{"id":81311,"date":"2021-01-28T12:12:02","date_gmt":"2021-01-28T11:12:02","guid":{"rendered":"http:\/\/ibecbarcelona.eu\/?p=81311"},"modified":"2021-02-03T12:46:18","modified_gmt":"2021-02-03T11:46:18","slug":"libec-desenvolupa-un-software-per-al-descobriment-de-biomarcadors","status":"publish","type":"post","link":"https:\/\/ibecbarcelona.eu\/ca\/libec-desenvolupa-un-software-per-al-descobriment-de-biomarcadors\/","title":{"rendered":"L\u2019IBEC desenvolupa un software per al descobriment de biomarcadors"},"content":{"rendered":"

\"\"<\/span><\/p>\n

Els investigadors han<\/span> desenvolupat una eina per a l’aplicaci\u00f3 completa de la <\/span>metabol\u00f2mica<\/span> basada en la resson\u00e0ncia magn\u00e8tica nuclear no dirigida (RMN) per al descobriment de <\/span>biomarcadors<\/span> en diferents mostres biol\u00f2giques com l’orina, extractes de sang o c\u00e8l\u00b7lules.<\/span>\u00a0<\/span><\/p>\n

La <\/span>metabol\u00f2mica<\/span> de RMN no adre\u00e7ada compr\u00e8n la investigaci\u00f3 de compostos de baix pes molecular, anomenats metab\u00f2lits, que estan desregulats en condicions espec\u00edfiques com una malaltia. L’\u00fas d’un enfocament no dirigit no requereix coneixements previs sobre una via metab\u00f2lica espec\u00edfica, per\u00f2 proporciona informaci\u00f3 valuosa sobre les empremtes dactilars que revelen aquestes condicions espec\u00edfiques.<\/span>\u00a0<\/span><\/p>\n

La <\/span>metabol\u00f2mica<\/span> no dirigida t\u00e9 un contingut computacional important, <\/span>AlpsNMR<\/span> cobreix el flux de treball complet de les dades de RMN des del <\/span>preprocessament<\/span> de senyals fins a l’aprenentatge autom\u00e0tic per al descobriment de <\/span>biomarcadors<\/span>. El programari est\u00e0 disponible per a la comunitat <\/span>metabol\u00f2mica.
\n<\/span><\/strong><\/p>\n

 <\/p>\n

Santi Marco, l\u00edder de grup de l\u2019IBEC i professor de la UB\u00a0<\/strong><\/p>\n<\/blockquote>\n

L’eina desenvolupada, anomenada <\/span>AlpsNMR<\/span><\/a> (Sistema de processament espectral automatitzat per RMN), \u00e9s un paquet R que s’aplica un flux de treball conc\u00eds de manera automatitzada, en qu\u00e8 els usuaris no necessiten <\/span>extens<\/span> coneixement sobre el procediment. Aquesta canonada compr\u00e8n tots els passos del flux de treball de la <\/span>metabol\u00f2mica<\/span>, des dels espectres 1D fins a la identificaci\u00f3 dels <\/span>biomarcadors<\/span> putatius que prediuen una condici\u00f3. La canalitzaci\u00f3 comen\u00e7a amb el pas de c\u00e0rrega que importa el directori que cont\u00e9 m\u00faltiples espectres de RMN 1H. El paquet tamb\u00e9 inclou algoritmes per a la detecci\u00f3 de <\/span>mostres at\u00edpiques<\/span> i, si s’escau, pot informar i eliminar-les. El paquet \u00e9s capa\u00e7 de detectar, alinear i normalitzar els pics de RMN mitjan\u00e7ant diversos algoritmes (creatinina urin\u00e0ria, normalitzaci\u00f3 del<\/span> quocient probabil\u00edstic, \u00e0rea total)<\/span>,<\/span> particularment \u00fatil en mostres biol\u00f2giques d’orina. L’eina crea gr\u00e0fics interactius en format HTML que es poden editar, ampliar o convertir a una figura PNG. Despr\u00e9s de la integraci\u00f3 de pics, el marc de dades adquirit est\u00e0 a punt per a l’an\u00e0lisi estad\u00edstic. El proc\u00e9s de selecci\u00f3 de pics (o caracter\u00edstiques) es porta a terme <\/span>d\u2019acord<\/span> a<\/span>mb<\/span> un sofisticat aprenentatge autom\u00e0tic desenvolupat especialment per a aquesta eina del paquet. Aquesta an\u00e0lisi estad\u00edstica implica l’aplicaci\u00f3 de models de m\u00ednims quadrats parcials mitjan\u00e7ant <\/span>Bootstrap<\/span>. Finalment, la identificaci\u00f3 de <\/span>caracter\u00edstiques rellevants utilitzades a l’origen de la mostra biol\u00f2gica (LCD<\/span>\/<\/span>s\u00e8rum, orina i c\u00e8l\u00b7lules) generant candidats a metab\u00f2lits classificats obtinguts d’acord amb la <\/span>Base de Dades de <\/span>metabolomes<\/span> Humans<\/span><\/a>.<\/span>\u00a0<\/span><\/p>\n

El paquet i el <\/span>tutorial<\/span> d<\/span>\u2019<\/span>AlpsNMR<\/span><\/a> R estan disponibles gratu\u00eftament per descarregar des<\/span> de<\/span> Bioconductor<\/span><\/a> i <\/span>github<\/span><\/a>.<\/span>\u00a0<\/span><\/p>\n

Investigadors contribuents inclouen cient\u00edfics de la investigaci\u00f3 de Nestl\u00e9, <\/span>Lausa<\/span>na<\/span>, Su\u00efssa.<\/span>\u00a0<\/span><\/p>\n

\"\"<\/a><\/h6>\n
Flux de treball pas a pas per a l’an\u00e0lisi <\/span>metabol\u00f2mic<\/span>a<\/span> basat en RMN no dirigit utilitzant <\/span>AlpsNMR<\/span>: una eina R per al sistema de processament espectral automatitzat per <\/span>metabol\u00f2mica<\/span> basada en RMN no dirigida.<\/span>\u00a0<\/span><\/h6>\n
\n
\n

Article de refer\u00e8ncia:<\/strong> Francisco Madrid-<\/span>Gambin<\/span>, S<\/span>ergio<\/span> Oller-Moreno, L<\/span>uis<\/span> Fernandez<\/span>, S<\/span>imona<\/span> Bartova<\/span>, <\/span>M<\/span>aria<\/span> P. Giner, C<\/span>ristopher<\/span> Joyce, F<\/span>rancesco<\/span> Ferraro, <\/span>I<\/span>van<\/span> Montoliu, S<\/span>ofia<\/span> Moco<\/span> and <\/span>S<\/span>antiago<\/span> Marco<\/span>. <\/span>AlpsNMR<\/span>: <\/span>an<\/span> R package for signal processing of fully untargeted NMR-based metabolom<\/span>i<\/span>cs<\/span><\/a>. <\/span>Bioinformatics<\/span>, <\/span>vol. 36, no. <\/span>9 ,<\/span> 2943-2945.<\/span>, 2020.<\/span>\u00a0<\/span>\u00a0<\/span><\/p>\n

Identificador d’objecte digital de software<\/strong>: <\/span><\/b>10.18129\/B9.bioc.AlpsNMR<\/span><\/a><\/p>\n","protected":false},"excerpt":{"rendered":"

Investigadors internacionals de l\u2019IBEC liderats per Santi Marco desenvolupen un software per al descobriment de biomarcadors en diferents mostres biol\u00f2giques com l\u2019orina, extractes de sang o c\u00e8l\u00b7lules. AlpsNMR: una eina R per al sistema de processament espectral automatitzat per metabol\u00f2mica basada en RMN, s’ha fet p\u00fablica en el repositori principal de bioinform\u00e0tica \u201cBioconductor\u201d. <\/h3>\n","protected":false},"author":4,"featured_media":81303,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[96],"tags":[1382,486,1118],"post_formats":[],"class_list":["post-81311","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-noticies-de-recerca","tag-alpsnmr-ca","tag-bist-ca","tag-santiago-marco-ca"],"yoast_head":"\nL\u2019IBEC desenvolupa un software per al descobriment de biomarcadors - Institute for Bioengineering of Catalonia<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/ibecbarcelona.eu\/ca\/libec-desenvolupa-un-software-per-al-descobriment-de-biomarcadors\/\" \/>\n<meta property=\"og:locale\" content=\"ca_ES\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"L\u2019IBEC desenvolupa un software per al descobriment de biomarcadors - Institute for Bioengineering of Catalonia\" \/>\n<meta property=\"og:description\" content=\"Investigadors internacionals de l\u2019IBEC liderats per Santi Marco desenvolupen un software per al descobriment de biomarcadors en diferents mostres biol\u00f2giques com l\u2019orina, extractes de sang o c\u00e8l\u00b7lules. 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