Article added to library!
x
Pubchase is a service of protocols.io - free, open access, crowdsourced protocols repository. Explore protocols.
Sign in
Reset password
or connect with
Facebook
By signing in you are agreeing to our
Terms Of Service and Privacy Policy
  • See more
  • '); var ntfc_preview = ''; $.post('/api/v1/get_notifications', function(r) { var ntfc_read_pending = 0; var ntfc_pending = 0; $.each(r.notifications.pending, function(index, ntfc_object) { ntfc_read_pending++; ntfc_pending++; if (ntfc_read_pending
    ' + ntfc_object.full_name +'' + ntfc_object.time + '
    ' + ntfc_object.description +'
    '; }) if (ntfc_read_pending
    ' + ntfc_object.full_name +'' + ntfc_object.time + '
    ' + ntfc_object.description +'
    '; }) $('.notification-block .dropdown-menu').html(ntfc_preview); $('.notification-block .dropdown-menu').append('
  • See more
  • '); if (ntfc_pending > 0) { $('.notification-count').text(ntfc_pending).show(); } else { $('.notification-count').hide(); } } else { $('.notification-block .dropdown-menu').html(ntfc_preview); $('.notification-block .dropdown-menu').append('
  • See more
  • '); if (ntfc_pending > 0) { $('.notification-count').text(ntfc_pending).show(); } else { $('.notification-count').hide(); } } if (ntfc_read_pending == 0) { $('.notification-block .dropdown-menu').html('
  • You don\'t have any notifications
  • See more
  • '); $('.notification-count').hide(); } data = {'nid' : '', 'ntid' : 1}; $.post('/api/v1/notification_action', data, function(r) { if (r.request == 'OK') { $('.notification-count').hide(); } }); }, "json"); }); $('.search-save-box').on({ click : function(e) { e.preventDefault(); var search_attr = $(this).attr('rel').split(','); var p = search_attr[1]; var tf = search_attr[0]; window.location = '/search?tf='+tf+'&jc='+jc+'&keywords='+$(this).html()+'&s='+$('#sort_order').val()+'&p='+p; } }, '.search-name'); $( "#keywords_main, #keywords_mobile" ).focus(function(e) { show_saved_searches(e, $(this)); }); $(window).resize(function () { if ($('.search-save-box').is(':visible')) { if ($('#keywords_main').is(':visible')) var left_search_save = $('#keywords_main').offset().left; if ($('#keywords_mobile').is(':visible')) var left_search_save = $('#keywords_mobile').offset().left; $('.search-save-box').css('left',left_search_save); } }); $('.search-save-box').on({ click : function(e) { e.preventDefault(); delete_saved_search($(this)); } }, '.search-name-close'); $('.search-save-box, #keywords_main, #keywords_mobile').click(function(e) { e.stopPropagation(); }); $(document).click(function(e) { $('.search-save-box').hide(); }); $( "#keywords_main, #keywords_mobile" ).autocomplete({ source: function( request, response ) { // data contains the JSON object textStatus contains the status: success, error, etc $.post('/api/v1/searches', {'key' : request.term}, function(data, textStatus) { response(data); }, "json") }, select: function (event, ui) { var reportname = ui.item.value; var thelinks = '/search?tf='+$('#time_frame').val()+'&jc='+jc+'&keywords='+reportname+'&s='+$('#sort_order').val()+'&p='+$('#people_cluster').val(); } }); $('.search-go').click(function(e) { e.preventDefault(); window.location = get_search_url(); }); $('.logout').click(function(e) { e.preventDefault(); }); $('.header_keywords, .home_page_keywords').on('keydown', function(e) { if (e.keyCode == 13) { window.location = get_search_url(); } $('.search-save-box').hide(); }); $('.seemore').click(function(e){ e.stopImmediatePropagation(); }); });
    Sep 26, 2016
    JCI Insight
    GWAS have linked SNPs to risk of inflammatory bowel disease (IBD), but a systematic characterization of disease-associated genes has been lacking. Prior studies utilized microarrays that did not capture many genes encoded within risk loci or defined expression quantitative trait loci (eQTLs) using peripheral blood, which is not the target tissue in IBD. To address these gaps, we sought to characterize the expression of IBD-associated risk genes in disease-relevant tissues and in the setting of active IBD. Terminal ileal (TI) and colonic mucosal tissues were obtained from patients with Crohn's disease or ulcerative colitis and from healthy controls. We developed a NanoString code set to profile 678 genes within IBD risk loci. A subset of patients and controls were genotyped for IBD-associated risk SNPs. Analyses included differential expression and variance analysis, weighted gene coexpression network analysis, and eQTL analysis. We identified 116 genes that discriminate between healthy TI and colon samples and uncovered patterns in variance of gene expression that highlight heterogeneity of disease. We identified 107 coexpressed gene pairs for which transcriptional regulation is either conserved or reversed in an inflammation-independent or -dependent manner. We demonstrate that on average approximately 60% of disease-associated genes are differentially expressed in inflamed tissue. Last, we identified eQTLs with either genotype-only effects on expression or an interaction effect between genotype and inflammation. Our data reinforce tissue specificity of expression in disease-associated candidate genes, highlight genes and gene pairs that are regulated in disease-relevant tissue and inflammation, and provide a foundation to advance the understanding of IBD pathogenesis.
      
    Add Public PDF
      
      
    Upload my PDF
      

    Downloading PDF to your library...

    ADD A TAG      64 chars max

      Make private

    APPLIED TAGS

    Uploading PDF...

    PDF uploading

    Delete tag:

    The link you entered does not seem to be valid

    Please make sure the link points to nature.com contains a valid shared_access_token