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| motif without matrices
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| [[Swissregulon:SRY.p1]]
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| [[Swissregulon:HOX(A,B,D)3.p1]]
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|
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| doubled top motif tables
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| CNhs10855 & CNhs11062
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| CNhs11245 & CNhs11183
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| CNhs11248 & CNhs11185
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| CNhs11772 & CNhs12996
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| CNhs11781 & CNhs12997
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|
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|
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| {{REVISIONTIMESTAMP}}
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| {{#ifexpr: {{#expr: {{REVISIONTIMESTAMP}}-20120731160000 }} > 0 | yes }}
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|
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| {{CURRENTTIMESTAMP}}
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|
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| <html>
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| <style type="text/css">
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| .rotate90 {
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| -webkit-transform: rotate(-90deg);
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| -moz-transform: rotate(-90deg);
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| -webkit-transform-origin: 6px 18px;
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| -moz-transform-origin: 6px 18px;
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| width:1px;
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| }
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| .highlight { background-color: yellow }
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| </style>
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| <script type="text/javascript">
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| $(document).ready(function() {
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| var oTable = $('#gene_exptable').dataTable({
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| "sScrollY": "300px",
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| "bPaginate": false,
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| "bScrollCollapse": true,
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| "iDisplayLength": -1,
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| "aaSorting": [[1,'desc']],
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| "aoColumnDefs": [ { "asSorting": [ "desc", "asc" ], "aTargets": [ "_all" ] } , { "bSortable": false, "aTargets": [ 0 ] }]
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| });
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| $('#gene_exptable_wrapper .dataTables_scrollHead th').css("height", "100px").css("vertical-align", "bottom");
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|
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|
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| var data = [];
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| var plotdata = [];
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|
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|
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| // chart checkbox
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| for (var i2=1; i2<oTable.fnSettings().aoColumns.length; i2++){
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| key2 = i2-1;
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| $("#gene_exptable_chart_chkbox").append('<input type="checkbox" name="' + key2 +
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| '" checked="checked" id="id' + key2 + '"><label for="id' + key2 + '">'
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| + $(oTable.fnSettings().aoColumns[i2].sTitle).text() + '</label><br/>');
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| }
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|
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| function collectdata(){
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| data = [];
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| for (i2=1, len2=oTable.fnSettings().aoColumns.length; i2<len2; i2++){
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| var plots = [];
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| for (i1=1, len1=$('#gene_exptable tr').length; i1<len1; i1++) {
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| plots.push([i1,$("#gene_exptable tr")[i1].cells[i2].innerHTML]);
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| }
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| data.push({"label": oTable.fnSettings().aoColumns[i2].sTitle.replace(/<(?:.|\n)*?>/gm, '').replace(/(^\s+)|(\s+$)/g, ""), "data": plots});
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| }
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| }
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|
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|
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| function drawchart(){
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|
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| plotdata = [];
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|
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| $("#gene_exptable_chart_chkbox").find("input:checked").each(function () {
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| var key = $(this).attr("name");
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| plotdata.push(data[$(this).attr("name")]);
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| });
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|
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| var plot1 = $.plot($("#gene_exptable_chart"), plotdata, {
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| yaxis : { axisLabel : 'TPM' },
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| lines : { show : false },
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| points : { show : true },
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| grid: { hoverable: true, clickable: true },
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| xaxis : { tickDecimals : 0, show: false },
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| legend: { show: false }
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| });
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|
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| //test
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| var data_series = plot1.getData();
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|
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| $("#gene_exptable_chart_chkbox label").css("background-color", "white");
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| $.each(data_series , function(){
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| $("#gene_exptable_chart_chkbox label:contains(" + this.label + ")").css("background-color", this.color);
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| });
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|
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| //test
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| //$('#test').text(oTable.fnSettings().aoData[1]._aData[0]);
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| $('#test').text(oTable.fnGetData(2, 2));
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| //test1 = oTable.fnSettings().oRow;
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|
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| }
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|
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| collectdata();
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| drawchart();
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|
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| // re-draw chart event
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| $(window).resize(function() { drawchart(); });
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| $("th").click(function() {collectdata(); drawchart(); } );
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| $("#gene_exptable_paginate").click(function() {collectdata(); drawchart(); } );
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| $('#gene_exptable').bind('filter', function() {
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| setTimeout(function(){
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| collectdata(); drawchart();}, 1000);
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| } );
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| $('#gene_exptable_length').change(function() {collectdata(); drawchart(); } );
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| $("#gene_exptable_chart_chkbox").find("input").click(function() { drawchart(); });
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|
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| // tooltip function start
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| function showTooltip(x, y, contents) {
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| $('<div id="tooltip">' + contents + '</div>').css( {
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| position: 'absolute',
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| display: 'none',
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| top: y + 5,
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| left: x + 5,
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| border: '1px solid #aaa',
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| padding: '2px',
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| 'background-color': '#fff',
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| opacity: 0.80
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| }).appendTo("body").fadeIn(200);
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| }
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|
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| var previousPoint = null;
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| $("#gene_exptable_chart").bind("plothover", function (event, pos, item) {
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| $("#x").text(pos.x.toFixed(2));
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| $("#y").text(pos.y.toFixed(2));
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| if (item) {
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| if (previousPoint != item.dataIndex) {
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| previousPoint = item.dataIndex;
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|
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| $("#tooltip").remove();
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| var x = item.datapoint[0].toFixed(0),
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| y = item.datapoint[1].toFixed(2);
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|
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| showTooltip(item.pageX, item.pageY,
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| "TSS: "+ item.series.label +"<br>TPM: "+y);
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| }
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| }
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| else {
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| $("#tooltip").remove();
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| previousPoint = null;
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| }
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| });
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| // tooltip function end
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|
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| // clicking point function
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| $("#gene_exptable_chart").bind("plotclick", function (event, pos, item) {
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| if (item){
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| var vdata = Math.round($('#gene_exptable').height())/item.series.data.length*item.dataIndex;
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| $('#gene_exptable_wrapper .dataTables_scrollBody').animate({ scrollTop: vdata-150 }, 'slow');
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| $("#gene_exptable_wrapper .dataTables_scrollBody tbody td").removeClass('highlight');
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| $('#gene_exptable_wrapper .dataTables_scrollBody tbody tr:eq(' + item.dataIndex+ ') td').addClass('highlight');
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| }
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| });
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| // clicking point function end
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|
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|
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|
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|
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|
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| } );
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| </script>
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| </html>
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|
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| {{#gene_exptable:hg19|{{#ask:[[Category:FFCP]][[Short description::p1@ACTB]]|mainlabel=-|?phase1_expression|link=none|format=list|headers=hide|limit=1|intro=p1@ACTB,|searchlabel=}}|{{#ask:[[Category:FFCP]][[Short description::p2@ACTB]]|mainlabel=-|?phase1_expression|link=none|format=list|headers=hide|limit=1|intro=p2@ACTB,|searchlabel=}}|{{#ask:[[Category:FFCP]][[Short description::p3@ACTB]]|mainlabel=-|?phase1_expression|link=none|format=list|headers=hide|limit=1|intro=p3@ACTB,|searchlabel=}}|{{#ask:[[Category:FFCP]][[Short description::p4@ACTB]]|mainlabel=-|?phase1_expression|link=none|format=list|headers=hide|limit=1|intro=p4@ACTB,|searchlabel=}}|{{#ask:[[Category:FFCP]][[Short description::p5@ACTB]]|mainlabel=-|?phase1_expression|link=none|format=list|headers=hide|limit=1|intro=p5@ACTB,|searchlabel=}}
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| }}
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|
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| <div id="gene_exptable_chart" style="float:left;width:600px;height:300px;"></div>
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| <div id="gene_exptable_chart_chkbox" style="float:left;"></div>
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| <div style="clear:both;"></div>
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|
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| <div id="test"></div>
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|
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|
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| == gene mouse ==
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| <html> | | <html> |
| <script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script> | | <script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script> |
| <script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script> | | <script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script> |
| <script type="text/javascript" language="javascript" src="/resource_browser/rb_js/flot/jquery.flot.min.js"></script>
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| <style type="text/css" title="currentStyle"> | | <style type="text/css" title="currentStyle"> |
| @import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css"; | | @import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css"; |
| @import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css"; | | @import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css"; |
| </style> | | </style> |
| | <script> |
|
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|
| </html>
| | $(document).ready(function() { |
| | var oTable = $('.ff_sample_list').dataTable({ |
|
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|
| | }); |
|
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|
| <!--
| | }); |
| | | </script> |
| == Enrichment analysis: top 100 MCL coexpression mm9 enriched with this ontology term v019 var. ==
| | </html> |
| {{#info:TOP 100 FANTOM5 Cage Peaks enriched with {{{id}}} ({{{name}}}), sorted by p-values <br>Analyst: Hideya Kawaji}}
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| {{#ask:[[MCL_coexpression_mm9_ontology_enrichment_uberon_id::UBERON:0002048]]
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| |?MCL_coexpression_mm9_ontology_enrichment_uberon_p-value|format=ttable|sort=MCL_coexpression_mm9_ontology_enrichment_uberon_p-value|order=asc|limit=100|searchlabel=}}
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| | |
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| {{#sparql:select * where { ?x ?y ?z . } LIMIT 100 |endpoint=http://localhost:8080/sparql/}}
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| | |
| {{#ask:[[Category:FFCP]][[Coexpression_cluster_id::C297]]|?id|?Short_description|?Phase1_expression|format=template|template=Datatable_sampledata|sep=,|limit=20000}}
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| | |
| {{#jstest:
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| {{#ask:[[Category:FF Ontology]][[Sample_species::Mouse (Mus musculus)]]|?id|?Name|?sample_tissue|?sample_cell_line=|?sample_cell_type|?rna_sample_type|format=template|template=Datatable_sampledata|sep=,|limit=2000}}
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| }}
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| | |
| {{#sparql:
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| SELECT * WHERE { ?x ?y ?z FILTER regex(?z, "GO")
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| } LIMIT 10
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| |endpoint=http://go.bio2rdf.org/sparql/
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| |footer=NO
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| }}
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| | |
| | |
| {{#sparql:select * where { ?x ?y ?z . } LIMIT 10 |endpoint=http://localhost:8080/sparql/}}
| |
| | |
| {{#sparql:
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| PREFIX prop:<http://f5-webapp2/resource_browser/index.php/Special:URIResolver/Property-3A>
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| PREFIX page:<http://f5-webapp2/resource_browser/index.php/Special:URIResolver/>
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| SELECT ?x,?y WHERE {
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| ?x
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| prop:Sample_species
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| ?y FILTER regex(?y, "OMO", "i" )
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| } LIMIT 100
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| |endpoint=http://localhost:8080/sparql/
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| |headers=Page,Id
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| |footer=NO
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| }}
| |
| | |
|
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|
| -->
| | {{#ask:[[Concept:FF_samples_withname]]|[[Sample_species::Human (Homo sapiens)]]|mainlabel=FF ontology id|?Name|?Sample_category|?datafreeze_phase |
| | |format=ttable|class=ff_sample_list|limit=20|searchlabel=}} |
