IYITLTGVHQVPTENVQVHFTER: /CPTAC Assay Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP

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For the full experience enable JavaScript in your browser.</div></noscript> </div> </div> <div class="row"> <div class="col-md-12 lk-body-title"> <ol class="breadcrumb"><li><a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showList.view">Targeted MS Runs</a></li><li><a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPrecursorList.view?id=1872">GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip</a></li></ol> <h3 style="display: inline-block;"> IYITLTGVHQVPTENVQVHFTER </h3> <span class="lk-body-title-folder-outer"> <i class="fa fa-folder-o"></i> <a class="lk-body-title-folder" href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/project-begin.view">ResponseCurve</a> </span> </div> </div> <div class="row content-row"> <div class="content-left"> <div name="webpart" ><div class="panel panel-portal"> <div class="panel-heading"><h3 class="panel-title pull-left" title="Peptide Summary"><a id="PeptideSummary" class="labkey-anchor-disabled"><span class="labkey-wp-title-text">Peptide Summary</span></a></h3> <div class="clearfix"></div></div> <div id="WebPartView752562303" class=" panel-body"> <table class="lk-fields-table"> <tr> <td class="labkey-form-label">File</td> <td> <a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPrecursorList.view?id=1872">GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip</a>    <div class="lk-menu-drop dropdown"><a id="a_00012" href="#" data-toggle="dropdown"><span id="" title="22 MB" class="fa fa-download"></span></a> <a id="dropdown_00013PopupLink" href="#" class="dropdown-toggle labkey-menu-text-link" data-toggle="dropdown"><span id="dropdown_00013PopupText">22 MB</span> <span style="position:relative;color:lightgray;" class="fa fa-caret-down"></span></a><ul class="dropdown-menu dropdown-menu-left"><li><a id='popupMenuView00014' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-downloadDocument.view?id=1872&view=skyp" tabindex="0" style="">SkyP file (link only, 1KB)</a></li><li class="divider"></li><li><a id='popupMenuView00015' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-downloadDocument.view?id=1872" tabindex="0" style="">Full Skyline file</a></li><li><a id='popupMenuView00016' href="targetedms-showPrecursorList.view?fileName=GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip" tabindex="0" style="">Copy relative URL to clipboard</a></li><li><a id='popupMenuView00017' href="https://panoramaweb.org/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPrecursorList.view?fileName=GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip" tabindex="0" style="">Copy full URL to clipboard</a></li></ul></div> </td> </tr> <tr> <td class="labkey-form-label">Protein</td> <td><a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showProtein.view?id=68996">CACYBP.IPI00395627</a></td> </tr> <tr> <td class="labkey-form-label">Sequence</td> <td><div style="display: inline-block;" title='IYITLTGVHQVPTENVQVHFTER'>IYITLTGVHQVPTENVQVHFTER</div></td> </tr> <tr> <td class="labkey-form-label">NeutralMass</td> <td>2680.3973</td> </tr> <tr> <td class="labkey-form-label">Avg. RT</td> <td>32.2762</td> </tr> <tr> <td class="labkey-form-label">Predicted RT</td> <td>37.8100</td> </tr> <tr> <td class="labkey-form-label">RT Score</td> <td>37.8100</td> </tr> <tr> <td class="labkey-form-label">Precursors</td> <td> <div> <div style="display: inline-block;" title='IYITLTGVHQVPTENVQVHFTER'>IYITLTGVHQVPTENVQVHFTER</div><span> - 894.4730+++</span> <a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-precursorAllChromatogramsChart.view?id=566698"> <img src="/TargetedMS/images/TransitionGroupLib.png" alt="Click to view details"/> </a> </div> <div> <div style="display: inline-block;" title='IYITLTGVHQVPTENVQVHFTER[+10.0]'>IYITLTGVHQVPTENVQVHFTE<span style='font-weight:bold;color:#0000ff;'>R</span></div><span> - 897.8091+++ (heavy)</span> <a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-precursorAllChromatogramsChart.view?id=566699"> <img src="/TargetedMS/images/TransitionGroupLib.png" alt="Click to view details"/> </a> </div> </td> </tr> </table> </div></div></div><div name="webpart" ><div class="panel panel-portal"> <div class="panel-heading"><h3 class="panel-title pull-left" title="Chromatograms"><a id="Chromatograms" class="labkey-anchor-disabled"><a id="expandCollapse-Chromatograms"><img width=9 height=9 style="margin-bottom: 0" src="/_images/minus.gif"></a> <a id="expandCollapse-ChromatogramsTitle"><span class="labkey-wp-title-text">Chromatograms</span></a></a></h3> <div class="clearfix"></div></div> <div id="WebPartView1890961112" class=" panel-body"><div> <style type="text/css"> #allFilters { overflow:hidden; } .filter { background-color:#fff; padding:0 1px 0 1px; margin:0; border:1px solid #ccc; border-radius:3px; float:left; } .filter td{ font-size:11px !important; } #allFilters { float:left; } #headContainer { width:100%; overflow:hidden; } .chrom_title_box { border: #ccc 1px solid; margin-top:20px; padding: 5px; } .chrom_title_box .title { position: relative; top : -0.9em; margin-left: 20px; display: inline; background-color: white; font-size: 16px; padding: 0 5px; } .item { font-size:10px; } </style> <script type="text/javascript" nonce="77eb4c1b7ea7f5ef82f0b6c369bc3c5b"> +function($){ var hiddenFields; var replicateStore; var filterStore; var selectedReplicatesFilterList; var selectedAnnotationsFilterList; var form; Ext4.onReady(function(){ replicateStore = Ext4.create('Ext.data.Store', { fields: ['replicateName','replicateId'], data: [ {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_B2_052","replicateId":"30101"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_B3_007","replicateId":"30102"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_B3_058","replicateId":"30103"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_C2_053","replicateId":"30104"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_C3_025","replicateId":"30105"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_C3_059","replicateId":"30106"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_D2_054","replicateId":"30107"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_D3_026","replicateId":"30108"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_D3_060","replicateId":"30109"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_E2_055","replicateId":"30110"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_E3_027","replicateId":"30111"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_E3_061","replicateId":"30112"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_F2_056","replicateId":"30113"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_F3_028","replicateId":"30114"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_F3_062","replicateId":"30115"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_G2_057","replicateId":"30116"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_G3_063","replicateId":"30117"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_G3_029","replicateId":"30118"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_H2_058","replicateId":"30119"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_H3_030","replicateId":"30120"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_H3_064","replicateId":"30121"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_I2_059","replicateId":"30122"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_I3_031","replicateId":"30123"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_I3_065","replicateId":"30124"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_042612_J2_060","replicateId":"30125"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_043012_J3_032","replicateId":"30126"} , {"replicateName":"GO_Broad_BroadAssay_HighCurve_050612_J3_066","replicateId":"30127"} ] }); filterStore = Ext4.create('Ext.data.Store', { fields: ['name-value'], data: [ {"name-value":"Concentration : 0"} , {"name-value":"Concentration : 0.091449474"} , {"name-value":"Concentration : 0.274348422"} , {"name-value":"Concentration : 0.823045267"} , {"name-value":"Concentration : 2.469135802"} , {"name-value":"Concentration : 7.407407407"} , {"name-value":"Concentration : 22.22222222"} , {"name-value":"Concentration : 66.66666667"} , {"name-value":"Concentration : 200"} , {"name-value":"IS Spike : 5"} , {"name-value":"Replicate : 1"} , {"name-value":"Replicate : 2"} , {"name-value":"Replicate : 3"} , {"name-value":"SampleGroup : B"} , {"name-value":"SampleGroup : C"} , {"name-value":"SampleGroup : D"} , {"name-value":"SampleGroup : E"} , {"name-value":"SampleGroup : F"} , {"name-value":"SampleGroup : G"} , {"name-value":"SampleGroup : H"} , {"name-value":"SampleGroup : I"} , {"name-value":"SampleGroup : J"} ] }); // syncMargin is the negative margin-left of the syncX and syncY fields. If the filters are not being displayed // the sync fields slide under the width/height fields. var syncMargin; syncMargin = 130; var annotationsFilter = ""; selectedAnnotationsFilterList = annotationsFilter.split(','); var replicateFilter = ""; selectedReplicatesFilterList = replicateFilter.split(','); form = Ext4.create('Ext.form.Panel', { renderTo: 'formContainer', standardSubmit: true, name: 'chromForm', border: false, frame: false, width:550, height: 160, defaults: { labelWidth: 150, labelHeight: 23, labelStyle: 'background-color: #E0E6EA; padding: 2px 4px; margin:0px;' }, layout: { type: 'table', columns: 3 }, items: [ { xtype:'hidden', name: 'id', value: 334261 }, { xtype:'hidden', name: 'update', value: false }, { xtype: 'textfield', fieldLabel: 'Chart Width', name: 'chartWidth', width: 300, value: 400, style: "margin-right:30px;" }, { xtype: 'checkbox', name: 'syncX', fieldLabel: 'Synchronize X-axis', inputValue: true, checked: false, colspan:3, style:"margin-left:-"+syncMargin+"px;" }, { xtype: 'textfield', fieldLabel: 'Chart Height', width: 300, name: 'chartHeight', value: 400 }, { xtype: 'checkbox', name: 'syncY', fieldLabel: 'Synchronize Y-axis', inputValue: true, checked: false, colspan:3, style:"margin-left:-"+syncMargin+"px;" }, { xtype: 'checkbox', name: 'splitGraph', fieldLabel: 'Split Graphs', inputValue: true, checked: false, colspan:4, hidden:true }, { xtype: 'checkbox', name: 'showOptimizationPeaks', fieldLabel: 'Show Optimization Peaks', inputValue: true, checked: false, colspan:4, hidden:true }, { xtype: 'combobox', name: 'replicatesFilter', multiSelect: true, store: replicateStore, fieldLabel: 'Replicates <br />(multi-select)', inputValue: true, queryMode: 'local', displayField: 'replicateName', valueField: 'replicateId', editable: false, width: 450, colspan:2, listeners: { change: function (field, newValue, oldValue) { modifyFilter(newValue,oldValue,"replicateFilters"); } } }, { xtype: 'displayfield', name: "hideReplicates", value:'<a style="color:#069; cursor:pointer;" id="clear-rep"">Clear</a>', style:'margin-left:15px;' }, { xtype: 'combobox', name: 'annotationsFilter', multiSelect: true, store: filterStore, fieldLabel: 'Annotations <br />(multi-select)', inputValue: true, queryMode: 'local', displayField: 'name-value', valueField: 'name-value', editable: false, width: 450, colspan:2, listeners: { change: function (field, newValue, oldValue) { modifyFilter(newValue,oldValue,"annotationFilters"); } } }, { xtype: 'displayfield', value:'<a style="color:#069; cursor:pointer;" id="clear-annot">Clear</a>', style:'margin-left:15px;', name: "hideAnnotations" }, { xtype: 'button', text: 'Update', handler: function(btn) { form.getForm().findField("annotationsFilter").setValue(form.getForm().findField("annotationsFilter").getValue().join(",")); form.getForm().findField("replicatesFilter").setValue(form.getForm().findField("replicatesFilter").getValue().join(",")); form.getForm().findField("update").setValue(true); form.submit({ url: '/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view', method: 'GET' }); } } ], }); document.getElementById("clear-rep")['onclick'] = clearReplicates; document.getElementById("clear-annot")['onclick'] = clearAnnotations; // This has to happen after form is rendered. form.getForm().findField("annotationsFilter").setValue(selectedAnnotationsFilterList); for(var i = 0; i < selectedAnnotationsFilterList.length; i++) { if(selectedAnnotationsFilterList[i]) { appendFilterItem($('#annotationFilters'), selectedAnnotationsFilterList[i], "annotationFilters",selectedAnnotationsFilterList[i]); } } form.getForm().findField("replicatesFilter").setValue(selectedReplicatesFilterList); for(var i = 0; i < selectedReplicatesFilterList.length; i++) { var val; var id; for(var a = 0; a < replicateStore.getCount(); a++) { if(replicateStore.data.items[a].data.replicateId === selectedReplicatesFilterList[i]) { val = replicateStore.data.items[a].data.replicateName; id = replicateStore.data.items[a].data.replicateId; } } if(val) { appendFilterItem($('#replicateFilters'), val, "replicateFilters", id); } } manageFilterListVisibility(); // Hides multi-select combo boxes if there is only one or zero values in its value store. // appendFilterItem adds a filter table row & column to the appropriate parent filter box. function appendFilterItem(element, displayValue, parentTable, id) { if(displayValue != null) { let deleteIconId = 'delete-' + id; let newRowContent = "<tr id=\""+LABKEY.Utils.encodeHtml(id)+"\"><td class=\"item\"><img id=\""+LABKEY.Utils.encodeHtml(deleteIconId)+"\" src='/_images/delete.png?642758873' style='width:10px; height:10px; margin-right:3px;'>"+LABKEY.Utils.encodeHtml(displayValue)+"</td></tr>"; element.append(newRowContent); document.getElementById(deleteIconId).addEventListener('click', function() { deleteFilter(this, parentTable); }); } } // modifyFilter is triggered when user modifies selection through the combobox and will add/remove items from the list based on a newValue and an oldValue. function modifyFilter(newValues, oldValues, parentId) { if(newValues !=null && oldValues !=null) { if(newValues.length >= oldValues.length) { for (var i = 0; i < newValues.length; i++) { if(oldValues.indexOf(newValues[i]) === -1) { var val; var id; if(parentId === "replicateFilters") { for(var a = 0; a < replicateStore.getCount(); a++) { if(replicateStore.data.items[a].data.replicateId === newValues[i]) { val = replicateStore.data.items[a].data.replicateName; id = replicateStore.data.items[a].data.replicateId; } } } else { val = newValues[i]; id = newValues[i]; } appendFilterItem($('#'+parentId+''), val, parentId, id); } } } else if(newValues.length < oldValues.length) { for (var j = 0; j < oldValues.length; j++) { if(newValues.indexOf(oldValues[j]) === -1) { var textValue = oldValues[j]; if(parentId === "replicateFilters") { for(var a = 0; a < replicateStore.getCount(); a++) { if(replicateStore.data.items[a].data.replicateId === oldValues[j]) { textValue = replicateStore.data.items[a].data.replicateName; } } } var el = findByText(document.getElementById("allFilters"), textValue); var $el = $(el); if(null != el) { $el.closest('tr').remove(); } } } } } manageFilterListVisibility(); } }); // Finds element that contains text value. Searches all children of node. function findByText(node, text) { if(node.nodeValue === text) { return node.parentNode; } for (var i = 0; i < node.childNodes.length; i++) { var returnValue = findByText(node.childNodes[i], text); if (returnValue != null) { return returnValue; } } return null; } // Clears Annotations filter box selected values. clearAnnotations = function(){ form.getForm().findField('annotationsFilter').clearValue(); $('#annotationFilters').empty(); manageFilterListVisibility(); } // Clears Replicates filter box selected values. clearReplicates = function(){ form.getForm().findField('replicatesFilter').clearValue(); $('#replicateFilters').empty(); manageFilterListVisibility(); } // Manages the visibility of the filter lists in the UI. function manageFilterListVisibility() { if($('#replicateFilters').text().replace(/\s+/g, '') === '') { $('#reptitle').hide(); } else { $('#reptitle').show(); } if($('#annotationFilters').text().replace(/\s+/g, '') === '') { $('#annottitle').hide(); } else { $('#annottitle').show(); } } // Triggered by onclick() function in each list element in the [-](delete) button. deleteFilter = function (el, parentTable) { let values; let formId; if(null != el) { const id = el.parentElement.parentElement.id; if(parentTable === "annotationFilters") { values = form.getForm().findField("annotationsFilter").getValue(); formId = "annotationsFilter"; } else { values = form.getForm().findField("replicatesFilter").getValue(); formId = "replicatesFilter"; } var index = values.indexOf(id); values.splice(index, 1); el.parentElement.parentElement.parentNode.removeChild( el.parentElement.parentElement ); form.getForm().findField(formId).setValue(values); } manageFilterListVisibility(); } // Handles showing and hiding the form. showChart = function() { if($('#showGraphImg').attr('src') === '/_images/plus.gif?642758873') { $('#showGraphImg').attr('src', '/_images/minus.gif?642758873'); $('#formContainer').show(); $('#allFilters').show(); } else { $('#showGraphImg').attr('src', '/_images/plus.gif?642758873'); $('#formContainer').hide(); $('#allFilters').hide(); } } }(jQuery); </script> <div id="headContainer"> <div id="showChartHeadContainer" style="margin-bottom: 10px;"><img id="showGraphImg" src="/_images/plus.gif?642758873"> <strong>Display Chart Settings</strong></div> <div id="formContainer" style="float:left; width:550px; height: 160px; padding-bottom: 25px; display: none;"></div> <div id="allFilters" style="float:left; display: none;"> <div style="float:left;" class="chrom_title_box" id="reptitle" > <h3 class="title">Replicate Filters</h3> <table id="replicateFilters"></table> </div> <div style="float:left; margin-left:20px;" class="chrom_title_box" id="annottitle"> <h4 class="title">Annotation Filters</h4> <table id="annotationFilters"></table> </div> </div> </div></div><div><form method="post" id="lk-region-673728-form" lk-region-form="PeptidePrecursorChromatograms" class="form-horizontal" action=""><input type="hidden" name="dataRegionSelectionKey" value="$$$$PeptidePrecursorChromatograms"><input type="hidden" name="X-LABKEY-CSRF" id="input00018" value="6a3ea47033011af377b10f16a5c4a8dad0165434ad82c4882de78d5900f34858"><table><tbody><tr><td><div id="lk-region-673728-headerbar" class="lk-region-bar lk-region-header-bar"><div class="pull-left"><div class="labkey-button-bar"><div class="lk-menu-drop dropdown"><a id="button_00019" href="#" class="dropdown-toggle labkey-button labkey-down-arrow" data-toggle="dropdown" data-submitid="submit_000110" data-placement="top"><span>Row Size</span></a><ul class="dropdown-menu dropdown-menu-left"><li><a id='popupMenuView000111' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=1" tabindex="0" style="padding-left: 0;"><i class="fa fa-check-square-o"></i>1 replicate per row</a></li><li><a id='popupMenuView000112' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=2" tabindex="0" style="">2 replicates per row</a></li><li><a id='popupMenuView000113' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=3" tabindex="0" style="">3 replicates per row</a></li><li><a id='popupMenuView000114' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=4" tabindex="0" style="">4 replicates per row</a></li><li><a id='popupMenuView000115' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=5" tabindex="0" style="">5 replicates per row</a></li><li><a id='popupMenuView000116' href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeptide.view?id=334261&maxRowSize=10" tabindex="0" style="">10 replicates per row</a></li></ul></div></div></div><div class="pull-right"><div class="labkey-pagination"></div></div></div><div id="lk-region-673728-drawer" class="lk-region-bar lk-region-drawer" style="display:none;"></div><div id="lk-region-673728-viewbar" class="lk-region-bar lk-region-context-bar" style="display:none;"></div><div id="lk-region-673728-ctxbar" class="lk-region-bar lk-region-context-bar" style="display:none;"></div><div id="lk-region-673728-msgbox"></div></td></tr><tr><td><div class="lk-region-ct"><div id="lk-region-673728-section-n" class="lk-region-bar lk-region-section north"></div><div class="lk-region-section center" style="display: block;"><table id="lk-region-673728" lk-region-name="PeptidePrecursorChromatograms"class="table-condensed labkey-data-region table-bordered"><tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378130"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_B2_052" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a3-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a3-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333714"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_B2_052" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a4-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a4-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333741"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_B2_052" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a5-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a5-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378131"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_007" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a6-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a6-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333715"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_007" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a7-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a7-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333742"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_007" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a8-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a8-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378132"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_058" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1a9-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1a9-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333716"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_058" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1aa-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1aa-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333743"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_B3_058" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1ab-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1ab-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378133"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_C2_053" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1ac-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1ac-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333717"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_C2_053" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1ad-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1ad-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333744"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_C2_053" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1ae-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1ae-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378134"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_C3_025" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1af-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1af-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333718"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_C3_025" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b0-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b0-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333745"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_C3_025" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b1-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b1-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378135"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_C3_059" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b2-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b2-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333719"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_C3_059" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b3-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b3-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333746"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_C3_059" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b4-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b4-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378136"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_D2_054" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b5-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b5-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333720"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_D2_054" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b6-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b6-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333747"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_042612_D2_054" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b7-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b7-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378137"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_D3_026" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b8-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b8-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333721"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_D3_026" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1b9-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1b9-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333748"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_043012_D3_026" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1ba-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1ba-8ec9-103d-8801-8d1d6db26dce-label"></div></td></tr> <tr class="labkey-row"><td align=right style='white-space:nowrap;'><a name="ChromInfo3378138"></a><div alt="Chromatogram GO_Broad_BroadAssay_HighCurve_050612_D3_060" style="border: white solid 8px; width:416px; min-height:450px" id="c889f1bb-8ec9-103d-8801-8d1d6db26dce"></div><div style="text-align: center" id="c889f1bb-8ec9-103d-8801-8d1d6db26dce-label"></div></td><td align=right style='white-space:nowrap;'><a name="ChromInfo5333722"></a><div 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for (let i = 0; i < svgInfos.length; i++) { let svgInfo = svgInfos[i]; LABKEY.targetedms.SVGChart.requestAndRenderSVG(svgInfo.url, document.getElementById(svgInfo.mainId), null, document.getElementById(svgInfo.labelId)); } }; LABKEY.DataRegions['PeptidePrecursorChromatograms'].refreshPlots(); </script> </div></div></div></div><div name="webpart" ><div class="panel panel-portal"> <div class="panel-heading"><h3 class="panel-title pull-left" title="Summary Charts"><a id="SummaryCharts" class="labkey-anchor-disabled"><a id="expandCollapse-SummaryChartsView"><img width=9 height=9 style="margin-bottom: 0" src="/_images/minus.gif"></a> <a id="expandCollapse-SummaryChartsViewTitle"><span class="labkey-wp-title-text">Summary Charts</span></a></a></h3> <div class="clearfix"></div></div> <div id="WebPartView468265670" class=" panel-body"> <style> .summary_form_box { padding-bottom: 25px; } .summary_title_box { border: #ccc 1px solid; float: left; margin-right: 1em; margin-bottom: 1em; } .summary_title_box .title { position: relative; top : -0.6em; margin-left: 20px; display: inline; background-color: white; font-size: 18px; padding: 0 5px; } .valuelabel { color: #000000; font-size: 10px; padding-left:105px; } </style> <script type="text/javascript" nonce="77eb4c1b7ea7f5ef82f0b6c369bc3c5b"> Ext4.onReady(function() { // data stores var replicateStore = Ext4.create('Ext.data.Store', { fields: ['name', 'replicateId'], data: [ {"name":"All", "replicateId":"0"} ] }); var replicateAnnotNameStore = Ext4.create('Ext.data.Store', { fields: ['name'], data: [ {"name":"None"} ,{"name":'Concentration'} ,{"name":'IS Spike'} ,{"name":'Replicate'} ,{"name":'SampleGroup'} ] }); var replicateAnnotNameValueStore = Ext4.create('Ext.data.Store', { fields: ['name-value'], data: [ {"name-value":"None"} ,{"name-value":'Concentration : 0'} ,{"name-value":'Concentration : 0.091449474'} ,{"name-value":'Concentration : 0.274348422'} ,{"name-value":'Concentration : 0.823045267'} ,{"name-value":'Concentration : 2.469135802'} ,{"name-value":'Concentration : 7.407407407'} ,{"name-value":'Concentration : 22.22222222'} ,{"name-value":'Concentration : 66.66666667'} ,{"name-value":'Concentration : 200'} ,{"name-value":'IS Spike : 5'} ,{"name-value":'Replicate : 1'} ,{"name-value":'Replicate : 2'} ,{"name-value":'Replicate : 3'} ,{"name-value":'SampleGroup : B'} ,{"name-value":'SampleGroup : C'} ,{"name-value":'SampleGroup : D'} ,{"name-value":'SampleGroup : E'} ,{"name-value":'SampleGroup : F'} ,{"name-value":'SampleGroup : G'} ,{"name-value":'SampleGroup : H'} ,{"name-value":'SampleGroup : I'} ,{"name-value":'SampleGroup : J'} ] }); var valueStore = Ext4.create('Ext.data.Store', { fields: ['value'], data: [ {"value":"All"}, {"value":"Retention Time"}, {"value":"FWHM"}, {"value":"FWB"} ] }); var peptideStore = Ext4.create('Ext.data.Store', { fields: ['sequence', 'peptideId'], data: [ {"sequence":"All", "peptideId":"0"} ] }); var moleculeStore = Ext4.create('Ext.data.Store', { fields: ['customIonName', 'moleculeId'], data: [ {"customIonName":"All", "moleculeId":"0"} ] }); // combo boxes var replicateComboBox; if(replicateStore.count() > 0) { replicateComboBox = Ext4.create('Ext.form.ComboBox', { fieldLabel: 'Replicate', store: replicateStore , queryMode: 'local', displayField: 'name', valueField: 'replicateId', forceSelection: 'true', allowBlank: 'false', value: replicateStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index){ var selected = combo.getValue(); if(selected != 0) { replicateAnnotNameComboBox.disable(); replicateAnnotNameComboBox.setValue(replicateAnnotNameStore.getAt(0)); peptideComboBox.disable(); peptideComboBox.setValue(peptideStore.getAt(0)); moleculeComboBox.disable(); moleculeComboBox.setValue(moleculeStore.getAt(0)); replicateAnnotNameValueComboBox.disable(); replicateAnnotNameValueComboBox.setValue(replicateAnnotNameValueStore.getAt(0)); } else { replicateAnnotNameComboBox.enable(); peptideComboBox.enable(); moleculeComboBox.enable(); replicateAnnotNameValueComboBox.enable(); } updateCvCheckbox(); } } }); } var replicateAnnotNameComboBox; if(replicateAnnotNameStore.count() > 0) { replicateAnnotNameComboBox = Ext4.create('Ext.form.ComboBox',{ fieldLabel: 'Group By', store: replicateAnnotNameStore , queryMode: 'local', displayField: 'name', valueField: 'name', forceSelection: 'true', allowBlank: 'false', value: replicateAnnotNameStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index) { updateCvCheckbox(); } } }); } var valueComboBox; valueComboBox = Ext4.create('Ext.form.ComboBox',{ fieldLabel: 'Value', store: valueStore , queryMode: 'local', displayField: 'value', valueField: 'value', forceSelection: 'true', allowBlank: 'false', value: valueStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index) { updateCvCheckbox(); } } }); var valueLabel; valueLabel = Ext4.create('Ext.form.Label', { fieldLabel: 'valueLabel', forId: 'valueLabel', text: 'Value only effects Retention Times chart.', baseCls: "valuelabel" }); var replicateAnnotNameValueComboBox; if(replicateAnnotNameValueStore.count() > 0) { replicateAnnotNameValueComboBox = Ext4.create('Ext.form.ComboBox',{ fieldLabel: 'Filter', lazyRender: true, store: replicateAnnotNameValueStore , queryMode: 'local', displayField: 'name-value', valueField: 'name-value', forceSelection: 'true', allowBlank: 'false', value: replicateAnnotNameValueStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index){ var selected = combo.getValue(); if(selected != 0) { updateCvCheckbox(); } } } }); } var peptideComboBox; if(peptideStore.count() > 0) { peptideComboBox = Ext4.create('Ext.form.ComboBox', { fieldLabel: 'Peptide', store: peptideStore, queryMods: 'local', displayField: 'sequence', valueField: 'peptideId', forceSelection: 'true', allowBlank: 'false', value: peptideStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index){ var selected = combo.getValue(); if(selected != 0) { replicateComboBox.setValue(replicateStore.getAt(0)); replicateComboBox.disable(); } else { replicateComboBox.enable(); } updateCvCheckbox(); } } }); } var moleculeComboBox; if(moleculeStore.count() > 0) { moleculeComboBox = Ext4.create('Ext.form.ComboBox', { fieldLabel: 'Small Molecule', store: moleculeStore, queryMods: 'local', displayField: 'customIonName', valueField: 'moleculeId', forceSelection: 'true', allowBlank: 'false', value: moleculeStore.getAt(0), width: 400, listeners:{ select: function(combo, record, index){ var selected = combo.getValue(); if(selected != 0) { replicateComboBox.setValue(replicateStore.getAt(0)); replicateComboBox.disable(); } else { replicateComboBox.enable(); } updateCvCheckbox(); } } }); } // check boxes var cvValuesCheckbox = Ext4.create('Ext.form.Checkbox', { id: 'cvCheckbox', fieldLabel: 'CV Values' }); var logValuesCheckbox = Ext4.create('Ext.form.Checkbox', { id: 'logCheckbox', fieldLabel: 'Log Scale' }); // peak areas graph LABKEY.targetedms.SVGChart.requestAndRenderSVG('/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPeakAreas.view?asProteomics=true&peptideId=334261&chartWidth=600&chartHeight=400', document.getElementById('peakAreasGraph'), null, document.getElementById('peakAreasGraphLabel')); LABKEY.targetedms.SVGChart.requestAndRenderSVG('/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showRetentionTimesChart.view?asProteomics=true&peptideId=334261&chartWidth=600&chartHeight=400', document.getElementById('retentionTimesGraph'), null, document.getElementById('retentionTimesGraphLabel')); // buttons var updateBtn = Ext4.create('Ext.button.Button', { text:'Update', handler: function(){ var params = { asProteomics: true, peptideGroupId: 0, replicateId: replicateComboBox.getValue(), groupByReplicateAnnotName: replicateAnnotNameComboBox.getValue(), filterByReplicateAnnotName: replicateAnnotNameValueComboBox.getValue(), peptideId: peptideStore.count() > 1 ? peptideComboBox.getValue() : 334261, moleculeId: moleculeStore.count() > 1 ? moleculeComboBox.getValue() : 0, cvValues: cvValuesCheckbox.getValue(), logValues: logValuesCheckbox.getValue(), chartWidth: chartWidthTb.getValue(), chartHeight: chartHeightTb.getValue() }; var peakAreaUrl = LABKEY.ActionURL.buildURL( 'targetedms', // controller 'showPeakAreas', // action LABKEY.ActionURL.getContainer(), params ); var retentionTimeParams = Ext4.apply(Ext4.clone(params), { value: valueComboBox.getValue() }); var retentionTimesUrl = LABKEY.ActionURL.buildURL( 'targetedms', // controller 'showRetentionTimesChart', // action LABKEY.ActionURL.getContainer(), retentionTimeParams ); // change the src of the image var areaElement = document.getElementById('peakAreasGraph'); LABKEY.targetedms.SVGChart.requestAndRenderSVG(peakAreaUrl, areaElement, null, document.getElementById('peakAreasGraphLabel')); var timeElement = document.getElementById('retentionTimesGraph'); LABKEY.targetedms.SVGChart.requestAndRenderSVG(retentionTimesUrl, timeElement, null, document.getElementById('retentionTimesGraphLabel')); areaElement.style.width = parseInt(chartWidthTb.getValue()); areaElement.style.height = parseInt(chartHeightTb.getValue()); timeElement.style.width = parseInt(chartWidthTb.getValue()); timeElement.style.height = parseInt(chartHeightTb.getValue()); } }); // chart width and height var chartWidthTb = Ext4.create('Ext.form.TextField',{ fieldLabel: "Width", name: "chartWidth", id: "chartWidth", allowBlank: false, maskRe: /[0-9]/, value: "600"} ); var chartHeightTb = Ext4.create('Ext.form.TextField',{ fieldLabel: "Height", name: "chartHeight", id: "chartHeight", allowBlank: false, maskRe: /[0-9]/, value: "400"} ); var items = []; if(replicateStore.count() > 2) items.push(replicateComboBox); if(replicateAnnotNameStore.count() > 1) items.push(replicateAnnotNameComboBox); if(replicateAnnotNameValueStore.count() > 1) items.push(replicateAnnotNameValueComboBox); if(peptideStore.count() > 2) items.push(peptideComboBox); if(moleculeStore.count() > 2) items.push(moleculeComboBox); if(replicateStore.count() > 2 || replicateAnnotNameStore.count() > 1) { items.push(cvValuesCheckbox); } items.push(logValuesCheckbox); items.push(chartWidthTb); items.push(chartHeightTb); items.push(valueComboBox); items.push(valueLabel); if(items.length > 0) { Ext4.create('Ext.form.Panel', { renderTo: Ext4.get('peakAreasFormDiv'), border: false, frame: false, buttonAlign: 'left', items: items, buttons: [updateBtn], defaults: { labelWidth: 150, labelStyle: 'background-color: #E0E6EA; padding: 2px 4px; margin: 0px;' } }); } updateCvCheckbox(); function updateCvCheckbox() { if(!cvValuesCheckbox.isVisible()) return; var allReplicates = replicateComboBox.getValue() == replicateStore.getAt(0).get('replicateId'); // replicate = 'All' var noAnnotations = replicateAnnotNameComboBox.getValue() == replicateAnnotNameStore.getAt(0).get('name'); // annotation = 'None' var replicateEnabled = false; if(replicateComboBox.isVisible()) replicateEnabled = replicateComboBox.disabled == false; var annotEnabled = false; if(replicateAnnotNameComboBox.isVisible()) annotEnabled = replicateAnnotNameComboBox.disabled == false; //alert("allReplicates: "+allReplicates+", noAnnotations: "+noAnnotations+", replicateEnabled: "+replicateEnabled+", annotEnabled: "+annotEnabled); if((replicateEnabled && allReplicates) || (annotEnabled && !noAnnotations) ) { cvValuesCheckbox.enable(); } else { cvValuesCheckbox.setValue(false); cvValuesCheckbox.disable(); } } }); </script> <div> <div id="peakAreasFormDiv" class="summary_form_box" style="display: block;"></div> <div class="summary_title_box"> <h3 class="title">Peak Areas</h3> <div id="peakAreasGraph"></div> <a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showReplicates.view?id=1872"><div style="text-align: center" id="peakAreasGraphLabel"></div></a> </div> <div class="summary_title_box"> <h3 class="title">Retention Times</h3> <div id="retentionTimesGraph"></div> <a href="/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showReplicates.view?id=1872"><div style="text-align: center" id="retentionTimesGraphLabel"></div></a> </div> </div> </div></div></div><div name="webpart" ><div class="panel panel-portal"> <div class="panel-heading"><h3 class="panel-title pull-left" title="IYITLTGVHQVPTENVQVHFTER, Charge 3"><a id="IYITLTGVHQVPTENVQVHFTERCharge3" class="labkey-anchor-disabled"><a id="expandCollapse-PeptideSpectrumView_0"><img width=9 height=9 style="margin-bottom: 0" src="/_images/minus.gif"></a> <a id="expandCollapse-PeptideSpectrumView_0Title"><span class="labkey-wp-title-text">IYITLTGVHQVPTENVQVHFTER, Charge 3</span></a></a></h3> <div class="clearfix"></div></div> <div id="WebPartView990745136" class=" panel-body"> <div style="margin-bottom:10px;"> </div>  <div id="lorikeet_0_options"></div> <div id="lorikeet_0"></div> <script type="text/javascript" nonce="77eb4c1b7ea7f5ef82f0b6c369bc3c5b"> +function($){ Ext4.onReady(function () { /* render the spectrum with the given options */ $("#lorikeet_0").specview({sequence: 'IYITLTGVHQVPTENVQVHFTER', staticMods: [], variableMods: [], ntermMod: 0, ctermMod: 0, maxNeutralLossCount: 1, width: 600, charge: 3, peaks: [ [277.3057861328125,630.2],[310.3837890625,318.3],[345.4071960449219,486.5],[360.38519287109375,466.5],[365.3984069824219,437.1],[405.37939453125,530.9],[442.3565979003906,521.1],[473.3747863769531,899.4],[491.3559875488281,660.1],[508.4648132324219,461.8],[521.357177734375,605.5],[541.336181640625,637.6],[552.3436889648438,1530.6],[553.364501953125,476.1],[556.4368286132812,518.5],[565.4923095703125,1007.2],[574.40380859375,605.1],[586.4609985351562,499.8],[592.4595947265625,650.8],[604.4797973632812,579.1],[622.44189453125,575.1],[669.5023803710938,734.1],[670.5433959960938,317.1],[687.5607299804688,666.7],[689.4454956054688,4117.3],[690.4686279296875,1389.1],[691.5275268554688,536.6],[720.5399780273438,1086.6],[729.1921997070312,6550.9],[730.1860961914062,1435.5],[731.4761962890625,790.8],[744.5861206054688,401.4],[745.67431640625,393.6],[748.5828857421875,387.1],[759.19091796875,685.6],[765.1539916992188,2962.4],[768.5358276367188,497.9],[778.6978149414062,1576.7],[779.6826782226562,504.8],[780.5975952148438,809.6],[788.54052734375,2240.4],[789.5667724609375,956.0],[790.6654052734375,457.3],[796.8944091796875,1244.7],[802.8707275390625,6653.1],[833.9639282226562,1331.5],[834.7011108398438,966.3],[836.6655883789062,902.5],[837.64990234375,450.2],[842.701416015625,1176.1],[843.6654052734375,886.0],[844.6817016601562,559.5],[845.697021484375,573.1],[850.7592163085938,767.2],[851.6185302734375,923.3],[857.2686767578125,2470.5],[859.5125732421875,1351.4],[861.635498046875,715.3],[862.6920776367188,530.5],[867.75830078125,1018.0],[874.5546875,848.4],[876.6099243164062,1755.8],[877.585205078125,1709.3],[878.6607055664062,859.9],[882.8411254882812,1742.6],[883.6530151367188,1690.2],[911.3201293945312,3637.0],[912.1812133789062,988.2],[916.5908203125,3465.8],[917.6027221679688,1631.4],[918.6235961914062,443.3],[949.7199096679688,884.3],[950.68798828125,427.8],[960.8303833007812,1302.3],[961.7006225585938,478.2],[980.7069702148438,746.2],[989.3441772460938,6804.0],[990.1870727539062,2189.1],[997.4857177734375,786.4],[998.6328735351562,923.4],[999.7067260742188,477.8],[1015.6649780273438,857.5],[1016.6815185546875,510.6],[1030.9989013671875,996.3],[1031.7333984375,738.6],[1039.8814697265625,10000.0],[1040.7169189453125,3238.2],[1065.9205322265625,1547.1],[1066.7567138671875,654.7],[1087.6156005859375,665.5],[1096.41357421875,3811.1],[1097.2529296875,1507.2],[1112.7066650390625,460.4],[1126.692626953125,1044.4],[1127.726806640625,694.9],[1128.8135986328125,604.4],[1129.67236328125,1279.5],[1130.6728515625,745.6],[1131.6590576171875,594.0],[1134.7213134765625,639.0],[1137.998046875,1272.0],[1138.900390625,1279.3],[1139.7947998046875,1009.5],[1146.916015625,8781.7],[1147.7611083984375,3515.0],[1194.6414794921875,1174.4],[1197.7059326171875,568.8],[1203.4696044921875,7231.4],[1204.285400390625,3223.6],[1225.730712890625,5299.2],[1226.7393798828125,3322.6],[1227.7462158203125,1123.0],[1254.4619140625,1005.2],[1255.300048828125,560.8],[1258.7060546875,652.3],[1263.7193603515625,793.4],[1284.96435546875,839.8],[1285.802490234375,463.9],[1456.765625,2928.6],[1457.7664794921875,2220.2],[1458.782958984375,835.7],[1552.9129638671875,469.3],[1553.9267578125,391.0],[1555.84765625,500.9],[1556.8778076171875,431.8]],// peaks in the scan: [m/z, intensity] pairs. extraPeakSeries: [], peakDetect: false }); var libSelectData = []; var libCount = 1; if(libCount > 0) { libSelectData = [ { "libName": 'GO_all_data_Q3 (GO_Broad_Targets_HighCurve_Final_050612) (GO_Broad_Targets_HighCurve_Final_050612_v2)' }, ]; } var libSource = Ext4.create('Ext.data.Store', { fields: ['libName'], data: libSelectData }); var specSelectData = []; var spectrumCount = 0; if(spectrumCount > 1) { specSelectData = []; } var spectrumSource = Ext4.create('Ext.data.Store', { fields: ['redundantSpectrumId', 'fileName', 'retentionTime', 'isReference', 'display'], data: specSelectData }); Ext4.create('LABKEY.targetedms.LorikeetOptions', { renderTo: 'lorikeet_0_options', lorikeetId: 'lorikeet_0', sourceFileName: '', retentionTime: '0.00', isReference: false, precursorId: 566698, libraryName: 'GO_all_data_Q3 (GO_Broad_Targets_HighCurve_Final_050612) (GO_Broad_Targets_HighCurve_Final_050612_v2)', spectrumStore: spectrumSource }); }); Ext4.define('LABKEY.targetedms.LorikeetOptions', { extend: 'Ext.panel.Panel', layout: { type: 'table', columns: 1 }, border: false, details_panel_id: 'details_panel_', initComponent : function() { Ext4.tip.QuickTipManager.init(); this.details_panel_id = this.details_panel_id + this.lorikeetId; this.items = this.getItems(); this.callParent(); }, getItems: function(){ var items = []; var wrapper = this; if(!this.sourceFileName) { return items; } items.push({ xtype: 'box', itemId: this.details_panel_id, html: this.getDetailsHtml(this.sourceFileName, this.retentionTime, this.isReference) }); if(this.libraryStore) { items.push({ xtype: 'combobox', itemId: 'libSelector', hidden: false, fieldLabel: 'Library', labelStyle: 'font-weight: bold', editable: false, store: this.libraryStore , queryMode: 'local', displayField: 'libName', valueField: 'libName', forceSelection: 'true', allowBlank: 'false', value: this.libraryStore.getAt(0), width: 500, listeners:{ select: function(combo, records, index){ var record = records[0]; // console.log(record.get('libName') + " " + record.get('libId')); Ext4.get(wrapper.lorikeetId).mask("Loading..."); Ext4.Ajax.request({ url: LABKEY.ActionURL.buildURL('targetedms', 'librarySpectrumData'), method: 'GET', params: { libraryName: record.get('libName'), precursorId: wrapper.precursorId }, callback: function(options, success, response) { wrapper.refreshSpectrum(success, response, true, true); } }); } } }); } else if(this.libraryName) { items.push({ xtype: 'box', html: '<span style="font-weight:bold">Library: </span><span>' + this.libraryName + '</span>' }); } if(this.spectrumStore) { items.push({ xtype: 'combobox', itemId: 'specSelector', hidden: this.spectrumStore.getCount() <= 1, fieldLabel: 'Spectrum', labelStyle: 'font-weight: bold', editable: false, emptyText: "", store: this.spectrumStore , queryMode: 'local', displayField: 'display', valueField: 'redundantSpectrumId', forceSelection: 'true', allowBlank: 'false', value: this.spectrumStore.getAt(0), width: 500, listeners:{ select: function(combo, records, index){ var record = records[0]; //console.log(record.get('fileName') + " " + record.get('isReference') + " " // + record.get('retentionTime') + " " + record.get('redundantSpectrumId')); var selectedLib = wrapper.libraryName; var libSelector = wrapper.getComponent('libSelector'); if(libSelector) { selectedLib = libSelector.getValue(); } Ext4.get(wrapper.lorikeetId).mask("Loading..."); Ext4.Ajax.request({ url: LABKEY.ActionURL.buildURL('targetedms', 'librarySpectrumData'), method: 'GET', params: { libraryName: selectedLib, redundantRefSpectrumId: record.get('redundantSpectrumId'), precursorId: wrapper.precursorId, sourceFile: record.get('fileName') }, callback: function(options, success, response) { wrapper.refreshSpectrum(success, response, record.get('isReference'), false); } }); } } }); } return items; }, refreshSpectrum: function (success, response, isReference, refreshSpecSelector) { Ext4.get(this.lorikeetId).unmask(); //console.log(response.responseText); var jsonData = Ext4.JSON.decode(response.responseText); if(!success || response.status != 200) { if(jsonData.exception) { this.onError(jsonData.exception); return; } else { this.onError("An unknown error occurred"); } return; } if(jsonData.error) { this.onError(jsonData.error); return; } /* render the spectrum with the given options */ var spectrum = jsonData.spectrum; this.renderSpectrum(spectrum, isReference, refreshSpecSelector); }, renderSpectrum: function (spectrum, isReference, refreshSpecSelector) { // Clear the existing spectrum $('#' + this.lorikeetId).empty(); $('#' + this.lorikeetId).specview({sequence: spectrum.sequence, staticMods: Ext4.JSON.decode(spectrum.staticMods), variableMods: Ext4.JSON.decode(spectrum.variableMods), maxNeutralLossCount: spectrum.maxNeutralLossCount, width: 600, charge: spectrum.charge, peaks: Ext4.JSON.decode(spectrum.peaks), // peaks in the scan: [m/z, intensity] pairs. extraPeakSeries: [], peakDetect: false }); if(refreshSpecSelector) { var spectrumSelector = this.getComponent('specSelector'); var spectrumSource = Ext4.create('Ext.data.Store', { fields: ['redundantSpectrumId', 'fileName', 'retentionTime', 'isReference', 'display'], data: Ext4.JSON.decode(spectrum.redundantSpectra) }); if (spectrumSource.getCount() > 1) { spectrumSelector.bindStore(spectrumSource); spectrumSelector.select(spectrumSource.first()); spectrumSelector.show(); } else { spectrumSelector.hide();// Hide the spectrum selector isReference = false; // There is only one spectrum in the redundant lib, and it is the reference spectrum } } this.getComponent(this.details_panel_id).update(this.getDetailsHtml(spectrum.fileName, spectrum.retentionTime, isReference)); }, getDetailsHtml: function(fileName, retentionTime, isReference) { var fileNameHtml = '<span style="font-weight:bold;">File: </span><span>' + Ext4.String.htmlEncode(fileName) + '</span>'; var rtHtml = ' <span> (RT: ' + retentionTime + ')</span>'; var refHtml = ' <span style="color:mediumblue; font-size:small;">' + (isReference ? "Reference spectrum" : "") + '</span>'; return fileNameHtml + rtHtml + refHtml; }, onError: function (message) { this.getComponent(this.details_panel_id).update(""); $('#'+this.lorikeetId).html('<div style="margin:20px;color:red;">' + message + '</div>'); } }); }(jQuery); </script> </div></div></div> </div> </div> </div> </div> <a href="/__r978/targetedms-showPeptide.view?id=334261" id="permalink" name="permalink" style="display: none;"></a> <script type="text/javascript" nonce="77eb4c1b7ea7f5ef82f0b6c369bc3c5b"> LABKEY.loadScripts(); LABKEY.showNavTrail(); if (LABKEY.WebSocket) LABKEY.WebSocket.initWebSocket(); (function() { function _on_dom_content_loaded_(){const A = function(a,b,c){LABKEY.Utils.attachEventHandler(a,b,c,1);} const h0=function (){ document.getElementById('global-search-form').submit(); return false; }; A('a_header_search','click',h0); const h1=function (){ if (this.className.indexOf('labkey-disabled-button') != -1) return false; }; A('a_00012','click',h1); const h2=function (){ if (this.className.indexOf('labkey-disabled-button') != -1) return false; ; }; A('dropdown_00013PopupLink','click',h2); const h3=function (){ try {_gaq.push(['_trackEvent', 'SkyDocDownload', '/CPTAC Assay Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve', 'GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip']); } catch (err) {}try {gtag('event', 'SkyDocDownload', {path: '/CPTAC Assay Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve', fileName: 'GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip'}); } catch(err) {}that=this; setTimeout(function(){location.href=that.href;},400);return false; }; A('popupMenuView00014','click',h3); A('popupMenuView00015','click',h3); const h4=function (){ copyStringToClipboard('targetedms-showPrecursorList.view?fileName=GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip');return false; }; A('popupMenuView00016','click',h4); const h5=function (){ copyStringToClipboard('https://panoramaweb.org/CPTAC%20Assay%20Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve/targetedms-showPrecursorList.view?fileName=GO_Broad_Targets_HighCurve_Final_050612_v2_2015-04-09_15-13-58.sky.zip');return false; }; A('popupMenuView00017','click',h5); const h6=function (){ LABKEY.Utils.toggleLink(this, true, 'DIV'); return false; }; A('expandCollapse-Chromatograms','click',h6); const h7=function (){ LABKEY.Utils.toggleLink(document.getElementById('expandCollapse-Chromatograms'), true, 'DIV'); return false; }; A('expandCollapse-ChromatogramsTitle','click',h7); const h8=function (){ showChart(); }; A('showChartHeadContainer','click',h8); const h9=function (){ if(this.className.indexOf('labkey-disabled-button')!=-1)return false; }; A('button_00019','click',h9); A('expandCollapse-SummaryChartsView','click',h6); const h10=function (){ LABKEY.Utils.toggleLink(document.getElementById('expandCollapse-SummaryChartsView'), true, 'DIV'); return false; }; A('expandCollapse-SummaryChartsViewTitle','click',h10); A('expandCollapse-PeptideSpectrumView_0','click',h6); const h11=function (){ LABKEY.Utils.toggleLink(document.getElementById('expandCollapse-PeptideSpectrumView_0'), true, 'DIV'); return false; }; A('expandCollapse-PeptideSpectrumView_0Title','click',h11); } function _on_document_loaded_(){ } if (document.readyState !== "loading") { _on_dom_content_loaded_(); if (document.readyState === "complete") _on_document_loaded_(); } document.addEventListener('readystatechange', function() { if (document.readyState === 'interactive') _on_dom_content_loaded_(); else if (document.readyState === 'complete') _on_document_loaded_(); }); })(); </script> </body> </html>

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IYITLTGVHQVPTENVQVHFTER: /CPTAC Assay Portal/Broad_Carr_FHCRC_Paulovich/CellLysate_5500QTRAP_directMRM/ResponseCurve