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246<article id="post-5201" class="page-body style-light-bg post-5201 page type-page status-publish hentry"> 247 <div class="post-wrapper"> 248 <div class="post-body"><div class="post-content un-no-sidebar-layout"><div data-parent="true" class="vc_row row-container has-dividers" id="row-unique-0"><div class="row-background background-element"> 249 <div class="background-wrapper"> 250 <div class="background-inner" style="background-image: url(https://repo4.eu/wp-content/uploads/2024/12/pawel-czerwinski-GFqo8rVmH30-unsplash.jpg);background-repeat: no-repeat;background-position: center center;background-attachment: scroll;background-size: cover;"></div> 251 <div class="block-bg-overlay block-bg-blend-mode for-ie style-color-197560-bg" style="opacity: 0;"></div><div class="block-bg-overlay block-bg-blend-mode not-ie style-color-197560-bg" style="mix-blend-mode:multiply;"></div> 252 </div> 253 </div><div class="uncode-divider-wrap uncode-divider-wrap-bottom z_index_0 uncode-row-divider-invert" style="height: 150px;" data-height="150" data-unit="px"><svg version="1.1" class="uncode-row-divider uncode-row-divider-curve" x="0px" y="0px" width="240px" height="24px" viewBox="0 0 240 24" enable-background="new 0 0 240 24" xml:space="preserve" preserveAspectRatio="none"> 254 <path fill="#ffffff" d="M0,24l0.01-0.24V0H240v24c0,0-48.115-23.471-120.039-23.48C48.018,0.52,0,24,0,24L0,24z"/> 255 </svg></div><div class="row exa-top-padding exa-bottom-padding single-h-padding limit-width row-parent" data-height-ratio="80"><div class="wpb_row row-inner"><div class="wpb_column pos-middle pos-center align_center column_parent col-lg-12 single-internal-gutter"><div class="uncol style-spec style-dark" ><div class="uncoltable"><div class="uncell no-block-padding" ><div class="uncont" ><div class="vc_custom_heading_wrap "><div class="heading-text el-text" ><h1 class="fontsize-109423 text-color-xsdn-color" ><span>Repurposing Data Standards</span><span>and Knowledge Base</span></h1></div><div class="clear"></div></div><div class="vc_custom_heading_wrap "><div class="heading-text el-text curtain animate_inner_when_almost_visible el-text-split" data-delay="100"><h1 class="h4 font-weight-600 text-color-219703-color font-obs" data-style="normal" data-weight="600" data-font="Rubik"><span class="heading-text-inner"><span class="split-word word1"><span class="split-word-flow"><span class="split-word-inner">An</span></span></span><span class="split-word word2"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>integrated</span></span></span><span class="split-word word3"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>perspective</span></span></span><span class="split-word word4"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>into</span></span></span><span class="split-word word5"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>drug</span></span></span><span class="split-word word6"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>repurposing</span></span></span></span></h1></div><div class="clear"></div></div></div></div></div></div></div>
255<script id="script-row-unique-0" data-row="script-row-unique-0" type="text/javascript" class="vc_controls">UNCODE.initRow(document.getElementById("row-unique-0"));</script>
255</div></div></div><div data-parent="true" class="vc_row row-next-to-blend row-container" id="row-unique-1"><div class="row triple-top-padding double-bottom-padding double-h-padding limit-width row-parent"><div class="wpb_row row-inner"><div class="wpb_column pos-top pos-center align_left column_parent col-lg-12 single-internal-gutter"><div class="uncol style-light" ><div class="uncoltable"><div class="uncell no-block-padding" ><div class="uncont" ><div class="vc_custom_heading_wrap " style="mix-blend-mode: multiply;"><div class="heading-text el-text curtain animate_inner_when_almost_visible el-text-split" data-delay="100"><h2 class="h1 text-color-204181-color font-obs" data-style="normal" data-weight="600" data-font="Rubik"><span class="heading-text-inner"><span class="split-word word1"><span class="split-word-flow"><span class="split-word-inner">Exploring</span></span></span><span class="split-word word2"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>the</span></span></span><span class="split-word word3"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>bigger</span></span></span><span class="split-word word4"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>picture</span></span></span></span></h2></div><div class="clear"></div></div><div class="uncode_text_column text-lead" ><p>Mechanism-based repurposing integrates heterogeneous data on drugs, targets, and diseases, often scattered across multiple databases using different nomenclature. Numerous computational tools are used to identify disease modules and to prioritize drugs for specific indications encompassing different data, methods and strategies without adhering to widely accepted standards.</p> 256<p>To address these challenges, in the context of REPO4EU project, we have conducted a systematic review effort of about 400 publications and identified valuable resources and relevant strategies for <em>in silico</em> mechanistic drug repurposing. Based on the insights gained through this comprehensive effort, we propose NeDRexDB, BioPAX (Level3) and Nextflow (DSL2) as part of our core toolkit.</p> 257</div></div></div></div></div></div>
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257</div></div></div><div data-parent="true" class="vc_row inverted-device-order row-container" id="row-unique-2"><div class="row unequal one-top-padding triple-bottom-padding single-h-padding full-width row-parent"><div class="wpb_row row-inner"><div class="wpb_column pos-middle pos-center align_left column_parent col-lg-4 single-internal-gutter"><div class="uncol style-spec style-dark animate_when_almost_visible zoom-in" ><div class="uncoltable"><div class="uncell double-block-padding style-color-204181-bg has-bg unradius-sm" ><div class="column-background background-element"> 258 <div class="background-wrapper"> 259 <div class="background-inner" style="background-image: url(https://repo4.eu/wp-content/uploads/2022/10/brain.png);background-repeat: no-repeat;background-position: center center;background-size: cover;" data-o_src="https://repo4.eu/wp-content/uploads/2022/10/brain.png"></div> 260 <div class="block-bg-overlay block-bg-blend-mode for-ie style-color-197560-bg" style="opacity: 0.5;"></div><div class="block-bg-overlay block-bg-blend-mode not-ie style-color-197560-bg" style="mix-blend-mode:multiply;"></div> 261 </div> 262 </div><div class="uncont" ><div class="vc_custom_heading_wrap "><div class="heading-text el-text" ><h3 class="h4" ><span>NeDRexDB</span></h3><div><p>A harmonised and standardised integrated data resource</p> 263</div></div><div class="clear"></div></div><span class="btn-container" ><a role="button" href="https://www.nature.com/articles/s41467-021-27138-2" class="custom-link btn btn-link border-width-0 text-default-color btn-icon-right" target="_blank">LEARN MORE<i class="fa fa-arrow-right2"></i></a></span></div></div></div></div></div><div class="wpb_column pos-top pos-center align_left column_parent col-lg-4 single-internal-gutter"><div class="uncol style-spec style-dark animate_when_almost_visible zoom-in" data-delay="100"><div class="uncoltable"><div class="uncell double-block-padding style-color-204181-bg has-bg unradius-sm" ><div class="column-background background-element"> 264 <div class="background-wrapper"> 265 <div class="background-inner" style="background-image: url(https://repo4.eu/wp-content/uploads/2022/10/document.png);background-repeat: no-repeat;background-position: center center;background-size: cover;" data-o_src="https://repo4.eu/wp-content/uploads/2022/10/document.png"></div> 266 <div class="block-bg-overlay block-bg-blend-mode for-ie style-color-197560-bg" style="opacity: 0.5;"></div><div class="block-bg-overlay block-bg-blend-mode not-ie style-color-197560-bg" style="mix-blend-mode:multiply;"></div> 267 </div> 268 </div><div class="uncont" ><div class="vc_custom_heading_wrap "><div class="heading-text el-text" ><h3 class="h4" ><span>BioPAX</span></h3><div><p>The standard format for representing disease modules</p> 269</div></div><div class="clear"></div></div><span class="btn-container" ><a role="button" href="http://www.biopax.org/" class="custom-link btn btn-link border-width-0 text-default-color btn-icon-right" target="_blank">LEARN MORE<i class="fa fa-arrow-right2"></i></a></span></div></div></div></div></div><div class="wpb_column pos-top pos-center align_left column_parent col-lg-4 single-internal-gutter"><div class="uncol style-spec style-dark animate_when_almost_visible zoom-in" data-delay="200"><div class="uncoltable"><div class="uncell double-block-padding style-color-204181-bg has-bg unradius-sm" ><div class="column-background background-element"> 270 <div class="background-wrapper"> 271 <div class="background-inner" style="background-image: url(https://repo4.eu/wp-content/uploads/2022/10/agreement.png);background-repeat: no-repeat;background-position: center center;background-size: cover;" data-o_src="https://repo4.eu/wp-content/uploads/2022/10/agreement.png"></div> 272 <div class="block-bg-overlay block-bg-blend-mode for-ie style-color-197560-bg" style="opacity: 0.5;"></div><div class="block-bg-overlay block-bg-blend-mode not-ie style-color-197560-bg" style="mix-blend-mode:multiply;"></div> 273 </div> 274 </div><div class="uncont" ><div class="vc_custom_heading_wrap "><div class="heading-text el-text" ><h3 class="h4" ><span>Nextflow</span></h3><div><p>The standard tool to describe computational workflows</p> 275</div></div><div class="clear"></div></div><span class="btn-container" ><a role="button" href="https://www.nextflow.io/" class="custom-link btn btn-link border-width-0 text-default-color bt
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275</div></div></div><div data-parent="true" class="vc_row row-next-to-blend row-container" id="row-unique-3"><div class="row one-top-padding one-bottom-padding single-h-padding limit-width row-parent"><div class="wpb_row row-inner"><div class="wpb_column pos-top pos-center align_left column_parent col-lg-12 single-internal-gutter"><div class="uncol style-light" ><div class="uncoltable"><div class="uncell no-block-padding" ><div class="uncont" ><div class="vc_custom_heading_wrap " style="mix-blend-mode: multiply;"><div class="heading-text el-text curtain animate_inner_when_almost_visible el-text-split" data-delay="100"><h2 class="h1 text-color-204181-color font-obs" data-style="normal" data-weight="600" data-font="Rubik"><span class="heading-text-inner"><span class="split-word word1"><span class="split-word-flow"><span class="split-word-inner">Setting</span></span></span><span class="split-word word2"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>up</span></span></span><span class="split-word word3"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>a</span></span></span><span class="split-word word4"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>knowledge</span></span></span><span class="split-word word5"><span class="split-word-flow"><span class="split-word-inner split-empty-inner"><span class="split-word-empty"> </span>base</span></span></span></span></h2></div><div class="clear"></div></div><div class="uncode_text_column text-lead" ><p>We have developed a comprehensive Knowledge Base building on the NeDRexDB to support <em>in silico</em> drug repurposing efforts. The REPO4EU enriched NeDRexDB extends<br /> 276the original resource with data from <strong>COSMIC</strong>, <strong>NCG, Intogen</strong>, <strong>Orphanet</strong>, and<strong> Open Targets</strong> and is updated regularly as major releases or data sources emerge. Through this Knowledge Base, we provide platform users with the necessary data resources for mechanism-based drug repurposing and keeping track of advancements in the field. The publicly available subset of the data can be accessed in a unified and standardised way via the link below.</p> 277</div><span class="btn-container" ><a role="button" href="https://exbio.wzw.tum.de/repo4eu_nedrex_open" class="custom-link btn border-width-0 btn-default btn-icon-left" target="_blank">Our Knowledge Base API</a></span></div></div></div></div></div>
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350<script id="mediaelement-core-js-before"> 351var mejsL10n = {"language":"en","strings":{"mejs.download-file":"Download File","mejs.install-flash":"You are using a browser that does not have Flash player enabled or installed. Please turn on your Flash player plugin or download the latest version from https://get.adobe.com/flashplayer/","mejs.fullscreen":"Fullscreen","mejs.play":"Play","mejs.pause":"Pause","mejs.time-slider":"Time Slider","mejs.time-help-text":"Use Left/Right Arrow keys to advance one second, Up/Down arrows to advance ten seconds.","mejs.live-broadcast":"Live Broadcast","mejs.volume-help-text":"Use Up/Down Arrow keys to increase or decrease volume.","mejs.unmute":"Unmute","mejs.mute":"Mute","mejs.volume-slider":"Volume Slider","mejs.video-player":"Video Player","mejs.audio-player":"Audio Player","mejs.captions-subtitles":"Captions/Subtitles","mejs.captions-chapters":"Chapters","mejs.none":"None","mejs.afrikaans":"Afrikaans","mejs.albanian":"Albanian","mejs.arabic":"Arabic","mejs.belarusian":"Belarusian","mejs.bulgarian":"Bulgarian","mejs.catalan":"Catalan","mejs.chinese":"Chinese","mejs.chinese-simplified":"Chinese (Simplified)","mejs.chinese-traditional":"Chinese (Traditional)","mejs.croatian":"Croatian","mejs.czech":"Czech","mejs.danish":"Danish","mejs.dutch":"Dutch","mejs.english":"English","mejs.estonian":"Estonian","mejs.filipino":"Filipino","mejs.finnish":"Finnish","mejs.french":"French","mejs.galician":"Galician","mejs.german":"German","mejs.greek":"Greek","mejs.haitian-creole":"Haitian Creole","mejs.hebrew":"Hebrew","mejs.hindi":"Hindi","mejs.hungarian":"Hungarian","mejs.icelandic":"Icelandic","mejs.indonesian":"Indonesian","mejs.irish":"Irish","mejs.italian":"Italian","mejs.japanese":"Japanese","mejs.korean":"Korean","mejs.latvian":"Latvian","mejs.lithuanian":"Lithuanian","mejs.macedonian":"Macedonian","mejs.malay":"Malay","mejs.maltese":"Maltese","mejs.norwegian":"Norwegian","mejs.persian":"Persian","mejs.polish":"Polish","mejs.portuguese":"Portuguese","mejs.romanian":"Romanian","mejs.russian":"Russian","mejs.serbian":"Serbian","mejs.slovak":"Slovak","mejs.slovenian":"Slovenian","mejs.spanish":"Spanish","mejs.swahili":"Swahili","mejs.swedish":"Swedish","mejs.tagalog":"Tagalog","mejs.thai":"Thai","mejs.turkish":"Turkish","mejs.ukrainian":"Ukrainian","mejs.vietnamese":"Vietnamese","mejs.welsh":"Welsh","mejs.yiddish":"Yiddish"}}; 352//# sourceURL=mediaelement-core-js-before 353</script>
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353
354<script id="mediaelement-core-js" src="https://repo4.eu/wp-includes/js/mediaelement/mediaelement-and-player.min.js?ver=4.2.17"></script>
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354
355<script id="mediaelement-migrate-js" src="https://repo4.eu/wp-includes/js/mediaelement/mediaelement-migrate.min.js?ver=7.1.2"></script>
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355
356<script id="mediaelement-js-extra"> 357var _wpmejsSettings = {"pluginPath":"/wp-includes/js/mediaelement/","classPrefix":"mejs-","stretching":"responsive","audioShortcodeLibrary":"mediaelement","videoShortcodeLibrary":"mediaelement"}; 358//# sourceURL=mediaelement-js-extra 359</script>
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359
360<script id="wp-mediaelement-js" src="https://repo4.eu/wp-includes/js/mediaelement/wp-mediaelement.min.js?ver=7.1.2"></script>
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360
361<script id="uncode-plugins-js" src="https://repo4.eu/wp-content/themes/uncode/library/js/plugins.js?ver=1831810281"></script>
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361
362<script id="uncode-app-js" src="https://repo4.eu/wp-content/themes/uncode/library/js/app.js?ver=1831810281"></script>
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362
363<script id="iubenda-cons-cdn-js" src="//cdn.iubenda.com/cons/iubenda_cons.js?ver=3.13.5"></script>
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363
364<script id="iubenda-cons-js-extra"> 365var iubConsParams = {"api_key":"5fKOB0mycTS4MMXVlnmyVwbPnnjpvb5O","log_level":"error","logger":"console","send_from_local_storage_at_load":"true"}; 366//# sourceURL=iubenda-cons-js-extra 367</script>
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367
368<script id="iubenda-cons-js" src="https://repo4.eu/wp-content/plugins/iubenda-cookie-law-solution/assets/js/cons.js?ver=3.13.5"></script>
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368
369<script id="wp-emoji-settings" type="application/json"> 370{"baseUrl":"https://s.w.org/images/core/emoji/17.0.2/72x72/","ext":".png","svgUrl":"https://s.w.org/images/core/emoji/17.0.2/svg/","svgExt":".svg","source":{"concatemoji":"https://repo4.eu/wp-includes/js/wp-emoji-release.min.js?ver=7.1.2"}} 371</script>
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371
372<script type="module"> 373/*! This file is auto-generated */ 374var e="script#wp-emoji-settings",t=document.querySelector(e);if(!(t instanceof HTMLScriptElement))throw new Error("Element missing: "+e);const r=JSON.parse(t.text),s=(window._wpemojiSettings=r,"wpEmojiSettingsSupports"),o=["flag","emoji"];function i(e){try{var t={supportTests:e,timestamp:(new Date).valueOf()};sessionStorage.setItem(s,JSON.stringify(t))}catch(e){}}function c(e,t,n){e.clearRect(0,0,e.canvas.width,e.canvas.height),e.fillText(t,0,0);t=new Uint32Array(e.getImageData(0,0,e.canvas.width,e.canvas.height).data);e.clearRect(0,0,e.canvas.width,e.canvas.height),e.fillText(n,0,0);const r=new Uint32Array(e.getImageData(0,0,e.canvas.width,e.canvas.height).data);return t.every((e,t)=>e===r[t])}function p(e,t){e.clearRect(0,0,e.canvas.width,e.canvas.height),e.fillText(t,0,0);var n=e.getImageData(16,16,1,1);for(let e=0;e<n.data.length;e++)if(0!==n.data[e])return!1;return!0}function u(e,t,n,r){switch(t){case"flag":return n(e,"\ud83c\udff3\ufe0f\u200d\u26a7\ufe0f","\ud83c\udff3\ufe0f\u200b\u26a7\ufe0f")?!1:!n(e,"\ud83c\udde8\ud83c\uddf6","\ud83c\udde8\u200b\ud83c\uddf6")&&!n(e,"\ud83c\udff4\udb40\udc67\udb40\udc62\udb40\udc65\udb40\udc6e\udb40\udc67\udb40\udc7f","\ud83c\udff4\u200b\udb40\udc67\u200b\udb40\udc62\u200b\udb40\udc65\u200b\udb40\udc6e\u200b\udb40\udc67\u200b\udb40\udc7f");case"emoji":return!r(e,"\ud83e\u1fac8")}return!1}function f(e,t,n,r){let a;const s=(a="undefined"!=typeof WorkerGlobalScope&&self instanceof WorkerGlobalScope?new OffscreenCanvas(300,150):document.createElement("canvas")).getContext("2d",{willReadFrequently:!0}),o=(s.textBaseline="top",s.font="600 32px Arial",{});return e.forEach(e=>{o[e]=t(s,e,n,r)}),o}function a(e){var t=document.createElement("script");t.src=e,t.defer=!0,document.head.appendChild(t)}r.supports={everything:!0,everythingExceptFlag:!0},new Promise(t=>{let n=function(){try{var e=JSON.parse(sessionStorage.getItem(s));if("object"==typeof e&&"number"==typeof e.timestamp&&(new Date).valueOf()<e.timestamp+604800&&"object"==typeof e.supportTests)return e.supportTests}catch(e){}return null}();if(!n){if("undefined"!=typeof Worker&&"undefined"!=typeof OffscreenCanvas&&"undefined"!=typeof URL&&URL.createObjectURL&&"undefined"!=typeof Blob)try{var e="postMessage("+f.toString()+"("+[JSON.stringify(o),u.toString(),c.toString(),p.toString()].join(",")+"));",r=new Blob([e],{type:"text/javascript"});const a=new Worker(URL.createObjectURL(r),{name:"wpTestEmojiSupports"});return void(a.onmessage=e=>{i(n=e.data),a.terminate(),t(n)})}catch(e){}i(n=f(o,u,c,p))}t(n)}).then(e=>{for(const n in e)r.supports[n]=e[n],r.supports.everything=r.supports.everything&&r.supports[n],"flag"!==n&&(r.supports.everythingExceptFlag=r.supports.everythingExceptFlag&&r.supports[n]);var t;r.supports.everythingExceptFlag=r.supports.everythingExceptFlag&&!r.supports.flag,r.supports.everything||((t=r.source||{}).concatemoji?a(t.concatemoji):t.wpemoji&&t.twemoji&&(a(t.twemoji),a(t.wpemoji)))}); 375//# sourceURL=https://repo4.eu/wp-includes/js/wp-emoji-loader.min.js 376</script>
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376
377<script></script>
377</body> 378</html> 379 380 381<!-- Page cached by LiteSpeed Cache 7.9.1 on 2026-10-02 07:44:25 -->
Line numbers count LF bytes from the start of the resource, as the search results do. Vendor segments are library code the classifier recognised; they are stored but not indexed. Bytes are shown as Latin1 characters, one per byte.