
+ },
623
+ "Disease, Phenotype, Target, Drug Links": {
624
+ "Drug-Disease Associations": [
625
+ "get_similar_entities_by_drug_chemblId",
626
+ "get_similar_entities_by_disease_efoId",
627
+ "get_assoc._drugs_by_disease_efoId",
628
+ "get_assoc._diseases_by_drug_chemblId",
629
+ ],
630
+ "Drug-Target Associations": [
631
+ "get_similar_entities_by_drug_chemblId",
632
+ "get_similar_entities_by_target_ensemblID",
633
+ "get_assoc._drugs_by_target_ensemblID",
634
+ "get_assoc._targets_by_drug_chemblId",
635
+ ],
636
+ "Target-Disease/Phenotype Associations": [
637
+ "get_similar_entities_by_target_ensemblID",
638
+ "get_similar_entities_by_disease_efoId",
639
+ "get_assoc._diseases_by_target_ensemblID",
640
+ "get_assoc._targets_by_disease_efoId",
641
+ "get_assoc._diseases_phenotypes_by_target_ensemblID",
642
+ ],
643
+ "Disease-Disease/Phenotype Associations": [
644
+ "get_similar_entities_by_disease_efoId",
645
+ "get_joint_assoc._diseases_by_HPO_ID_list",
646
+ "get_assoc._phenotypes_by_disease_efoId",
647
+ ],
648
+ "Target-Target Associations": [
649
+ "get_target_homologues_by_ensemblID",
650
+ "get_similar_entities_by_target_ensemblID",
651
+ "get_target_interactions_by_ensemblID",
652
+ ],
653
+ "Drug-Drug Associations": [
654
+ "get_drug_names_by_drug_interactions",
655
+ "get_drug_interactions_by_drug_name",
656
+ "get_similar_entities_by_drug_chemblId",
657
+ ],
658
+ Pharmacogenomics: [
659
+ "drug_pharmacogenomics_data",
660
+ "get_drug_name_by_pharmacogenomics",
661
+ "get_pharmacogenomics_info_by_drug_name",
662
+ ],
663
+ },
664
+ "Biological Annotation Tools": {
665
+ "Target Biological Annotation": [
666
+ "get_target_gene_ontology_by_ensemblID",
667
+ "get_target_genomic_location_by_ensemblID",
668
+ "get_target_subcellular_locations_by_ensemblID",
669
+ "get_target_classes_by_ensemblID",
670
+ "get_biological_mouse_models_by_ensemblID",
671
+ ],
672
+ "Disease Biological Annotation": [
673
+ "get_disease_therapeutic_areas_by_efoId",
674
+ "get_disease_ancestors_parents_by_efoId",
675
+ "get_disease_descendants_children_by_efoId",
676
+ "get_disease_locations_by_efoId",
677
+ ],
678
+ "Gene Ontology": [
679
+ "get_gene_ontology_terms_by_goID",
680
+ "get_target_gene_ontology_by_ensemblID",
681
+ ],
682
+ "Drug Parent Child Molecules": [
683
+ "get_parent_child_molecules_by_drug_chembl_ID",
684
+ ],
685
+ },
686
+ Publications: {
687
+ Publications: [
688
+ "get_publications_by_disease_efoId",
689
+ "get_publications_by_target_ensemblID",
690
+ "get_publications_by_drug_chemblId",
691
+ ],
692
+ "Clinical Studies": [
693
+ "get_drug_names_by_clinical_studies",
694
+ "get_clinical_studies_info_by_drug_name",
695
+ ],
696
+ "Reference Documents": [
697
+ "get_drug_name_by_reference",
698
+ "get_reference_info_by_drug_name",
699
+ ],
700
+ },
701
+ Search: {
702
+ "Search Tools": [
703
+ "multi_entity_search_by_query_string",
704
+ "search_category_counts_by_query_string",
705
+ ],
706
+ },
707
+ "Target Characterization": {
708
+ "Target Therapeutic Potential": [
709
+ "get_target_tractability_by_ensemblID",
710
+ "get_target_enabling_packages_by_ensemblID",
711
+ "get_chemical_probes_by_target_ensemblID",
712
+ "get_target_constraint_info_by_ensemblID",
713
+ ],
714
+ },
715
+ };
716
+ function toSentenceCase(str) {
717
+ // Replace underscores with spaces and convert the entire string to lowercase.
718
+ let formatted = str.replace(/_/g, " ").toLowerCase();
719
+ // Capitalize only the first letter.
720
+ formatted = formatted.charAt(0).toUpperCase() + formatted.slice(1);
721
+ // Ensure "ID" stays properly capitalized.
722
+ formatted = formatted.replace(/chemblid/gi, "ChEMBL ID");
723
+ formatted = formatted.replace(/ensemblid/gi, "Ensembl ID");
724
+ formatted = formatted.replace(/efoid/gi, "EFO ID");
725
+ formatted = formatted.replace(/hpo/gi, "HPO");
726
+ formatted = formatted.replace(/ids/gi, "IDs");
727
+ formatted = formatted.replace(
728
+ /application number nui identifier spl document id spl set id/gi,
729
+ "app. number, NUI identifier, SPL doc. ID, SPL set ID"
730
+ );
731
+ formatted = formatted.replace(
732
+ /Get active ingredient application number manufacturer name ndc number administration route/gi,
733
+ "get active ingredient, app. num., manufacturer, NDC num., administration"
734
+ );
735
+ formatted = formatted.replace(
736
+ /Get drug name by application number manufacturer name ndc number/gi,
737
+ "get drug name by app. number, manufacturer, NDC number"
738
+ );
739
+ formatted = formatted.replace(/goID/gi, "GO ID");
740
+ formatted = formatted.replace(
741
+ /controlled substance dea schedule/gi,
742
+ "DEA schedule"
743
+ );
744
+ formatted = formatted.replace(/spl/gi, "SPL");
745
+
746
+ return formatted.replace(/\bId\b/gi, "ID");
747
+ }
748
+
749
+ // Global variables to manage drill-down state.
750
+ let currentLevel = 1; // 1 for Tier 1, 2 for Tier 2, 3 for Tier 3.
751
+ let currentTier1 = null; // Holds the key for the current top-level slice.
752
+ let chart; // To store the Highcharts chart instance.
753
+ let currentTier1Color = null;
754
+ let currentTier2Color = null;
755
+
756
+ // Sorted data structure
757
+ let sortedDataDict = {};
758
+
759
+ // Function to sort dataDict by the total number of Tier 3 values
760
+ function sortDataDict() {
761
+ // Calculate totals for each Tier 1 key
762
+ const tier1Totals = {};
763
+
764
+ for (const topKey in dataDict) {
765
+ let total = 0;
766
+ const tier2Totals = {};
767
+
768
+ // Calculate totals for each Tier 2 key within this Tier 1
769
+ for (const subKey in dataDict[topKey]) {
770
+ const count = dataDict[topKey][subKey].length;
771
+ tier2Totals[subKey] = count;
772
+ total += count;
773
+ }
774
+
775
+ tier1Totals[topKey] = {
776
+ total: total,
777
+ tier2Totals: tier2Totals,
778
+ };
779
+ }
780
+
781
+ // Sort Tier 1 keys by total count (descending)
782
+ const sortedTier1Keys = Object.keys(tier1Totals).sort(
783
+ (a, b) => tier1Totals[b].total - tier1Totals[a].total
784
+ );
785
+
786
+ // Build the sorted data structure
787
+ sortedDataDict = {};
788
+
789
+ for (const topKey of sortedTier1Keys) {
790
+ sortedDataDict[topKey] = {};
791
+
792
+ // Sort Tier 2 keys by their individual counts (descending)
793
+ const tier2Totals = tier1Totals[topKey].tier2Totals;
794
+ const sortedTier2Keys = Object.keys(tier2Totals).sort(
795
+ (a, b) => tier2Totals[b] - tier2Totals[a]
796
+ );
797
+
798
+ // Add sorted Tier 2 keys with their values
799
+ for (const subKey of sortedTier2Keys) {
800
+ sortedDataDict[topKey][subKey] = dataDict[topKey][subKey];
801
+ }
802
+ }
803
+
804
+ return sortedDataDict;
805
+ }
806
+
807
+ // Function to load Tier 1 data (top-level slices) with an outer ring showing Tier 2 subcategories.
808
+ function loadTier1() {
809
+ currentLevel = 1;
810
+ currentTier1 = null;
811
+ const newData = [];
812
+
813
+ // Create the central node.
814
+ newData.push({
815
+ id: "root",
816
+ name: "ToolUniverse",
817
+ value: 1, // inner slice made very small.
818
+ color: "skyblue",
819
+ });
820
+
821
+ let index = 1;
822
+ // For each top-level key, create a Tier 1 slice and add an outer ring (level 3) for its Tier 2 subcategories.
823
+ for (const topKey in sortedDataDict) {
824
+ // Calculate total value as the sum of all Tier 2 subcategory counts.
825
+ let total = 0;
826
+ const tier2Obj = sortedDataDict[topKey];
827
+ for (const subKey in tier2Obj) {
828
+ total += tier2Obj[subKey].length;
829
+ }
830
+
831
+ // Set a specific color for Tier 1 (cycling through chart colors)
832
+ const color =
833
+ chart.options.colors[(index - 1) % chart.options.colors.length];
834
+
835
+ // Tier 1 slice (level 2).
836
+ const tier1Id = "tier1_" + index;
837
+ newData.push({
838
+ id: tier1Id,
839
+ parent: "root",
840
+ name: toSentenceCase(topKey),
841
+ value: total,
842
+ originalKey: topKey,
843
+ color: color,
844
+ });
845
+
846
+ // Level 3: For each Tier 2 category, add a slice whose width is proportional to its item count.
847
+ let tier2Index = 1;
848
+ for (const subKey in tier2Obj) {
849
+ newData.push({
850
+ id: tier1Id + "_tier2_" + tier2Index,
851
+ parent: tier1Id,
852
+ name: "", // no label for the outer ring
853
+ // Set value proportional to the number of items in the subcategory.
854
+ value: tier2Obj[subKey].length,
855
+ originalKey: subKey,
856
+ color: Highcharts.color(color).brighten(0.1).get(),
857
+ dataLabels: { enabled: false },
858
+ });
859
+ tier2Index++;
860
+ }
861
+
862
+ index++;
863
+ }
864
+ chart.series[0].setData(newData, true);
865
+ chart.setTitle({ text: "ToolUniverse" });
866
+ }
867
+
868
+ // Function to load Tier 2 data (second-level slices) with an outer ring showing the number of Tier 3 items.
869
+ function loadTier2(topKey) {
870
+ currentLevel = 2;
871
+ currentTier1 = topKey;
872
+ const newData = [];
873
+
874
+ // Central node is now the Tier 1 label.
875
+ newData.push({
876
+ id: "root",
877
+ name: toSentenceCase(topKey),
878
+ value: 1,
879
+ color: Highcharts.color(currentTier1Color).brighten(-0.05).get(),
880
+ });
881
+
882
+ let index = 1;
883
+ const secondLevelObj = sortedDataDict[topKey];
884
+
885
+ // Define a maximum brighten value (adjust as needed)
886
+ const maxBrighten = 0.2;
887
+ const brightenStep =
888
+ Object.keys(secondLevelObj).length > 1
889
+ ? maxBrighten / (Object.keys(secondLevelObj).length - 1)
890
+ : 0;
891
+
892
+ // For each Tier 2 category, add a slice (level 2) and then an outer ring (level 3) for its Tier 3 items.
893
+ for (const subKey in secondLevelObj) {
894
+ const parentColor = Highcharts.color(currentTier1Color)
895
+ .brighten(brightenStep * index)
896
+ .get();
897
+ const tier2Id = "tier2_" + index;
898
+ newData.push({
899
+ id: tier2Id,
900
+ parent: "root",
901
+ name: toSentenceCase(subKey),
902
+ value: secondLevelObj[subKey].length,
903
+ originalKey: subKey,
904
+ color: parentColor,
905
+ });
906
+
907
+ // Level 3: for each Tier 3 item under this Tier 2 category.
908
+ let tier3Index = 1;
909
+ const children = secondLevelObj[subKey];
910
+ for (const item of children) {
911
+ newData.push({
912
+ id: tier2Id + "_tier3_" + tier3Index,
913
+ parent: tier2Id,
914
+ name: "", // no label for the outer ring
915
+ value: 1, // each Tier 3 item is given a unit value (adjust if needed)
916
+ originalKey: item,
917
+ color: Highcharts.color(parentColor).brighten(0.1).get(),
918
+ dataLabels: { enabled: false },
919
+ });
920
+ tier3Index++;
921
+ }
922
+ index++;
923
+ }
924
+ chart.series[0].setData(newData, true);
925
+ chart.setTitle({ text: "ToolUniverse: " + toSentenceCase(topKey) });
926
+ }
927
+
928
+ // Function to load Tier 3 data (third-level slices).
929
+ // (Since Tier 3 is the lowest level, we keep its configuration unchanged.)
930
+ function loadTier3(topKey, subKey) {
931
+ currentLevel = 3;
932
+ const newData = [];
933
+ // Central node is now the Tier 2 label.
934
+ newData.push({
935
+ id: "root",
936
+ name: toSentenceCase(subKey),
937
+ value: 1,
938
+ color: Highcharts.color(currentTier2Color).brighten(-0.05).get(),
939
+ });
940
+ let index = 1;
941
+ const children = sortedDataDict[topKey][subKey];
942
+
943
+ const maxBrighten = 0.2;
944
+ const brightenStep =
945
+ children.length > 1 ? maxBrighten / (children.length - 1) : 0;
946
+
947
+ for (const item of children) {
948
+ newData.push({
949
+ id: "tier3_" + index,
950
+ parent: "root",
951
+ name: toSentenceCase(item),
952
+ value: 1,
953
+ originalKey: item,
954
+ color: Highcharts.color(currentTier2Color)
955
+ .brighten(brightenStep * index)
956
+ .get(),
957
+ });
958
+ index++;
959
+ }
960
+ chart.series[0].setData(newData, true);
961
+ chart.setTitle({ text: "ToolUniverse: " + toSentenceCase(subKey) });
962
+ }
963
+
964
+ // Render the initial 3-level sunburst chart.
965
+ chart = Highcharts.chart("tooluniverse-container", {
966
+ chart: {
967
+ height: "100%",
968
+ },
969
+ title: {
970
+ text: "ToolUniverse",
971
+ },
972
+ series: [
973
+ {
974
+ type: "sunburst",
975
+ data: [], // Data will be loaded via loadTier1().
976
+ // We assign colors manually.
977
+ colorByPoint: false,
978
+ allowDrillToNode: false,
979
+ dataLabels: {
980
+ format: "{point.name}",
981
+ distance: 20,
982
+ style: {
983
+ fontSize: "10px",
984
+ textAlign: "center",
985
+ width: "80px",
986
+ whiteSpace: "normal",
987
+ textOutline: "none",
988
+ color: "#000000",
989
+ },
990
+ rotation: "auto",
991
+ },
992
+ // Configure levels:
993
+ levels: [
994
+ {
995
+ level: 1,
996
+ levelSize: { unit: "pixels", value: 40 },
997
+ },
998
+ {
999
+ level: 2,
1000
+ levelSize: { unit: "percentage", value: 70 },
1001
+ },
1002
+ {
1003
+ level: 3,
1004
+ levelSize: { unit: "pixels", value: 15 },
1005
+ dataLabels: { enabled: false },
1006
+ },
1007
+ ],
1008
+ // Define click events on individual slices.
1009
+ point: {
1010
+ events: {
1011
+ click: function () {
1012
+ // If the central node is clicked, drill up.
1013
+ if (this.id === "root") {
1014
+ if (currentLevel === 2) {
1015
+ loadTier1();
1016
+ } else if (currentLevel === 3) {
1017
+ loadTier2(currentTier1);
1018
+ }
1019
+ } else {
1020
+ // Drill down based on the current level.
1021
+ if (
1022
+ currentLevel === 1 &&
1023
+ sortedDataDict[this.options.originalKey]
1024
+ ) {
1025
+ currentTier1Color = this.color;
1026
+ loadTier2(this.options.originalKey);
1027
+ } else if (
1028
+ currentLevel === 2 &&
1029
+ currentTier1 &&
1030
+ sortedDataDict[currentTier1][this.options.originalKey]
1031
+ ) {
1032
+ currentTier2Color = this.color;
1033
+ loadTier3(currentTier1, this.options.originalKey);
1034
+ }
1035
+ }
1036
+ },
1037
+ },
1038
+ },
1039
+ },
1040
+ ],
1041
+ tooltip: {
1042
+ headerFormat: "",
1043
+ pointFormat: "<b>{point.name}</b>",
1044
+ },
1045
+ colors: [
1046
+ "#FFA15A",
1047
+ "#636efa",
1048
+ "#ab63fa",
1049
+ "#FF6692",
1050
+ "#EF553B",
1051
+ "#00cc96",
1052
+ "#B6E880",
1053
+ "#19d3f3",
1054
+ "#f2ce3f",
1055
+ ],
1056
+ });
1057
+
1058
+ // First, sort the data dictionary.
1059
+ sortDataDict();
1060
+
1061
+ // Load the initial top-level (Tier 1) view.
1062
+ loadTier1();
1063
+ </script>
monarch_tools.json ADDED
@@ -0,0 +1,112 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ [
2
+ {
3
+ "name": "get_joint_associated_diseases_by_HPO_ID_list",
4
+ "description": "Retrieve diseases associated with a list of phenotypes or symptoms by a list of HPO IDs.",
5
+ "parameter": {
6
+ "type": "object",
7
+ "properties": {
8
+ "HPO_ID_list": {
9
+ "type": "array",
10
+ "description": "List of phenotypes or symptoms",
11
+ "items": {
12
+ "type": "string",
13
+ "description": "The HPO ID of the phenotype or symptom.",
14
+ "required": true
15
+ },
16
+ "required": true
17
+ },
18
+ "limit": {
19
+ "type": "integer",
20
+ "description": "Number of entries to fetch.",
21
+ "required": false
22
+ },
23
+ "offset": {
24
+ "type": "integer",
25
+ "description": "Number of initial entries to skip.",
26
+ "required": false
27
+ }
28
+ }
29
+ },
30
+ "query_schema": {
31
+ "category": ["biolink:DiseaseToPhenotypicFeatureAssociation"],
32
+ "object": null,
33
+ "compact": true,
34
+ "object_category": ["biolink:PhenotypicFeature"],
35
+ "limit": 500,
36
+ "offset": 0
37
+ },
38
+ "label": [
39
+ "Monarch",
40
+ "Phenotype",
41
+ "Symptom",
42
+ "Disease",
43
+ "HPO_ID"
44
+ ],
45
+ "type": "MonarchDiseasesForMultiplePheno",
46
+ "tool_url": "/association"
47
+ },
48
+ {
49
+ "name": "get_phenotype_by_HPO_ID",
50
+ "description": "Retrieve a phenotype or symptom by its HPO ID.",
51
+ "parameter": {
52
+ "type": "object",
53
+ "properties": {
54
+ "id": {
55
+ "type": "string",
56
+ "description": "The HPO ID of the phenotype or symptom.",
57
+ "required": true
58
+ }
59
+ }
60
+ },
61
+ "query_schema": {
62
+ "id": null,
63
+ "url_key": "id"
64
+ },
65
+ "label": [
66
+ "Monarch",
67
+ "Phenotype",
68
+ "Symptom",
69
+ "HPO_ID"
70
+ ],
71
+ "type": "Monarch",
72
+ "tool_url": "/entity/{url_key}"
73
+ },
74
+ {
75
+ "name": "get_HPO_ID_by_phenotype",
76
+ "description": "Retrieve the HPO ID of a phenotype or symptom.",
77
+ "parameter": {
78
+ "type": "object",
79
+ "properties": {
80
+ "query": {
81
+ "type": "string",
82
+ "description": "One query phenotype or symptom.",
83
+ "required": true
84
+ },
85
+ "limit": {
86
+ "type": "integer",
87
+ "description": "Number of entries to fetch.",
88
+ "required": false
89
+ },
90
+ "offset": {
91
+ "type": "integer",
92
+ "description": "Number of initial entries to skip.",
93
+ "required": false
94
+ }
95
+ }
96
+ },
97
+ "query_schema": {
98
+ "query": null,
99
+ "category": ["biolink:PhenotypicFeature"],
100
+ "limit": 20,
101
+ "offset": 0
102
+ },
103
+ "label": [
104
+ "Monarch",
105
+ "Phenotype",
106
+ "Symptom",
107
+ "HPO_ID"
108
+ ],
109
+ "type": "Monarch",
110
+ "tool_url": "/search"
111
+ }
112
+ ]
opentarget_tools.json ADDED
@@ -0,0 +1,2166 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ [
2
+ {
3
+ "name": "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: $efoId) {\n id\n name\n associatedTargets {\n count\n rows {\n target {\n id\n approvedSymbol\n }\n score\n }\n }\n }\n}\n",
24
+ "type": "OpenTarget"
25
+ },
26
+ {
27
+ "name": "get_associated_diseases_phenotypes_by_target_ensemblID",
28
+ "description": "Find diseases or phenotypes associated with a specific target using ensemblId.",
29
+ "label": [
30
+ "Target",
31
+ "Disease",
32
+ "Phenotype",
33
+ "Association",
34
+ "OpenTarget",
35
+ "GraphQL"
36
+ ],
37
+ "parameter": {
38
+ "type": "object",
39
+ "properties": {
40
+ "ensemblId": {
41
+ "type": "string",
42
+ "description": "The ensemblId of a target.",
43
+ "required": true
44
+ }
45
+ }
46
+ },
47
+ "query_schema": "\nquery associatedDiseases($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n associatedDiseases {\n count\n rows {\n disease {\n id\n name\n }\n datasourceScores {\n id\n score\n }\n }\n }\n }\n}\n",
48
+ "type": "OpenTarget"
49
+ },
50
+ {
51
+ "name": "target_disease_evidence",
52
+ "description": "Explore evidence that supports a specific target-disease association. Input is disease efoId and target ensemblID.",
53
+ "label": [
54
+ "Target",
55
+ "Disease",
56
+ "Evidence",
57
+ "Association",
58
+ "OpenTarget",
59
+ "GraphQL"
60
+ ],
61
+ "parameter": {
62
+ "type": "object",
63
+ "properties": {
64
+ "efoId": {
65
+ "type": "string",
66
+ "description": "The efoId of a disease or phenotype.",
67
+ "required": true
68
+ },
69
+ "ensemblId": {
70
+ "type": "string",
71
+ "description": "The ensemblId of a target.",
72
+ "required": true
73
+ }
74
+ }
75
+ },
76
+ "query_schema": "\nquery targetDiseaseEvidence($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"
78
+ },
79
+ {
80
+ "name": "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: $chemblId) {\n id\n name\n drugWarnings {\n warningType\n description\n country\n year\n toxicityClass\n chemblIds\n efoIdForWarningClass\n references {\n id\n source\n url\n }\n }\n }\n }\n ",
93
+ "label": [
94
+ "Drug",
95
+ "AdverseEvents",
96
+ "SafetyLiability",
97
+ "OpenTarget",
98
+ "GraphQL",
99
+ "Warnings",
100
+ "Safety",
101
+ "Withdrawal",
102
+ "Toxicity"
103
+ ],
104
+ "type": "OpenTarget"
105
+ },
106
+ {
107
+ "name": "get_drug_mechanisms_of_action_by_chemblId",
108
+ "description": "Retrieve the mechanisms of action associated with a specific drug using chemblId.",
109
+ "parameter": {
110
+ "type": "object",
111
+ "properties": {
112
+ "chemblId": {
113
+ "type": "string",
114
+ "description": "The ChEMBL ID of the drug.",
115
+ "required": true
116
+ }
117
+ }
118
+ },
119
+ "query_schema": "\n query drugMechanismsOfAction($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n mechanismsOfAction {\n rows {\n mechanismOfAction\n actionType\n targetName\n targets {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
120
+ "label": [
121
+ "Drug",
122
+ "MechanismsOfAction",
123
+ "Target",
124
+ "Pharmacology",
125
+ "ChemblId",
126
+ "OpenTarget",
127
+ "GraphQL"
128
+ ],
129
+ "type": "OpenTarget"
130
+ },
131
+ {
132
+ "name": "get_associated_drugs_by_disease_efoId",
133
+ "description": "Retrieve known drugs associated with a specific disease by disease efoId.",
134
+ "parameter": {
135
+ "type": "object",
136
+ "properties": {
137
+ "efoId": {
138
+ "type": "string",
139
+ "description": "The EFO ID of the disease.",
140
+ "required": true
141
+ },
142
+ "size": {
143
+ "type": "integer",
144
+ "description": "Number of entries to fetch, recomanding a large number to avoid missing drugs.",
145
+ "required": true
146
+ }
147
+ }
148
+ },
149
+ "query_schema": "\n query diseaseKnownDrugs($efoId: String!, $size: Int!, $freeTextQuery: String) {\n disease(efoId: $efoId) {\n id\n name\n knownDrugs(size: $size, freeTextQuery: $freeTextQuery) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
150
+ "examples": [
151
+ {
152
+ "question": "Please list the drugs associated with the disease with efoId 'EFO_0005548' and filter by 'dopamine'.",
153
+ "query": {
154
+ "name": "get_associated_drugs_by_disease_efoId",
155
+ "arguments": {
156
+ "efoId": "EFO_0005548",
157
+ "size": 10,
158
+ "freeTextQuery": "dopamine"
159
+ }
160
+ }
161
+ }
162
+ ],
163
+ "label": [
164
+ "OpenTarget",
165
+ "Disease",
166
+ "Drug",
167
+ "Pagination",
168
+ "GraphQL"
169
+ ],
170
+ "type": "OpenTarget"
171
+ },
172
+ {
173
+ "name": "get_similar_entities_by_disease_efoId",
174
+ "description": "Retrieve similar entities for a given disease efoId using a model trained with PubMed.",
175
+ "parameter": {
176
+ "type": "object",
177
+ "properties": {
178
+ "efoId": {
179
+ "type": "string",
180
+ "description": "The EFO ID of the disease.",
181
+ "required": true
182
+ },
183
+ "threshold": {
184
+ "type": "number",
185
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
186
+ "required": true
187
+ },
188
+ "size": {
189
+ "type": "integer",
190
+ "description": "Number of similar entities to fetch.",
191
+ "required": true
192
+ }
193
+ }
194
+ },
195
+ "query_schema": "\n query diseaseSimilarEntities($efoId: String!, $threshold: Float!, $size: Int!) {\n disease(efoId: $efoId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
196
+ "label": [
197
+ "Disease",
198
+ "Similarity",
199
+ "Model",
200
+ "Entities",
201
+ "OpenTarget",
202
+ "GraphQL"
203
+ ],
204
+ "type": "OpenTarget"
205
+ },
206
+ {
207
+ "name": "get_similar_entities_by_drug_chemblId",
208
+ "description": "Retrieve similar entities for a given drug chemblId using a model trained with PubMed.",
209
+ "parameter": {
210
+ "type": "object",
211
+ "properties": {
212
+ "chemblId": {
213
+ "type": "string",
214
+ "description": "The chemblId of the disease.",
215
+ "required": true
216
+ },
217
+ "threshold": {
218
+ "type": "number",
219
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
220
+ "required": true
221
+ },
222
+ "size": {
223
+ "type": "integer",
224
+ "description": "Number of similar entities to fetch.",
225
+ "required": true
226
+ }
227
+ }
228
+ },
229
+ "query_schema": "\n query diseaseSimilarEntities($chemblId: String!, $threshold: Float!, $size: Int!) {\n drug(chemblId: $chemblId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
230
+ "label": [
231
+ "Drug",
232
+ "Similarity",
233
+ "Model",
234
+ "Entities",
235
+ "OpenTarget",
236
+ "GraphQL"
237
+ ],
238
+ "type": "OpenTarget"
239
+ },
240
+ {
241
+ "name": "get_similar_entities_by_target_ensemblID",
242
+ "description": "Retrieve similar entities for a given target ensemblID using a model trained with PubMed.",
243
+ "parameter": {
244
+ "type": "object",
245
+ "properties": {
246
+ "ensemblId": {
247
+ "type": "string",
248
+ "description": "The ensemblID of the disease.",
249
+ "required": true
250
+ },
251
+ "threshold": {
252
+ "type": "number",
253
+ "description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
254
+ "required": true
255
+ },
256
+ "size": {
257
+ "type": "integer",
258
+ "description": "Number of similar entities to fetch.",
259
+ "required": true
260
+ }
261
+ }
262
+ },
263
+ "query_schema": "\n query diseaseSimilarEntities($ensemblId: String!, $threshold: Float!, $size: Int!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
264
+ "label": [
265
+ "Disease",
266
+ "Similarity",
267
+ "Model",
268
+ "Entities",
269
+ "OpenTarget",
270
+ "GraphQL"
271
+ ],
272
+ "type": "OpenTarget"
273
+ },
274
+ {
275
+ "name": "get_associated_phenotypes_by_disease_efoId",
276
+ "description": "Find HPO phenotypes asosciated with the specified disease efoId.",
277
+ "parameter": {
278
+ "type": "object",
279
+ "properties": {
280
+ "efoId": {
281
+ "type": "string",
282
+ "description": "The efoId of a disease or phenotype.",
283
+ "required": true
284
+ }
285
+ }
286
+ },
287
+ "query_schema": "query diseaseAnnotation($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n phenotypes {\n rows {\n phenotypeHPO {\n id\n name\n description\n namespace\n }\n phenotypeEFO {\n id\n name\n }\n }\n }\n }\n}",
288
+ "label": [
289
+ "Disease",
290
+ "OpenTarget",
291
+ "GraphQL",
292
+ "Phenotype",
293
+ "Symptoms",
294
+ "Clinical signs"
295
+ ],
296
+ "type": "OpenTarget"
297
+ },
298
+ {
299
+ "name": "get_drug_withdrawn_blackbox_status_by_chemblId",
300
+ "description": "Find withdrawn and black-box warning statuses for a specific drug by chemblId.",
301
+ "parameter": {
302
+ "type": "object",
303
+ "properties": {
304
+ "chemblId": {
305
+ "type": "array",
306
+ "items": {
307
+ "type": "string"
308
+ },
309
+ "description": "The chemblId of a drug.",
310
+ "required": true
311
+ }
312
+ }
313
+ },
314
+ "query_schema": "\n query drugWithdrawnWarningData($chemblId: String!) {\n drug(chemblId: $chemblId) {\n name\n id\n hasBeenWithdrawn\n blackBoxWarning\n }\n }\n ",
315
+ "label": [
316
+ "Drug",
317
+ "SafetyWarnings",
318
+ "Withdrawal",
319
+ "OpenTarget",
320
+ "GraphQL"
321
+ ],
322
+ "type": "OpenTarget"
323
+ },
324
+ {
325
+ "name": "search_category_counts_by_query_string",
326
+ "description": "Get the count of entries in each entity category (disease, target, drug) based on a query string.",
327
+ "parameter": {
328
+ "type": "object",
329
+ "properties": {
330
+ "queryString": {
331
+ "type": "string",
332
+ "description": "The search string for querying information.",
333
+ "required": true
334
+ }
335
+ }
336
+ },
337
+ "query_schema": "\n query searchCategoryCounts($queryString: String!) {\n search(queryString: $queryString) {\n aggregations {\n total\n entities {\n total\n name\n }\n }\n }\n }\n ",
338
+ "label": [
339
+ "OpenTarget",
340
+ "GraphQL",
341
+ "SearchResults",
342
+ "Search",
343
+ "Query",
344
+ "Counts",
345
+ "Categories"
346
+ ],
347
+ "type": "OpenTarget"
348
+ },
349
+ {
350
+ "name": "get_disease_id_description_by_name",
351
+ "description": "Retrieve the efoId and additional details of a disease based on its name.",
352
+ "parameter": {
353
+ "type": "object",
354
+ "properties": {
355
+ "diseaseName": {
356
+ "type": "string",
357
+ "description": "The name of the disease to search for.",
358
+ "required": true
359
+ }
360
+ }
361
+ },
362
+ "query_schema": "\n query getDiseaseIdByName($diseaseName: String!) {\n search(queryString: $diseaseName, entityNames: [\"disease\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
363
+ "label": [
364
+ "Disease",
365
+ "Identification",
366
+ "Search",
367
+ "Name",
368
+ "Disease",
369
+ "OpenTarget",
370
+ "GraphQL"
371
+ ],
372
+ "type": "OpenTarget"
373
+ },
374
+ {
375
+ "name": "get_drug_id_description_by_name",
376
+ "description": "Fetch the drug chemblId and description based on the drug name.",
377
+ "parameter": {
378
+ "type": "object",
379
+ "properties": {
380
+ "drugName": {
381
+ "type": "string",
382
+ "description": "The name of the drug for which the ID is required.",
383
+ "required": true
384
+ }
385
+ }
386
+ },
387
+ "query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
388
+ "label": [
389
+ "Identification",
390
+ "Search",
391
+ "Name",
392
+ "Drug",
393
+ "OpenTarget",
394
+ "GraphQL"
395
+ ],
396
+ "type": "OpentargetToolDrugNameMatch"
397
+ },
398
+ {
399
+ "name": "get_drug_indications_by_chemblId",
400
+ "description": "Fetch indications (treatable phenotypes/diseases) for a given drug chemblId.",
401
+ "parameter": {
402
+ "type": "object",
403
+ "properties": {
404
+ "chemblId": {
405
+ "type": "string",
406
+ "description": "The chemblId of the drug for which to retrieve treatable phenotypes information.",
407
+ "required": true
408
+ }
409
+ }
410
+ },
411
+ "query_schema": "\n query drugIndications($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n indications {\n rows {\n disease {\n id\n name\n }\n maxPhaseForIndication\n references {\n source\n ids\n }\n }\n }\n }\n }\n ",
412
+ "label": [
413
+ "Drug",
414
+ "Indications",
415
+ "Disease",
416
+ "Treatment",
417
+ "OpenTarget",
418
+ "GraphQL"
419
+ ],
420
+ "type": "OpenTarget"
421
+ },
422
+ {
423
+ "name": "get_target_gene_ontology_by_ensemblID",
424
+ "description": "Retrieve Gene Ontology annotations for a specific target by Ensembl ID.",
425
+ "parameter": {
426
+ "type": "object",
427
+ "properties": {
428
+ "ensemblId": {
429
+ "type": "string",
430
+ "description": "The Ensembl ID of the target for which to retrieve Gene Ontology annotations.",
431
+ "required": true
432
+ }
433
+ }
434
+ },
435
+ "query_schema": "\n query targetGeneOntology($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneOntology {\n aspect\n evidence\n geneProduct\n source\n term {\n id\n name\n }\n }\n }\n }\n ",
436
+ "examples": [
437
+ {
438
+ "question": "Can you retrieve the Gene Ontology annotations for the target with Ensembl ID 'ENSG00000136492'?",
439
+ "query": {
440
+ "name": "get_target_gene_ontology_by_ensemblID",
441
+ "arguments": {
442
+ "ensemblId": "ENSG00000136492"
443
+ }
444
+ }
445
+ },
446
+ {
447
+ "question": "What are the Gene Ontology annotations for the target identified by Ensembl ID 'ENSG00000138653'?",
448
+ "query": {
449
+ "name": "get_target_gene_ontology_by_ensemblID",
450
+ "arguments": {
451
+ "ensemblId": "ENSG00000138653"
452
+ }
453
+ }
454
+ },
455
+ {
456
+ "question": "Please provide the Gene Ontology annotations for the target with Ensembl ID 'ENSG00000186162'.",
457
+ "query": {
458
+ "name": "get_target_gene_ontology_by_ensemblID",
459
+ "arguments": {
460
+ "ensemblId": "ENSG00000186162"
461
+ }
462
+ }
463
+ }
464
+ ],
465
+ "label": [
466
+ "Target",
467
+ "GeneOntology",
468
+ "OpenTarget",
469
+ "GraphQL"
470
+ ],
471
+ "type": "OpenTarget"
472
+ },
473
+ {
474
+ "name": "get_target_homologues_by_ensemblID",
475
+ "description": "Fetch homologues for a specific target by Ensembl ID.",
476
+ "parameter": {
477
+ "type": "object",
478
+ "properties": {
479
+ "ensemblId": {
480
+ "type": "string",
481
+ "description": "The Ensembl ID of the target for which to retrieve homologues.",
482
+ "required": true
483
+ }
484
+ }
485
+ },
486
+ "query_schema": "\n query targetHomologues($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n homologues {\n homologyType\n queryPercentageIdentity\n speciesId\n speciesName\n targetGeneId\n targetGeneSymbol\n targetPercentageIdentity\n isHighConfidence\n }\n }\n }\n ",
487
+ "examples": [
488
+ {
489
+ "question": "Can you fetch homologues for the target with Ensembl ID 'ENSG00000100033'?",
490
+ "query": {
491
+ "name": "get_target_homologues_by_ensemblID",
492
+ "arguments": {
493
+ "ensemblId": "ENSG00000100033"
494
+ }
495
+ }
496
+ },
497
+ {
498
+ "question": "What are the homologues for the target identified by Ensembl ID 'ENSG00000288534'?",
499
+ "query": {
500
+ "name": "get_target_homologues_by_ensemblID",
501
+ "arguments": {
502
+ "ensemblId": "ENSG00000288534"
503
+ }
504
+ }
505
+ },
506
+ {
507
+ "question": "Please provide the homologues for the target with Ensembl ID 'ENSG00000198937'.",
508
+ "query": {
509
+ "name": "get_target_homologues_by_ensemblID",
510
+ "arguments": {
511
+ "ensemblId": "ENSG00000198937"
512
+ }
513
+ }
514
+ }
515
+ ],
516
+ "label": [
517
+ "OpenTarget",
518
+ "Target Information",
519
+ "GraphQL",
520
+ "Homologue"
521
+ ],
522
+ "type": "OpenTarget"
523
+ },
524
+ {
525
+ "name": "get_target_safety_profile_by_ensemblID",
526
+ "description": "Retrieve known target safety liabilities for a specific target Ensembl ID.",
527
+ "parameter": {
528
+ "type": "object",
529
+ "properties": {
530
+ "ensemblId": {
531
+ "type": "string",
532
+ "description": "The Ensembl ID of the target for which to retrieve safety liabilities.",
533
+ "required": true
534
+ }
535
+ }
536
+ },
537
+ "query_schema": "\n query targetSafetyLiabilities($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n safetyLiabilities {\n event\n eventId\n biosamples {\n cellFormat\n cellLabel\n tissueLabel\n tissueId\n }\n effects {\n dosing\n direction\n }\n studies {\n name\n type\n description\n }\n datasource\n literature\n }\n }\n }\n ",
538
+ "examples": [
539
+ {
540
+ "question": "Can you provide the safety liabilities for the target with Ensembl ID 'ENSG00000175274'?",
541
+ "query": {
542
+ "name": "target_safety_liabilities",
543
+ "arguments": {
544
+ "ensemblId": "ENSG00000175274"
545
+ }
546
+ }
547
+ },
548
+ {
549
+ "question": "What are the known safety effects for the target identified by Ensembl ID 'ENSG00000226446'?",
550
+ "query": {
551
+ "name": "target_safety_liabilities",
552
+ "arguments": {
553
+ "ensemblId": "ENSG00000226446"
554
+ }
555
+ }
556
+ },
557
+ {
558
+ "question": "Please retrieve the safety risk information for the target with Ensembl ID 'ENSG00000151929'.",
559
+ "query": {
560
+ "name": "target_safety_liabilities",
561
+ "arguments": {
562
+ "ensemblId": "ENSG00000151929"
563
+ }
564
+ }
565
+ }
566
+ ],
567
+ "label": [
568
+ "Target",
569
+ "SafetyLiability",
570
+ "OpenTarget",
571
+ "GraphQL",
572
+ "Safety",
573
+ "Liabilities"
574
+ ],
575
+ "type": "OpenTarget"
576
+ },
577
+ {
578
+ "name": "get_biological_mouse_models_by_ensemblID",
579
+ "description": "Retrieve biological mouse models, including allelic compositions and genetic backgrounds, for a specific target.",
580
+ "parameter": {
581
+ "type": "object",
582
+ "properties": {
583
+ "ensemblId": {
584
+ "type": "string",
585
+ "description": "The Ensembl ID of the target.",
586
+ "required": true
587
+ }
588
+ }
589
+ },
590
+ "query_schema": "\n query fetchBiologicalModels($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n mousePhenotypes {\n biologicalModels {\n allelicComposition\n geneticBackground\n id\n literature\n }\n }\n }\n }\n ",
591
+ "examples": [
592
+ {
593
+ "question": "What are the allelic compositions and genetic backgrounds for the target identified by Ensembl ID 'ENSG00000196639'?",
594
+ "query": {
595
+ "name": "get_biological_mouse_models_by_ensemblID",
596
+ "arguments": {
597
+ "ensemblId": "ENSG00000196639"
598
+ }
599
+ }
600
+ },
601
+ {
602
+ "question": "Please provide the biological models for the target with the Ensembl ID 'ENSG00000171862'.",
603
+ "query": {
604
+ "name": "get_biological_mouse_models_by_ensemblID",
605
+ "arguments": {
606
+ "ensemblId": "ENSG00000171862"
607
+ }
608
+ }
609
+ }
610
+ ],
611
+ "label": [
612
+ "OpenTarget",
613
+ "Target Information",
614
+ "BiologicalModels",
615
+ "GraphQL"
616
+ ],
617
+ "type": "OpenTarget"
618
+ },
619
+ {
620
+ "name": "get_target_genomic_location_by_ensemblID",
621
+ "description": "Retrieve genomic location data for a specific target, including chromosome, start, end, and strand.",
622
+ "parameter": {
623
+ "type": "object",
624
+ "properties": {
625
+ "ensemblId": {
626
+ "type": "string",
627
+ "description": "The Ensembl ID of the target for which to retrieve genomic location information.",
628
+ "required": true
629
+ }
630
+ }
631
+ },
632
+ "query_schema": "\n query targetGenomicLocation($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n genomicLocation {\n chromosome\n start\n end\n strand\n }\n }\n }\n ",
633
+ "examples": [
634
+ {
635
+ "question": "Can you provide the genomic location for the target with Ensembl ID 'ENSG00000114098'?",
636
+ "query": {
637
+ "name": "get_target_genomic_location_by_ensemblID",
638
+ "arguments": {
639
+ "ensemblId": "ENSG00000114098"
640
+ }
641
+ }
642
+ },
643
+ {
644
+ "question": "What is the genomic location data for the target identified by Ensembl ID 'ENSG00000231404'?",
645
+ "query": {
646
+ "name": "get_target_genomic_location_by_ensemblID",
647
+ "arguments": {
648
+ "ensemblId": "ENSG00000231404"
649
+ }
650
+ }
651
+ },
652
+ {
653
+ "question": "Please retrieve the genomic location information for the target with Ensembl ID 'ENSG00000167258'.",
654
+ "query": {
655
+ "name": "get_target_genomic_location_by_ensemblID",
656
+ "arguments": {
657
+ "ensemblId": "ENSG00000167258"
658
+ }
659
+ }
660
+ }
661
+ ],
662
+ "label": [
663
+ "Target",
664
+ "GenomicLocation",
665
+ "OpenTarget",
666
+ "GraphQL"
667
+ ],
668
+ "type": "OpenTarget"
669
+ },
670
+ {
671
+ "name": "get_target_subcellular_locations_by_ensemblID",
672
+ "description": "Retrieve information about subcellular locations for a specific target ensemblID.",
673
+ "parameter": {
674
+ "type": "object",
675
+ "properties": {
676
+ "ensemblId": {
677
+ "type": "string",
678
+ "description": "The ensemblId of a target.",
679
+ "required": true
680
+ }
681
+ }
682
+ },
683
+ "query_schema": "\n query targetSubcellularLocations($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n subcellularLocations {\n location\n source\n termSL\n labelSL\n }\n }\n }\n ",
684
+ "examples": [
685
+ {
686
+ "question": "Can you provide the subcellular locations for the target with Ensembl ID 'ENSG00000121898'?",
687
+ "query": {
688
+ "name": "get_target_subcellular_locations_by_ensemblID",
689
+ "arguments": {
690
+ "ensemblId": "ENSG00000121898"
691
+ }
692
+ }
693
+ },
694
+ {
695
+ "question": "What are the subcellular locations for the target identified by Ensembl ID 'ENSG00000274286'?",
696
+ "query": {
697
+ "name": "get_target_subcellular_locations_by_ensemblID",
698
+ "arguments": {
699
+ "ensemblId": "ENSG00000274286"
700
+ }
701
+ }
702
+ },
703
+ {
704
+ "question": "Please retrieve the subcellular location information for the target with Ensembl ID 'ENSG00000171843'.",
705
+ "query": {
706
+ "name": "get_target_subcellular_locations_by_ensemblID",
707
+ "arguments": {
708
+ "ensemblId": "ENSG00000171843"
709
+ }
710
+ }
711
+ }
712
+ ],
713
+ "label": [
714
+ "Target",
715
+ "Subcellular Locations",
716
+ "GraphQL",
717
+ "OpenTarget"
718
+ ],
719
+ "type": "OpenTarget"
720
+ },
721
+ {
722
+ "name": "get_target_synonyms_by_ensemblID",
723
+ "description": "Retrieve synonyms for specified target, including alternative names and symbols, using given ensemblID.",
724
+ "parameter": {
725
+ "type": "object",
726
+ "properties": {
727
+ "ensemblId": {
728
+ "type": "string",
729
+ "description": "The Ensembl ID of the target.",
730
+ "required": true
731
+ }
732
+ }
733
+ },
734
+ "query_schema": "\n query retrieveTargetSynonyms($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n synonyms {\n label\n source\n }\n symbolSynonyms {\n label\n source\n }\n nameSynonyms {\n label\n source\n }\n }\n }\n ",
735
+ "examples": [
736
+ {
737
+ "question": "Can you retrieve synonyms for the target with the Ensembl ID 'ENSG00000188986'?",
738
+ "query": {
739
+ "name": "get_target_synonyms_by_ensemblID",
740
+ "arguments": {
741
+ "ensemblId": "ENSG00000188986"
742
+ }
743
+ }
744
+ },
745
+ {
746
+ "question": "What are the alternative names and symbols for the target identified by Ensembl ID 'ENSG00000269335'?",
747
+ "query": {
748
+ "name": "get_target_synonyms_by_ensemblID",
749
+ "arguments": {
750
+ "ensemblId": "ENSG00000269335"
751
+ }
752
+ }
753
+ },
754
+ {
755
+ "question": "Please provide the synonyms for the target with Ensembl ID 'ENSG00000141052'.",
756
+ "query": {
757
+ "name": "get_target_synonyms_by_ensemblID",
758
+ "arguments": {
759
+ "ensemblId": "ENSG00000141052"
760
+ }
761
+ }
762
+ }
763
+ ],
764
+ "label": [
765
+ "OpenTarget",
766
+ "Target Information",
767
+ "GraphQL",
768
+ "Target"
769
+ ],
770
+ "type": "OpenTarget"
771
+ },
772
+ {
773
+ "name": "get_target_tractability_by_ensemblID",
774
+ "description": "Retrieve tractability assessments, including modality and values, for a specific target ensembl ID.",
775
+ "parameter": {
776
+ "type": "object",
777
+ "properties": {
778
+ "ensemblId": {
779
+ "type": "string",
780
+ "description": "The Ensembl ID of the target.",
781
+ "required": true
782
+ }
783
+ }
784
+ },
785
+ "query_schema": "\n query targetTractabilityAssessment($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tractability {\n label\n modality\n value\n }\n }\n }\n ",
786
+ "examples": [
787
+ {
788
+ "question": "Can you retrieve the tractability assessment for the target with Ensembl ID 'ENSG00000141736'?",
789
+ "query": {
790
+ "name": "get_target_tractability_by_ensemblID",
791
+ "arguments": {
792
+ "ensemblId": "ENSG00000141736"
793
+ }
794
+ }
795
+ },
796
+ {
797
+ "question": "What are the tractability assessments for the target identified by Ensembl ID 'ENSG00000169249'?",
798
+ "query": {
799
+ "name": "get_target_tractability_by_ensemblID",
800
+ "arguments": {
801
+ "ensemblId": "ENSG00000169249"
802
+ }
803
+ }
804
+ },
805
+ {
806
+ "question": "Please provide the tractability assessment details for the target with Ensembl ID 'ENSG00000122548'.",
807
+ "query": {
808
+ "name": "get_target_tractability_by_ensemblID",
809
+ "arguments": {
810
+ "ensemblId": "ENSG00000122548"
811
+ }
812
+ }
813
+ }
814
+ ],
815
+ "label": [
816
+ "Target",
817
+ "Tractability",
818
+ "OpenTarget",
819
+ "Target Information",
820
+ "GraphQL"
821
+ ],
822
+ "type": "OpenTarget"
823
+ },
824
+ {
825
+ "name": "get_target_classes_by_ensemblID",
826
+ "description": "Retrieve the target classes associated with a specific target ensemblID.",
827
+ "parameter": {
828
+ "type": "object",
829
+ "properties": {
830
+ "ensemblId": {
831
+ "type": "string",
832
+ "description": "The Ensembl ID of the target.",
833
+ "required": true
834
+ }
835
+ }
836
+ },
837
+ "query_schema": "\n query fetchTargetClasses($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n targetClass {\n id\n label\n level\n }\n }\n }\n ",
838
+ "examples": [
839
+ {
840
+ "question": "Can you retrieve the target classes for the target with Ensembl ID 'ENSG00000185324'?",
841
+ "query": {
842
+ "name": "get_target_classes_by_ensemblID",
843
+ "arguments": {
844
+ "ensemblId": "ENSG00000185324"
845
+ }
846
+ }
847
+ },
848
+ {
849
+ "question": "What are the target classes associated with the Ensembl ID 'ENSG00000141646'?",
850
+ "query": {
851
+ "name": "get_target_classes_by_ensemblID",
852
+ "arguments": {
853
+ "ensemblId": "ENSG00000141646"
854
+ }
855
+ }
856
+ },
857
+ {
858
+ "question": "Please provide the target classes for the target identified by Ensembl ID 'ENSG00000141736'.",
859
+ "query": {
860
+ "name": "get_target_classes_by_ensemblID",
861
+ "arguments": {
862
+ "ensemblId": "ENSG00000141736"
863
+ }
864
+ }
865
+ }
866
+ ],
867
+ "label": [
868
+ "OpenTarget",
869
+ "Target Information",
870
+ "GraphQL",
871
+ "Target"
872
+ ],
873
+ "type": "OpenTarget"
874
+ },
875
+ {
876
+ "name": "get_target_enabling_packages_by_ensemblID",
877
+ "description": "Retrieve the Target Enabling Packages (TEP) associated with a specific target ensemblID.",
878
+ "parameter": {
879
+ "type": "object",
880
+ "properties": {
881
+ "ensemblId": {
882
+ "type": "string",
883
+ "description": "The Ensembl ID of the target.",
884
+ "required": true
885
+ }
886
+ }
887
+ },
888
+ "query_schema": "\n query fetchTargetEnablingPackages($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tep {\n name\n uri\n therapeuticArea\n description\n }\n }\n }\n ",
889
+ "examples": [
890
+ {
891
+ "question": "Can you retrieve the Target Enabling Packages for the target with Ensembl ID 'ENSG00000167258'?",
892
+ "query": {
893
+ "name": "get_target_enabling_packages_by_ensemblID",
894
+ "arguments": {
895
+ "ensemblId": "ENSG00000167258"
896
+ }
897
+ }
898
+ }
899
+ ],
900
+ "label": [
901
+ "OpenTarget",
902
+ "Target Information",
903
+ "GraphQL",
904
+ "Target"
905
+ ],
906
+ "type": "OpenTarget"
907
+ },
908
+ {
909
+ "name": "get_target_interactions_by_ensemblID",
910
+ "description": "Retrieve interaction data for a specific target ensemblID, including interaction partners and evidence.",
911
+ "label": [
912
+ "Target",
913
+ "Interaction",
914
+ "Evidence",
915
+ "GraphQL",
916
+ "Pagination",
917
+ "OpenTarget"
918
+ ],
919
+ "parameter": {
920
+ "type": "object",
921
+ "properties": {
922
+ "ensemblId": {
923
+ "type": "string",
924
+ "description": "The Ensembl ID of the target.",
925
+ "required": true
926
+ },
927
+ "page": {
928
+ "type": "object",
929
+ "properties": {
930
+ "index": {
931
+ "type": "integer",
932
+ "description": "The index of the page to retrieve.",
933
+ "required": true
934
+ },
935
+ "size": {
936
+ "type": "integer",
937
+ "description": "The number of items per page.",
938
+ "required": true
939
+ }
940
+ },
941
+ "description": "Pagination parameters.",
942
+ "required": false
943
+ }
944
+ }
945
+ },
946
+ "query_schema": "\n query targetInteractions($ensemblId: String!, $page: Pagination!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n interactions(page: $page) {\n count\n rows {\n intA\n targetA {\n id\n approvedSymbol\n }\n intB\n targetB {\n id\n approvedSymbol\n }\n score\n sourceDatabase\n evidences {\n evidenceScore\n pubmedId\n interactionDetectionMethodShortName\n }\n }\n }\n }\n }\n ",
947
+ "examples": [
948
+ {
949
+ "question": "Can you retrieve interaction data for the target with Ensembl ID 'ENSG00000134508' from the source database 'BioGRID'?",
950
+ "query": {
951
+ "name": "target_interactions",
952
+ "arguments": {
953
+ "ensemblId": "ENSG00000134508",
954
+ "page": {
955
+ "index": 1,
956
+ "size": 10
957
+ }
958
+ }
959
+ }
960
+ },
961
+ {
962
+ "question": "What are the interaction partners and evidence for the target identified by Ensembl ID 'ENSG00000276601'?",
963
+ "query": {
964
+ "name": "target_interactions",
965
+ "arguments": {
966
+ "ensemblId": "ENSG00000276601",
967
+ "page": {
968
+ "index": 2,
969
+ "size": 5
970
+ }
971
+ }
972
+ }
973
+ },
974
+ {
975
+ "question": "Please provide the interaction data for the target with Ensembl ID 'ENSG00000287061' on the first page with 20 items per page.",
976
+ "query": {
977
+ "name": "target_interactions",
978
+ "arguments": {
979
+ "ensemblId": "ENSG00000287061",
980
+ "page": {
981
+ "index": 1,
982
+ "size": 20
983
+ }
984
+ }
985
+ }
986
+ }
987
+ ],
988
+ "type": "OpenTarget"
989
+ },
990
+ {
991
+ "name": "get_disease_ancestors_parents_by_efoId",
992
+ "description": "Retrieve the disease ancestors and parents in the ontology using the disease EFO ID.",
993
+ "parameter": {
994
+ "type": "object",
995
+ "properties": {
996
+ "efoId": {
997
+ "type": "string",
998
+ "description": "The EFO ID of the disease.",
999
+ "required": true
1000
+ }
1001
+ }
1002
+ },
1003
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n ancestors\n parents {\n id\n name\n }\n }\n }\n ",
1004
+ "label": [
1005
+ "OpenTarget",
1006
+ "Disease",
1007
+ "Disease Information",
1008
+ "GraphQL"
1009
+ ],
1010
+ "type": "OpenTarget"
1011
+ },
1012
+ {
1013
+ "name": "get_disease_descendants_children_by_efoId",
1014
+ "description": "Retrieve the disease descendants and children in the ontology using the disease EFO ID.",
1015
+ "parameter": {
1016
+ "type": "object",
1017
+ "properties": {
1018
+ "efoId": {
1019
+ "type": "string",
1020
+ "description": "The EFO ID of the disease.",
1021
+ "required": true
1022
+ }
1023
+ }
1024
+ },
1025
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n descendants\n children {\n id\n name\n }\n }\n }\n",
1026
+ "label": [
1027
+ "OpenTarget",
1028
+ "Disease",
1029
+ "Disease Information",
1030
+ "GraphQL"
1031
+ ],
1032
+ "type": "OpenTarget"
1033
+ },
1034
+ {
1035
+ "name": "get_disease_locations_by_efoId",
1036
+ "description": "Retrieve the disease's direct location and indirect location disease terms and IDs using the disease EFO ID.",
1037
+ "parameter": {
1038
+ "type": "object",
1039
+ "properties": {
1040
+ "efoId": {
1041
+ "type": "string",
1042
+ "description": "The EFO ID of the disease.",
1043
+ "required": true
1044
+ }
1045
+ }
1046
+ },
1047
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n directLocationIds\n indirectLocationIds\n directLocations {\n id\n name\n }\n indirectLocations {\n id\n name\n }\n }\n }\n ",
1048
+ "label": [
1049
+ "OpenTarget",
1050
+ "Disease",
1051
+ "Disease Information",
1052
+ "GraphQL"
1053
+ ],
1054
+ "type": "OpenTarget"
1055
+ },
1056
+ {
1057
+ "name": "get_disease_synonyms_by_efoId",
1058
+ "description": "Retrieve disease synonyms by its EFO ID.",
1059
+ "parameter": {
1060
+ "type": "object",
1061
+ "properties": {
1062
+ "efoId": {
1063
+ "type": "string",
1064
+ "description": "The EFO ID of the disease.",
1065
+ "required": true
1066
+ }
1067
+ }
1068
+ },
1069
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n synonyms {\n relation\n terms\n }\n }\n }\n",
1070
+ "label": [
1071
+ "OpenTarget",
1072
+ "Disease",
1073
+ "Disease Information",
1074
+ "GraphQL"
1075
+ ],
1076
+ "type": "OpenTarget"
1077
+ },
1078
+ {
1079
+ "name": "get_disease_description_by_efoId",
1080
+ "description": "Retrieve disease description, name, database cros references, obsolete terms, and whether it's a therapeutic area, all using the specified efoId.",
1081
+ "parameter": {
1082
+ "type": "object",
1083
+ "properties": {
1084
+ "efoId": {
1085
+ "type": "string",
1086
+ "description": "The EFO ID of the disease.",
1087
+ "required": true
1088
+ }
1089
+ }
1090
+ },
1091
+ "query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n description\n dbXRefs\n obsoleteTerms\n isTherapeuticArea\n }\n }\n ",
1092
+ "examples": [
1093
+ {
1094
+ "question": "Can you provide detailed information about the disease with the EFO ID 'MONDO_0000030'?",
1095
+ "query": {
1096
+ "name": "get_disease_description_by_efoId",
1097
+ "arguments": {
1098
+ "efoId": "MONDO_0000030"
1099
+ }
1100
+ }
1101
+ },
1102
+ {
1103
+ "question": "What are the details of the disease identified by the EFO ID 'EFO_0007468'?",
1104
+ "query": {
1105
+ "name": "get_disease_description_by_efoId",
1106
+ "arguments": {
1107
+ "efoId": "EFO_0007468"
1108
+ }
1109
+ }
1110
+ },
1111
+ {
1112
+ "question": "Please retrieve information about the disease with the EFO ID 'Orphanet_217563'.",
1113
+ "query": {
1114
+ "name": "get_disease_description_by_efoId",
1115
+ "arguments": {
1116
+ "efoId": "Orphanet_217563"
1117
+ }
1118
+ }
1119
+ }
1120
+ ],
1121
+ "label": [
1122
+ "OpenTarget",
1123
+ "Disease",
1124
+ "Disease Information",
1125
+ "GraphQL"
1126
+ ],
1127
+ "type": "OpenTarget"
1128
+ },
1129
+ {
1130
+ "name": "get_disease_therapeutic_areas_by_efoId",
1131
+ "description": "Retrieve the therapeutic areas associated with a specific disease efoId.",
1132
+ "parameter": {
1133
+ "type": "object",
1134
+ "properties": {
1135
+ "efoId": {
1136
+ "type": "string",
1137
+ "description": "The EFO ID of the disease.",
1138
+ "required": true
1139
+ }
1140
+ }
1141
+ },
1142
+ "query_schema": "\n query diseaseTherapeuticAreas($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n therapeuticAreas {\n id\n name\n }\n }\n }\n ",
1143
+ "examples": [
1144
+ {
1145
+ "question": "What therapeutic areas are linked to the disease with the efoId 'MONDO_0016474'?",
1146
+ "query": {
1147
+ "name": "get_disease_therapeutic_areas_by_efoId",
1148
+ "arguments": {
1149
+ "efoId": "MONDO_0016474"
1150
+ }
1151
+ }
1152
+ },
1153
+ {
1154
+ "question": "Can you provide the therapeutic areas associated with the disease identified by efoId 'Orphanet_2579'?",
1155
+ "query": {
1156
+ "name": "get_disease_therapeutic_areas_by_efoId",
1157
+ "arguments": {
1158
+ "efoId": "Orphanet_2579"
1159
+ }
1160
+ }
1161
+ },
1162
+ {
1163
+ "question": "Please list the therapeutic areas for the disease with the efoId 'MONDO_0000873'.",
1164
+ "query": {
1165
+ "name": "get_disease_therapeutic_areas_by_efoId",
1166
+ "arguments": {
1167
+ "efoId": "MONDO_0000873"
1168
+ }
1169
+ }
1170
+ }
1171
+ ],
1172
+ "label": [
1173
+ "OpenTarget",
1174
+ "Disease",
1175
+ "TherapeuticArea",
1176
+ "GraphQL"
1177
+ ],
1178
+ "type": "OpenTarget"
1179
+ },
1180
+ {
1181
+ "name": "get_drug_adverse_events_by_chemblId",
1182
+ "description": "Retrieve significant adverse events reported for a specific drug chemblId.",
1183
+ "parameter": {
1184
+ "type": "object",
1185
+ "properties": {
1186
+ "chemblId": {
1187
+ "type": "string",
1188
+ "description": "The ChEMBL ID of the drug.",
1189
+ "required": true
1190
+ },
1191
+ "page": {
1192
+ "type": "object",
1193
+ "properties": {
1194
+ "index": {
1195
+ "type": "integer",
1196
+ "description": "Index of the page to fetch, starting from 0.",
1197
+ "required": true
1198
+ },
1199
+ "size": {
1200
+ "type": "integer",
1201
+ "description": "Number of entries per page.",
1202
+ "required": true
1203
+ }
1204
+ },
1205
+ "description": "Pagination settings.",
1206
+ "required": false
1207
+ }
1208
+ }
1209
+ },
1210
+ "query_schema": "\n query drugAdverseEvents($chemblId: String!, $page: Pagination!) {\n drug(chemblId: $chemblId) {\n id\n name\n adverseEvents(page: $page) {\n count\n criticalValue\n rows {\n name\n meddraCode\n count\n logLR\n }\n }\n }\n }\n ",
1211
+ "label": [
1212
+ "Drug",
1213
+ "AdverseEvents",
1214
+ "Safety",
1215
+ "Reporting",
1216
+ "Pagination",
1217
+ "OpenTarget",
1218
+ "GraphQL",
1219
+ "AdverseEvents"
1220
+ ],
1221
+ "type": "OpenTarget"
1222
+ },
1223
+ {
1224
+ "name": "get_known_drugs_by_drug_chemblId",
1225
+ "description": "Get a list of known drugs and associated information using the specified chemblId.",
1226
+ "parameter": {
1227
+ "type": "object",
1228
+ "properties": {
1229
+ "chemblId": {
1230
+ "type": "string",
1231
+ "description": "The ChEMBL ID of the drug.",
1232
+ "required": true
1233
+ }
1234
+ }
1235
+ },
1236
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n knownDrugs {\n uniqueDrugs\n uniqueDiseases\n uniqueTargets\n count\n cursor\n rows {\n approvedSymbol\n approvedName\n label\n prefName\n drugType\n targetId\n diseaseId\n drugId\n phase\n mechanismOfAction\n status\n targetClass\n references {\n source\n ids\n urls\n }\n ctIds\n urls {\n url\n name\n }\n disease {\n id\n name\n }\n target {\n id\n approvedSymbol\n }\n drug {\n id\n name\n }\n }\n }\n }\n }\n ",
1237
+ "label": [
1238
+ "OpenTarget",
1239
+ "Drug",
1240
+ "Drug Information",
1241
+ "GraphQL"
1242
+ ],
1243
+ "type": "OpenTarget"
1244
+ },
1245
+ {
1246
+ "name": "get_parent_child_molecules_by_drug_chembl_ID",
1247
+ "description": "Get parent and child molecules of specified drug chemblId.",
1248
+ "parameter": {
1249
+ "type": "object",
1250
+ "properties": {
1251
+ "chemblId": {
1252
+ "type": "string",
1253
+ "description": "The ChEMBL ID of the drug.",
1254
+ "required": true
1255
+ }
1256
+ }
1257
+ },
1258
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n parentMolecule {\n id\n name\n }\n childMolecules {\n id\n name\n }\n }\n }\n ",
1259
+ "label": [
1260
+ "OpenTarget",
1261
+ "Drug",
1262
+ "Drug Information",
1263
+ "GraphQL"
1264
+ ],
1265
+ "type": "OpenTarget"
1266
+ },
1267
+ {
1268
+ "name": "get_approved_indications_by_drug_chemblId",
1269
+ "description": "Retrieve detailed information about multiple drugs using a list of ChEMBL IDs.",
1270
+ "parameter": {
1271
+ "type": "object",
1272
+ "properties": {
1273
+ "chemblId": {
1274
+ "type": "string",
1275
+ "description": "The ChEMBL ID of the drug.",
1276
+ "required": true
1277
+ }
1278
+ }
1279
+ },
1280
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n approvedIndications\n }\n }\n ",
1281
+ "label": [
1282
+ "OpenTarget",
1283
+ "Drug",
1284
+ "Drug Information",
1285
+ "GraphQL"
1286
+ ],
1287
+ "type": "OpenTarget"
1288
+ },
1289
+ {
1290
+ "name": "get_drug_description_by_chemblId",
1291
+ "description": "Get drug name, year of first approval, type, cross references, and max clinical trial phase based on specified chemblId.",
1292
+ "parameter": {
1293
+ "type": "object",
1294
+ "properties": {
1295
+ "chemblId": {
1296
+ "type": "string",
1297
+ "description": "The ChEMBL ID of the drug.",
1298
+ "required": true
1299
+ }
1300
+ }
1301
+ },
1302
+ "query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n yearOfFirstApproval\n drugType\n crossReferences {\n source\n reference\n }\n maximumClinicalTrialPhase\n }\n }\n ",
1303
+ "label": [
1304
+ "OpenTarget",
1305
+ "Drug",
1306
+ "Drug Information",
1307
+ "GraphQL"
1308
+ ],
1309
+ "type": "OpenTarget"
1310
+ },
1311
+ {
1312
+ "name": "get_drug_synonyms_by_chemblId",
1313
+ "description": "Retrieve the synonyms associated with a specific drug chemblId.",
1314
+ "parameter": {
1315
+ "type": "object",
1316
+ "properties": {
1317
+ "chemblId": {
1318
+ "type": "string",
1319
+ "description": "The ChEMBL ID of the drug.",
1320
+ "required": true
1321
+ }
1322
+ }
1323
+ },
1324
+ "query_schema": "\n query drugSynonyms($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n synonyms\n }\n }\n ",
1325
+ "examples": [
1326
+ {
1327
+ "question": "Can you provide the synonyms for the drug with ChEMBL ID 'CHEMBL2021430'?",
1328
+ "query": {
1329
+ "name": "drug_synget_drug_synonyms_by_chemblIdonyms",
1330
+ "arguments": {
1331
+ "chemblId": "CHEMBL2021430"
1332
+ }
1333
+ }
1334
+ },
1335
+ {
1336
+ "question": "What are the synonyms associated with the drug identified by ChEMBL ID 'CHEMBL295698'?",
1337
+ "query": {
1338
+ "name": "get_drug_synonyms_by_chemblId",
1339
+ "arguments": {
1340
+ "chemblId": "CHEMBL295698"
1341
+ }
1342
+ }
1343
+ },
1344
+ {
1345
+ "question": "Please list the synonyms for the drug that has the ChEMBL ID 'CHEMBL1084617'.",
1346
+ "query": {
1347
+ "name": "get_drug_synonyms_by_chemblId",
1348
+ "arguments": {
1349
+ "chemblId": "CHEMBL1084617"
1350
+ }
1351
+ }
1352
+ }
1353
+ ],
1354
+ "label": [
1355
+ "OpenTarget",
1356
+ "Drug Information",
1357
+ "Drug",
1358
+ "GraphQL"
1359
+ ],
1360
+ "type": "OpenTarget"
1361
+ },
1362
+ {
1363
+ "name": "get_drug_trade_names_by_chemblId",
1364
+ "description": "Retrieve the trade names associated with a specific drug chemblId.",
1365
+ "parameter": {
1366
+ "type": "object",
1367
+ "properties": {
1368
+ "chemblId": {
1369
+ "type": "string",
1370
+ "description": "The ChEMBL ID of the drug.",
1371
+ "required": true
1372
+ }
1373
+ }
1374
+ },
1375
+ "query_schema": "\n query drugTradeNames($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n tradeNames\n }\n }\n ",
1376
+ "examples": [
1377
+ {
1378
+ "question": "What are the trade names for the drug with ChEMBL ID 'CHEMBL25'?",
1379
+ "query": {
1380
+ "name": "get_drug_trade_names_by_chemblId",
1381
+ "arguments": {
1382
+ "chemblId": "CHEMBL25"
1383
+ }
1384
+ }
1385
+ },
1386
+ {
1387
+ "question": "Can you provide the trade names associated with the drug identified by ChEMBL ID 'CHEMBL1201613'?",
1388
+ "query": {
1389
+ "name": "get_drug_trade_names_by_chemblId",
1390
+ "arguments": {
1391
+ "chemblId": "CHEMBL1201613"
1392
+ }
1393
+ }
1394
+ },
1395
+ {
1396
+ "question": "Please list the trade names for the drug that has the ChEMBL ID 'CHEMBL3182621'.",
1397
+ "query": {
1398
+ "name": "get_drug_trade_names_by_chemblId",
1399
+ "arguments": {
1400
+ "chemblId": "CHEMBL3182621"
1401
+ }
1402
+ }
1403
+ }
1404
+ ],
1405
+ "label": [
1406
+ "Drug",
1407
+ "OpenTarget",
1408
+ "Drug Information",
1409
+ "GraphQL"
1410
+ ],
1411
+ "type": "OpenTarget"
1412
+ },
1413
+ {
1414
+ "name": "get_drug_approval_status_by_chemblId",
1415
+ "description": "Retrieve the approval status of a specific drug chemblId.",
1416
+ "parameter": {
1417
+ "type": "object",
1418
+ "properties": {
1419
+ "chemblId": {
1420
+ "type": "string",
1421
+ "description": "The ChEMBL ID of the drug.",
1422
+ "required": true
1423
+ }
1424
+ }
1425
+ },
1426
+ "query_schema": "\n query drugApprovalStatus($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n isApproved\n }\n }\n ",
1427
+ "examples": [
1428
+ {
1429
+ "question": "What is the approval status of the drug with ChEMBL ID 'CHEMBL2103799'?",
1430
+ "query": {
1431
+ "name": "get_drug_approval_status_by_chemblId",
1432
+ "arguments": {
1433
+ "chemblId": "CHEMBL2103799"
1434
+ }
1435
+ }
1436
+ },
1437
+ {
1438
+ "question": "Can you tell me if the drug identified by ChEMBL ID 'CHEMBL1684' is approved?",
1439
+ "query": {
1440
+ "name": "get_drug_approval_status_by_chemblId",
1441
+ "arguments": {
1442
+ "chemblId": "CHEMBL1684"
1443
+ }
1444
+ }
1445
+ },
1446
+ {
1447
+ "question": "Please provide the approval status for the drug with ChEMBL ID 'CHEMBL1086997'.",
1448
+ "query": {
1449
+ "name": "get_drug_approval_status_by_chemblId",
1450
+ "arguments": {
1451
+ "chemblId": "CHEMBL1086997"
1452
+ }
1453
+ }
1454
+ }
1455
+ ],
1456
+ "label": [
1457
+ "Drug",
1458
+ "Drug Information",
1459
+ "GraphQL",
1460
+ "OpenTarget"
1461
+ ],
1462
+ "type": "OpenTarget"
1463
+ },
1464
+ {
1465
+ "name": "get_chemical_probes_by_target_ensemblID",
1466
+ "description": "Retrieve chemical probes associated with a specific target using its ensemblID.",
1467
+ "parameter": {
1468
+ "type": "object",
1469
+ "properties": {
1470
+ "ensemblId": {
1471
+ "type": "string",
1472
+ "description": "The Ensembl ID of the target for which to retrieve chemical probes.",
1473
+ "required": true
1474
+ }
1475
+ }
1476
+ },
1477
+ "query_schema": "\n query getTargetChemicalProbes($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 ",
1478
+ "examples": [
1479
+ {
1480
+ "question": "Can you retrieve the chemical probes for the target with Ensembl ID 'ENSG00000163515'?",
1481
+ "query": {
1482
+ "name": "get_chemical_probes_by_target_ensemblID",
1483
+ "arguments": {
1484
+ "ensemblId": "ENSG00000163515"
1485
+ }
1486
+ }
1487
+ },
1488
+ {
1489
+ "question": "What chemical probes are associated with the target identified by Ensembl ID 'ENSG00000157916'?",
1490
+ "query": {
1491
+ "name": "get_chemical_probes_by_target_ensemblID",
1492
+ "arguments": {
1493
+ "ensemblId": "ENSG00000157916"
1494
+ }
1495
+ }
1496
+ },
1497
+ {
1498
+ "question": "Please list the chemical probes linked to the target with Ensembl ID 'ENSG00000253563'.",
1499
+ "query": {
1500
+ "name": "get_chemical_probes_by_target_ensemblID",
1501
+ "arguments": {
1502
+ "ensemblId": "ENSG00000253563"
1503
+ }
1504
+ }
1505
+ }
1506
+ ],
1507
+ "label": [
1508
+ "OpenTarget",
1509
+ "Drug Information",
1510
+ "ChemicalProbe",
1511
+ "GraphQL"
1512
+ ],
1513
+ "type": "OpenTarget"
1514
+ },
1515
+ {
1516
+ "name": "drug_pharmacogenomics_data",
1517
+ "description": "Retrieve pharmacogenomics data for a specific drug, including evidence levels and genotype annotations.",
1518
+ "label": [
1519
+ "Drug",
1520
+ "Pharmacogenomics",
1521
+ "Evidence",
1522
+ "Genotype",
1523
+ "Pagination",
1524
+ "OpenTarget",
1525
+ "GraphQL"
1526
+ ],
1527
+ "parameter": {
1528
+ "type": "object",
1529
+ "properties": {
1530
+ "chemblId": {
1531
+ "type": "string",
1532
+ "description": "The ChEMBL ID of the drug.",
1533
+ "required": true
1534
+ },
1535
+ "page": {
1536
+ "type": "object",
1537
+ "description": "Pagination options.",
1538
+ "properties": {
1539
+ "index": {
1540
+ "type": "integer",
1541
+ "description": "Pagination index.",
1542
+ "required": true
1543
+ },
1544
+ "size": {
1545
+ "type": "integer",
1546
+ "description": "Number of records to fetch per page.",
1547
+ "required": true
1548
+ }
1549
+ },
1550
+ "required": false
1551
+ }
1552
+ }
1553
+ },
1554
+ "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 ",
1555
+ "examples": [
1556
+ {
1557
+ "question": "Can you provide the pharmacogenomics data for the drug with ChEMBL ID 'CHEMBL23261'?",
1558
+ "query": {
1559
+ "name": "drug_pharmacogenomics_data",
1560
+ "arguments": {
1561
+ "chemblId": "CHEMBL23261",
1562
+ "page": {
1563
+ "index": 1,
1564
+ "size": 10
1565
+ }
1566
+ }
1567
+ }
1568
+ },
1569
+ {
1570
+ "question": "What are the genotype annotations and evidence levels for the drug identified by ChEMBL ID 'CHEMBL1497'?",
1571
+ "query": {
1572
+ "name": "drug_pharmacogenomics_data",
1573
+ "arguments": {
1574
+ "chemblId": "CHEMBL1497",
1575
+ "page": {
1576
+ "index": 2,
1577
+ "size": 5
1578
+ }
1579
+ }
1580
+ }
1581
+ },
1582
+ {
1583
+ "question": "Retrieve the pharmacogenomics data for the drug with ChEMBL ID 'CHEMBL4455124', including evidence levels.",
1584
+ "query": {
1585
+ "name": "drug_pharmacogenomics_data",
1586
+ "arguments": {
1587
+ "chemblId": "CHEMBL4455124",
1588
+ "page": {
1589
+ "index": 3,
1590
+ "size": 15
1591
+ }
1592
+ }
1593
+ }
1594
+ }
1595
+ ],
1596
+ "type": "OpenTarget"
1597
+ },
1598
+ {
1599
+ "name": "get_associated_drugs_by_target_ensemblID",
1600
+ "description": "Get known drugs associated with a specific target ensemblID, including clinical trial phase and mechanism of action of the drugs.",
1601
+ "parameter": {
1602
+ "type": "object",
1603
+ "properties": {
1604
+ "ensemblId": {
1605
+ "type": "string",
1606
+ "description": "The Ensembl ID of the target.",
1607
+ "required": true
1608
+ },
1609
+ "size": {
1610
+ "type": "integer",
1611
+ "description": "Number of entries to fetch.",
1612
+ "required": true
1613
+ },
1614
+ "cursor": {
1615
+ "type": "string",
1616
+ "description": "Cursor for pagination.",
1617
+ "required": false
1618
+ }
1619
+ }
1620
+ },
1621
+ "query_schema": "\n query targetKnownDrugs($ensemblId: String!, $size: Int!, $cursor: String) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n knownDrugs(size: $size, cursor: $cursor) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n disease {\n id\n name\n }\n }\n }\n }\n }\n ",
1622
+ "examples": [
1623
+ {
1624
+ "question": "Can you retrieve known drugs associated with the target having Ensembl ID 'ENSG00000141736' and fetch 10 entries?",
1625
+ "query": {
1626
+ "name": "get_associated_drugs_by_target_ensemblID",
1627
+ "arguments": {
1628
+ "ensemblId": "ENSG00000141736",
1629
+ "size": 10
1630
+ }
1631
+ }
1632
+ },
1633
+ {
1634
+ "question": "What are the known drugs for the target with Ensembl ID 'ENSG00000184182', and can you provide 5 entries?",
1635
+ "query": {
1636
+ "name": "get_associated_drugs_by_target_ensemblID",
1637
+ "arguments": {
1638
+ "ensemblId": "ENSG00000184182",
1639
+ "size": 5
1640
+ }
1641
+ }
1642
+ },
1643
+ {
1644
+ "question": "Please list the known drugs associated with the target identified by Ensembl ID 'ENSG00000104884', and fetch 15 entries. Use the cursor 'abc123' for pagination.",
1645
+ "query": {
1646
+ "name": "get_associated_drugs_by_target_ensemblID",
1647
+ "arguments": {
1648
+ "ensemblId": "ENSG00000104884",
1649
+ "size": 15,
1650
+ "cursor": "abc123"
1651
+ }
1652
+ }
1653
+ }
1654
+ ],
1655
+ "label": [
1656
+ "Target",
1657
+ "Drug",
1658
+ "MechanismsOfAction",
1659
+ "Pagination",
1660
+ "OpenTarget",
1661
+ "GraphQL"
1662
+ ],
1663
+ "type": "OpenTarget"
1664
+ },
1665
+ {
1666
+ "name": "get_associated_diseases_by_drug_chemblId",
1667
+ "description": "Retrieve the list of diseases associated with a specific drug chemblId based on clinical trial data or post-marketed drugs.",
1668
+ "parameter": {
1669
+ "type": "object",
1670
+ "properties": {
1671
+ "chemblId": {
1672
+ "type": "string",
1673
+ "description": "The ChEMBL ID of the drug.",
1674
+ "required": true
1675
+ }
1676
+ }
1677
+ },
1678
+ "query_schema": "\n query fetchLinkedDiseasesForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedDiseases {\n count\n rows {\n id\n name\n description\n }\n }\n }\n }\n ",
1679
+ "examples": [
1680
+ {
1681
+ "question": "Can you retrieve the list of diseases linked to the drug with ChEMBL ID 'CHEMBL3137349'?",
1682
+ "query": {
1683
+ "name": "get_associated_diseases_by_drug_chemblId",
1684
+ "arguments": {
1685
+ "chemblId": "CHEMBL3137349"
1686
+ }
1687
+ }
1688
+ },
1689
+ {
1690
+ "question": "What diseases are associated with the drug identified by ChEMBL ID 'CHEMBL1389'?",
1691
+ "query": {
1692
+ "name": "get_associated_diseases_by_drug_chemblId",
1693
+ "arguments": {
1694
+ "chemblId": "CHEMBL1389"
1695
+ }
1696
+ }
1697
+ },
1698
+ {
1699
+ "question": "Please provide the diseases linked to the drug that has the ChEMBL ID 'CHEMBL2109266'.",
1700
+ "query": {
1701
+ "name": "get_associated_diseases_by_drug_chemblId",
1702
+ "arguments": {
1703
+ "chemblId": "CHEMBL2109266"
1704
+ }
1705
+ }
1706
+ }
1707
+ ],
1708
+ "label": [
1709
+ "Drug",
1710
+ "Disease",
1711
+ "OpenTarget",
1712
+ "Drug Information",
1713
+ "GraphQL"
1714
+ ],
1715
+ "type": "OpenTarget"
1716
+ },
1717
+ {
1718
+ "name": "get_associated_targets_by_drug_chemblId",
1719
+ "description": "Retrieve the list of targets linked to a specific drug chemblId based on its mechanism of action.",
1720
+ "parameter": {
1721
+ "type": "object",
1722
+ "properties": {
1723
+ "chemblId": {
1724
+ "type": "string",
1725
+ "description": "The ChEMBL ID of the drug.",
1726
+ "required": true
1727
+ }
1728
+ }
1729
+ },
1730
+ "query_schema": "\n query fetchLinkedTargetsForDrug($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 ",
1731
+ "examples": [
1732
+ {
1733
+ "question": "Can you retrieve the list of targets linked to the drug with ChEMBL ID 'CHEMBL459008'?",
1734
+ "query": {
1735
+ "name": "get_associated_targets_by_drug_chemblId",
1736
+ "arguments": {
1737
+ "chemblId": "CHEMBL459008"
1738
+ }
1739
+ }
1740
+ },
1741
+ {
1742
+ "question": "What are the targets associated with the drug identified by ChEMBL ID 'CHEMBL1800955'?",
1743
+ "query": {
1744
+ "name": "get_associated_targets_by_drug_chemblId",
1745
+ "arguments": {
1746
+ "chemblId": "CHEMBL1800955"
1747
+ }
1748
+ }
1749
+ },
1750
+ {
1751
+ "question": "Please provide the list of targets for the drug with ChEMBL ID 'CHEMBL32'.",
1752
+ "query": {
1753
+ "name": "get_associated_targets_by_drug_chemblId",
1754
+ "arguments": {
1755
+ "chemblId": "CHEMBL32"
1756
+ }
1757
+ }
1758
+ }
1759
+ ],
1760
+ "label": [
1761
+ "Drug",
1762
+ "Target",
1763
+ "MechanismsOfAction",
1764
+ "OpenTarget",
1765
+ "GraphQL"
1766
+ ],
1767
+ "type": "OpenTarget"
1768
+ },
1769
+ {
1770
+ "name": "multi_entity_search_by_query_string",
1771
+ "description": "Perform a multi-entity search based on a query string, filtering by entity names and pagination settings.",
1772
+ "parameter": {
1773
+ "type": "object",
1774
+ "properties": {
1775
+ "queryString": {
1776
+ "type": "string",
1777
+ "description": "The search string for querying information.",
1778
+ "required": true
1779
+ },
1780
+ "entityNames": {
1781
+ "type": "array",
1782
+ "items": {
1783
+ "type": "string"
1784
+ },
1785
+ "description": "List of entity names to search for (e.g., target, disease, drug).",
1786
+ "required": false
1787
+ },
1788
+ "page": {
1789
+ "type": "object",
1790
+ "properties": {
1791
+ "index": {
1792
+ "type": "integer",
1793
+ "description": "Pagination index.",
1794
+ "required": "True"
1795
+ },
1796
+ "size": {
1797
+ "type": "integer",
1798
+ "description": "Pagination size.",
1799
+ "required": "True"
1800
+ }
1801
+ },
1802
+ "description": "Pagination settings with index and size.",
1803
+ "required": false
1804
+ }
1805
+ }
1806
+ },
1807
+ "query_schema": "\n query multiEntitySearch($queryString: String!, $entityNames: [String!], $page: Pagination) {\n search(queryString: $queryString, entityNames: $entityNames, page: $page) {\n total\n hits {\n id\n entity\n description\n name\n score\n }\n }\n }\n ",
1808
+ "examples": [
1809
+ {
1810
+ "question": "Can you search for information on the drug 'Aspirin' and the disease 'Hypertension'?",
1811
+ "query": {
1812
+ "name": "multi_entity_search_by_query_string",
1813
+ "arguments": {
1814
+ "queryString": "Aspirin Hypertension",
1815
+ "entityNames": [
1816
+ "drug",
1817
+ "disease"
1818
+ ],
1819
+ "page": {
1820
+ "index": 1,
1821
+ "size": 10
1822
+ }
1823
+ }
1824
+ }
1825
+ },
1826
+ {
1827
+ "question": "Please find details about the target 'BRCA1' with pagination settings of index 2 and size 5.",
1828
+ "query": {
1829
+ "name": "multi_entity_search_by_query_string",
1830
+ "arguments": {
1831
+ "queryString": "BRCA1",
1832
+ "entityNames": [
1833
+ "target"
1834
+ ],
1835
+ "page": {
1836
+ "index": 2,
1837
+ "size": 5
1838
+ }
1839
+ }
1840
+ }
1841
+ },
1842
+ {
1843
+ "question": "What information is available for the disease 'Diabetes'?",
1844
+ "query": {
1845
+ "name": "multi_entity_search_by_query_string",
1846
+ "arguments": {
1847
+ "queryString": "Diabetes",
1848
+ "entityNames": [
1849
+ "disease"
1850
+ ]
1851
+ }
1852
+ }
1853
+ }
1854
+ ],
1855
+ "label": [
1856
+ "Search and Mapping Functions",
1857
+ "MultiEntitySearch",
1858
+ "Pagination",
1859
+ "OpenTarget",
1860
+ "GraphQL"
1861
+ ],
1862
+ "type": "OpenTarget"
1863
+ },
1864
+ {
1865
+ "name": "get_gene_ontology_terms_by_goID",
1866
+ "description": "Retrieve Gene Ontology terms based on a list of GO IDs.",
1867
+ "parameter": {
1868
+ "type": "object",
1869
+ "properties": {
1870
+ "goIds": {
1871
+ "type": "array",
1872
+ "items": {
1873
+ "type": "string"
1874
+ },
1875
+ "description": "A list of Gene Ontology (GO) IDs to fetch the corresponding terms.",
1876
+ "required": true
1877
+ }
1878
+ }
1879
+ },
1880
+ "query_schema": "\n query fetchGeneOntologyTerms($goIds: [String!]!) {\n geneOntologyTerms(goIds: $goIds) {\n id\n name\n }\n }\n ",
1881
+ "examples": [
1882
+ {
1883
+ "question": "Can you retrieve the Gene Ontology terms for the GO IDs 'GO:0008150' and 'GO:0003674'?",
1884
+ "query": {
1885
+ "name": "fetch_gene_ontology_terms",
1886
+ "arguments": {
1887
+ "goIds": [
1888
+ "GO:0008150",
1889
+ "GO:0003674"
1890
+ ]
1891
+ }
1892
+ }
1893
+ },
1894
+ {
1895
+ "question": "What are the Gene Ontology terms associated with the GO IDs 'GO:0005575', 'GO:0003674', and 'GO:0008150'?",
1896
+ "query": {
1897
+ "name": "fetch_gene_ontology_terms",
1898
+ "arguments": {
1899
+ "goIds": [
1900
+ "GO:0005575",
1901
+ "GO:0003674",
1902
+ "GO:0008150"
1903
+ ]
1904
+ }
1905
+ }
1906
+ },
1907
+ {
1908
+ "question": "Please provide the Gene Ontology terms for the following GO IDs: 'GO:0008150', 'GO:0003674', 'GO:0005575', and 'GO:0003677'.",
1909
+ "query": {
1910
+ "name": "fetch_gene_ontology_terms",
1911
+ "arguments": {
1912
+ "goIds": [
1913
+ "GO:0008150",
1914
+ "GO:0003674",
1915
+ "GO:0005575",
1916
+ "GO:0003677"
1917
+ ]
1918
+ }
1919
+ }
1920
+ }
1921
+ ],
1922
+ "label": [
1923
+ "GeneOntology",
1924
+ "Data Retrieval and Aggregation",
1925
+ "OpenTarget",
1926
+ "GraphQL"
1927
+ ],
1928
+ "type": "OpenTarget"
1929
+ },
1930
+ {
1931
+ "name": "get_target_constraint_info_by_ensemblID",
1932
+ "description": "Retrieve genetic constraint information for a specific target ensemblID, including expected and observed values, and scores.",
1933
+ "parameter": {
1934
+ "type": "object",
1935
+ "properties": {
1936
+ "ensemblId": {
1937
+ "type": "string",
1938
+ "description": "The Ensembl ID of the target.",
1939
+ "required": true
1940
+ }
1941
+ }
1942
+ },
1943
+ "query_schema": "\n query targetConstraintInfo($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 ",
1944
+ "examples": [
1945
+ {
1946
+ "question": "Can you provide the genetic constraint information for the target with Ensembl ID 'ENSG00000135476'?",
1947
+ "query": {
1948
+ "name": "target_constraint_info",
1949
+ "arguments": {
1950
+ "ensemblId": "ENSG00000135476"
1951
+ }
1952
+ }
1953
+ },
1954
+ {
1955
+ "question": "What are the expected and observed values, and scores for the target identified by Ensembl ID 'ENSG00000290763'?",
1956
+ "query": {
1957
+ "name": "target_constraint_info",
1958
+ "arguments": {
1959
+ "ensemblId": "ENSG00000290763"
1960
+ }
1961
+ }
1962
+ },
1963
+ {
1964
+ "question": "Please retrieve the genetic constraint details for the target with Ensembl ID 'ENSG00000109906'.",
1965
+ "query": {
1966
+ "name": "target_constraint_info",
1967
+ "arguments": {
1968
+ "ensemblId": "ENSG00000109906"
1969
+ }
1970
+ }
1971
+ }
1972
+ ],
1973
+ "label": [
1974
+ "Target",
1975
+ "Constraint",
1976
+ "Data Retrieval and Aggregation",
1977
+ "OpenTarget",
1978
+ "GraphQL"
1979
+ ],
1980
+ "type": "OpenTarget"
1981
+ },
1982
+ {
1983
+ "name": "get_publications_by_disease_efoId",
1984
+ "description": "Retrieve publications related to a disease efoId, including PubMed IDs and publication dates.",
1985
+ "parameter": {
1986
+ "type": "object",
1987
+ "properties": {
1988
+ "entityId": {
1989
+ "type": "string",
1990
+ "description": "The ID of the entity (efoId).",
1991
+ "required": true
1992
+ },
1993
+ "additionalIds": {
1994
+ "type": "array",
1995
+ "items": {
1996
+ "type": "string"
1997
+ },
1998
+ "description": "List of additional IDs to include in the search.",
1999
+ "required": false
2000
+ },
2001
+ "startYear": {
2002
+ "type": "integer",
2003
+ "description": "Year at the lower end of the filter.",
2004
+ "required": false
2005
+ },
2006
+ "startMonth": {
2007
+ "type": "integer",
2008
+ "description": "Month at the lower end of the filter.",
2009
+ "required": false
2010
+ },
2011
+ "endYear": {
2012
+ "type": "integer",
2013
+ "description": "Year at the higher end of the filter.",
2014
+ "required": false
2015
+ },
2016
+ "endMonth": {
2017
+ "type": "integer",
2018
+ "description": "Month at the higher end of the filter.",
2019
+ "required": false
2020
+ }
2021
+ }
2022
+ },
2023
+ "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: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
2024
+ "examples": [
2025
+ {
2026
+ "question": "Can you retrieve publications related to the entity with ID 'EFO_0000400'?",
2027
+ "query": {
2028
+ "name": "get_publications_by_disease_efoId",
2029
+ "arguments": {
2030
+ "entityId": "EFO_0000400"
2031
+ }
2032
+ }
2033
+ }
2034
+ ],
2035
+ "label": [
2036
+ "Publications",
2037
+ "Data Retrieval and Aggregation",
2038
+ "GraphQL",
2039
+ "OpenTarget"
2040
+ ],
2041
+ "type": "OpenTarget"
2042
+ },
2043
+ {
2044
+ "name": "get_publications_by_target_ensemblID",
2045
+ "description": "Retrieve publications related to a target ensemblID, including PubMed IDs and publication dates.",
2046
+ "parameter": {
2047
+ "type": "object",
2048
+ "properties": {
2049
+ "entityId": {
2050
+ "type": "string",
2051
+ "description": "The ID of the entity (ensemblID).",
2052
+ "required": true
2053
+ },
2054
+ "additionalIds": {
2055
+ "type": "array",
2056
+ "items": {
2057
+ "type": "string"
2058
+ },
2059
+ "description": "List of additional IDs to include in the search.",
2060
+ "required": false
2061
+ },
2062
+ "startYear": {
2063
+ "type": "integer",
2064
+ "description": "Year at the lower end of the filter.",
2065
+ "required": false
2066
+ },
2067
+ "startMonth": {
2068
+ "type": "integer",
2069
+ "description": "Month at the lower end of the filter.",
2070
+ "required": false
2071
+ },
2072
+ "endYear": {
2073
+ "type": "integer",
2074
+ "description": "Year at the higher end of the filter.",
2075
+ "required": false
2076
+ },
2077
+ "endMonth": {
2078
+ "type": "integer",
2079
+ "description": "Month at the higher end of the filter.",
2080
+ "required": false
2081
+ }
2082
+ }
2083
+ },
2084
+ "query_schema": "\n query entityPublications($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: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
2085
+ "label": [
2086
+ "Publications",
2087
+ "Data Retrieval and Aggregation",
2088
+ "GraphQL",
2089
+ "OpenTarget"
2090
+ ],
2091
+ "type": "OpenTarget"
2092
+ },
2093
+ {
2094
+ "name": "get_publications_by_drug_chemblId",
2095
+ "description": "Retrieve publications related to a drug chemblId, including PubMed IDs and publication dates.",
2096
+ "parameter": {
2097
+ "type": "object",
2098
+ "properties": {
2099
+ "entityId": {
2100
+ "type": "string",
2101
+ "description": "The ID of the entity (chemblId).",
2102
+ "required": true
2103
+ },
2104
+ "additionalIds": {
2105
+ "type": "array",
2106
+ "items": {
2107
+ "type": "string"
2108
+ },
2109
+ "description": "List of additional IDs to include in the search.",
2110
+ "required": false
2111
+ },
2112
+ "startYear": {
2113
+ "type": "integer",
2114
+ "description": "Year at the lower end of the filter.",
2115
+ "required": false
2116
+ },
2117
+ "startMonth": {
2118
+ "type": "integer",
2119
+ "description": "Month at the lower end of the filter.",
2120
+ "required": false
2121
+ },
2122
+ "endYear": {
2123
+ "type": "integer",
2124
+ "description": "Year at the higher end of the filter.",
2125
+ "required": false
2126
+ },
2127
+ "endMonth": {
2128
+ "type": "integer",
2129
+ "description": "Month at the higher end of the filter.",
2130
+ "required": false
2131
+ }
2132
+ }
2133
+ },
2134
+ "query_schema": "\n query entityPublications($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: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
2135
+ "label": [
2136
+ "Publications",
2137
+ "Data Retrieval and Aggregation",
2138
+ "GraphQL",
2139
+ "OpenTarget"
2140
+ ],
2141
+ "type": "OpenTarget"
2142
+ },
2143
+ {
2144
+ "name": "get_target_id_description_by_name",
2145
+ "description": "Get the ensemblId and description based on the target name.",
2146
+ "parameter": {
2147
+ "type": "object",
2148
+ "properties": {
2149
+ "targetName": {
2150
+ "type": "string",
2151
+ "description": "The name of the target for which the ID is required.",
2152
+ "required": true
2153
+ }
2154
+ }
2155
+ },
2156
+ "query_schema": "\n query getTargetIdByName($targetName: String!) {\n search(queryString: $targetName, entityNames: [\"target\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
2157
+ "label": [
2158
+ "Search",
2159
+ "Name",
2160
+ "Target",
2161
+ "OpenTarget",
2162
+ "GraphQL"
2163
+ ],
2164
+ "type": "OpenTarget"
2165
+ }
2166
+ ]
specialties.json ADDED
@@ -0,0 +1,38 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ [
2
+ "Aerospace Medicine",
3
+ "Allergy and Immunology",
4
+ "Anesthesiology",
5
+ "Clinical Biochemical Genetics",
6
+ "Clinical Genetics and Genomics (MD)",
7
+ "Colon and Rectal Surgery",
8
+ "Dermatology",
9
+ "Diagnostic Radiology",
10
+ "Emergency Medicine",
11
+ "Family Medicine",
12
+ "General Surgery",
13
+ "Internal Medicine",
14
+ "Interventional Radiology and Diagnostic Radiology",
15
+ "Laboratory Genetics and Genomics",
16
+ "Medical Physics (Diagnostic, Nuclear, Therapeutic)",
17
+ "Neurological Surgery",
18
+ "Neurology",
19
+ "Neurology with Special Qualification in Child Neurology",
20
+ "Nuclear Medicine",
21
+ "Obstetrics and Gynecology",
22
+ "Occupational and Environmental Medicine",
23
+ "Ophthalmology",
24
+ "Orthopaedic Surgery",
25
+ "Otolaryngology – Head and Neck Surgery",
26
+ "Pathology – Anatomic",
27
+ "Pathology – Anatomic/Pathology - Clinical",
28
+ "Pathology – Clinical",
29
+ "Pediatrics",
30
+ "Physical Medicine and Rehabilitation",
31
+ "Plastic Surgery",
32
+ "Psychiatry",
33
+ "Public Health and General Preventive Medicine",
34
+ "Radiation Oncology",
35
+ "Thoracic and Cardiac Surgery",
36
+ "Urology",
37
+ "Vascular Surgery"
38
+ ]
subspecialties.json ADDED
@@ -0,0 +1,94 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ [
2
+ "Addiction Medicine",
3
+ "Addiction Psychiatry",
4
+ "Adolescent Medicine",
5
+ "Adult Cardiac Anesthesiology",
6
+ "Adult Congenital Heart Disease",
7
+ "Advanced Heart Failure and Transplant Cardiology",
8
+ "Anesthesiology Critical Care Medicine",
9
+ "Blood Banking/Transfusion Medicine",
10
+ "Brain Injury Medicine",
11
+ "Cardiovascular Disease",
12
+ "Child Abuse Pediatrics",
13
+ "Child and Adolescent Psychiatry",
14
+ "Clinical Cardiac Electrophysiology",
15
+ "Clinical Informatics",
16
+ "Clinical Neurophysiology",
17
+ "Complex Family Planning",
18
+ "Complex General Surgical Oncology",
19
+ "Complex Pediatric Otolaryngology",
20
+ "Congenital Cardiac Surgery",
21
+ "Consultation-Liaison Psychiatry",
22
+ "Critical Care Medicine",
23
+ "Cytopathology",
24
+ "Dermatopathology",
25
+ "Developmental-Behavioral Pediatrics",
26
+ "Emergency Medical Services",
27
+ "Endocrinology, Diabetes and Metabolism",
28
+ "Epilepsy",
29
+ "Forensic Psychiatry",
30
+ "Gastroenterology",
31
+ "Geriatric Medicine",
32
+ "Geriatric Psychiatry",
33
+ "Gynecologic Oncology",
34
+ "Health Care Administration, Leadership, and Management*",
35
+ "Hematology",
36
+ "Hematopathology",
37
+ "Hospice and Palliative Medicine",
38
+ "Infectious Disease",
39
+ "Internal Medicine-Critical Care Medicine",
40
+ "Interventional Cardiology",
41
+ "Maternal–Fetal Medicine",
42
+ "Medical Biochemical Genetics",
43
+ "Medical Oncology",
44
+ "Medical Toxicology",
45
+ "Micrographic Dermatologic Surgery",
46
+ "Molecular Genetic Pathology",
47
+ "Neonatal-Perinatal Medicine",
48
+ "Nephrology",
49
+ "Neurocritical Care",
50
+ "Neurodevelopmental Disabilities",
51
+ "Neuromuscular Medicine",
52
+ "Neuropathology",
53
+ "Neuroradiology",
54
+ "Neurotology",
55
+ "Nuclear Radiology",
56
+ "Orthopaedic Sports Medicine",
57
+ "Pain Medicine",
58
+ "Pathology – Chemical",
59
+ "Pathology – Forensic",
60
+ "Pathology – Medical Microbiology",
61
+ "Pathology – Molecular Genetic",
62
+ "Pathology – Pediatric",
63
+ "Pediatric Anesthesiology",
64
+ "Pediatric Cardiology",
65
+ "Pediatric Critical Care Medicine",
66
+ "Pediatric Dermatology",
67
+ "Pediatric Emergency Medicine",
68
+ "Pediatric Endocrinology",
69
+ "Pediatric Gastroenterology",
70
+ "Pediatric Hematology-Oncology",
71
+ "Pediatric Hospital Medicine",
72
+ "Pediatric Infectious Diseases",
73
+ "Pediatric Nephrology",
74
+ "Pediatric Pulmonology",
75
+ "Pediatric Radiology",
76
+ "Pediatric Rehabilitation Medicine",
77
+ "Pediatric Rheumatology",
78
+ "Pediatric Surgery",
79
+ "Pediatric Transplant Hepatology",
80
+ "Pediatric Urology",
81
+ "Plastic Surgery Within the Head and Neck*",
82
+ "Pulmonary Disease",
83
+ "Reproductive Endocrinology and Infertility",
84
+ "Rheumatology",
85
+ "Sleep Medicine",
86
+ "Spinal Cord Injury Medicine",
87
+ "Sports Medicine",
88
+ "Surgery of the Hand",
89
+ "Surgical Critical Care",
90
+ "Transplant Hepatology",
91
+ "Undersea and Hyperbaric Medicine",
92
+ "Urogynecology and Reconstructive Pelvic Surgery",
93
+ "Vascular Neurology"
94
+ ]