<style> #title { height: 100% !important; display: flex !important; flex-direction: column !important; justify-content: center !important; } </style> <section id="title" data-background="/images/presentations/bg.svg.png" data-transition-speed="slow"> # Methylation-based Inference of Regulatory Activity Nathan Sheffield <div class="bullet"> <img src="/images/external/uva_dgs_logo.svg" height="85"> <img src="/images/logo/logo_databio_long.svg" height="65"> </div> <span style="font-size:0.6em"><a href="http://www.databio.org/slides">www.databio.org/slides</a></span> </section> --- ## Methylation-based Inference of Regulatory Activity (MIRA) <div class="small"> <a href="http://code.databio.org/MIRA/">http://code.databio.org/MIRA/</a><br> </div> <span class="small bullet"><img src="/_modules/mira/icons/paper.svg" height="25" class="bullet">Lawson et al. (2018). <i>Bioinformatics</i>.</span> --- ### DNA methylation <img src="/_modules/bis-seq-intro/dnameth_intro.svg" /> --- ### DNA methylation <img src="/_modules/bis-seq-intro/dnameth_intro2.svg" /> --- ### <span class="bullet"><img src="/_modules/bis-seq-intro/bolt.svg" width="50" class="bullet">Bisulfite-seq</span> <img src="/_modules/bis-seq-intro/dnameth_bisulfite.svg" /> --- # <span class="bullet"><img src="/_modules/region-pooling/merge.svg" width="50" class="bullet">Region pooling</span> --- <!-- .slide: data-transition="fade-in" -->  --- <!-- .slide: data-transition="fade-in fade-out" -->  --- <!-- .slide: data-transition="fade-in fade-out" -->  --- <!-- .slide: class="center" --> <img src="/_modules/project-cover/{{project_logo}}" width="275" style="padding-top:25px; padding-bottom:25px"> <br> <div class="small"> <a href="{{project_url}}">{{project_url}}</a><br> </div> <span class="small bullet"><img src="/_modules/project-cover/icons/paper.svg" height="25" class="bullet" style="vertical-align: text-bottom; margin-right: 5px;">{{project_citations}}</span> --- ## MIRA concept <img src="/_modules/mira/mira.svg" /> --- ## MIRA workflow <img src="/_modules/mira/mira2.svg" /> --- ## MIRA analysis <img src="/_modules/mira/mira3.svg" /> --- ## MIRA results: Differential activity <img src="/_modules/mira/ews_pat/MIRA_result_1.svg" width="700"/> <span class="small bullet"><img src="/_modules/mira/icons/paper.svg" height="25" class="bullet">Sheffield et al. (2017). <i>Nature Medicine</i>.</span> --- ## MIRA results: Activity scores <img src="/_modules/mira/ews_pat/MIRA_result_2.svg" /> --- ## MIRA results: Enrichment analysis <img src="/_modules/mira/ews_pat/MIRA_result_3.svg" width="800"/>