{"id":31642,"date":"2021-10-28T13:42:04","date_gmt":"2021-10-28T11:42:04","guid":{"rendered":"https:\/\/phiab.com\/?p=31642"},"modified":"2023-11-01T11:07:48","modified_gmt":"2023-11-01T10:07:48","slug":"cell-quality-control-assay-protocol","status":"publish","type":"post","link":"https:\/\/phiab.com\/protocol\/cell-quality-control-assay\/","title":{"rendered":"Cell Quality Control Assay Protocol"},"content":{"rendered":"<div class=\"wp-block-group is-style-banner-image is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\"><figure class=\"wp-block-image size-full background-image has-caption is-landscape block-editor-block-list__block block-editor-block-list__first\" id=\"top\" style=\"--phi-media-width:1536px;--phi-media-height:512px;--phi-aspect-ratio:3;\"><img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"Cell QC\" class=\"wp-image-21182 lazyload figure__media\" data-media-id=\"21182\" width=\"1536\" height=\"512\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-300x100.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-1024x341.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-768x256.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-512x171.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-384x128.jpg 384w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-256x85.jpg 256w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-128x43.jpg 128w, https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc-1280x427.jpg 1280w\" data-sizes=\"auto\"><figcaption class=\"wp-element-caption\">Color-coded label-free phase image<br>created using HoloMonitor<sup>\u00ae<\/sup><\/figcaption>\n  <\/figure>\n  <div class=\"wp-block-columns alignfull are-vertically-aligned-center is-style-no-collapse is-layout-flex wp-container-core-columns-layout-1 wp-block-columns-is-layout-flex block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout is-empty block-editor-block-list__block block-editor-block-list__first\" style=\"flex-basis:10%;\"><\/div>\n    <div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second\" style=\"flex-basis:80%;\">\n      <h1 class=\"wp-block-heading has-text-align-center has-white-color has-text-color has-huge-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-cell-quality-control-assay-protocol\">\n        <strong>Cell Quality Control Assay Protocol<\/strong>\n      <\/h1>\n    <\/div>\n    <div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout is-empty block-editor-block-list__block block-editor-block-list__last\" style=\"flex-basis:10%;\"><\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-center floated-parent\" style=\"grid-template-columns:auto 20%;--phi-media-width:150px;--phi-media-height:150px;--phi-aspect-ratio:1;--phi-media-max-width:20%;\"><figure class=\"wp-block-media-text__media is-svg is-landscape floating-element\">\n    <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"HoloMonitor cell QC assay icon\" class=\"wp-image-14784 size-full lazyload figure__media\" data-media-id=\"14784\" width=\"150\" height=\"150\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2019\/08\/cell-qc-icon.svg\">\n  <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-highlight wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">This protocol helps to set up a <a href=\"https:\/\/phiab.com\/holomonitor\/cell-qc-assay\">Cell Quality Control Assay<\/a> using HoloMonitor\u00ae M4&nbsp;and<a href=\"https:\/\/phiab.com\/holomonitor\/cell-imaging-software\"> the HoloMonitor\u00ae App Suite software<\/a>. The HoloMonitor\u00ae Cell Quality Control assay can be used to ensure that the cell count and\/ or confluence is appropriate at the start of an experiment. The Cell Quality Control Assay can also be used as a tool to detect undesired changes in your cell culture as compared to previous experiment(s).<\/p>\n    <div class=\"wp-block-buttons alignwide is-horizontal is-content-justification-center is-layout-flex wp-container-core-buttons-layout-1 wp-block-buttons-is-layout-flex block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\">\n      <div class=\"wp-block-button\">\n        <a class=\"wp-block-button__link wp-element-button\" href=\"https:\/\/phiab.com\/reports\/AppSuite-4.0\/AppSuite-protocol-cell-quality-control.pdf\">Download this protocol<\/a>\n      <\/div>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-group is-style-curve is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-columns alignwide is-layout-flex wp-container-core-columns-layout-2 wp-block-columns-is-layout-flex block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\"><div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first\"><h2 class=\"wp-block-heading has-phi-blue-color has-text-color block-editor-block-list__block block-editor-block-list__first\" id=\"requirements\">Requirements:<\/h2>\n      <ul class=\"has-normal-font-size wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><li class=\"block-editor-block-list__block block-editor-block-list__first\"><a href=\"https:\/\/phiab.com\/holomonitor\/cell-imaging-system\/\">HoloMonitor\u00ae M4<\/a>, placed in incubator<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__second\">\n          <a href=\"https:\/\/phiab.com\/holomonitor\/cell-imaging-software\/\">HoloMonitor\u00ae M4&nbsp;App Suite<\/a>\n        <\/li>\n        <li class=\"block-editor-block-list__block\"><a href=\"https:\/\/phiab.com\/holomonitor\/hololids\/?swcfpc=1\">HoloLid\u2122 <\/a>for selected vessel<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__last\">Vessel holder for selected vessel<\/li>\n      <\/ul>\n    <\/div>\n    <div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second\"><h2 class=\"wp-block-heading has-phi-blue-color has-text-color block-editor-block-list__block block-editor-block-list__first\" id=\"output\">Output:<\/h2>\n      <ul class=\"has-normal-font-size wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><li class=\"block-editor-block-list__block block-editor-block-list__first\"><strong>Cell Count<\/strong> (cells\/cm<sup>2<\/sup>)<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__second\"><strong>Mean cell area<\/strong> (\u00b5m<sup>2<\/sup>)<\/li>\n        <li class=\"block-editor-block-list__block\"><strong>Mean cell diameter<\/strong> (\u00b5m)<\/li>\n        <li class=\"block-editor-block-list__block\"><strong>Mean cell volume<\/strong> (\u00b5m<sup>3<\/sup>)<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__last\"><strong>Confluence<\/strong> (%)<\/li>\n      <\/ul>\n    <\/div>\n    <div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__last\"><h2 class=\"wp-block-heading has-phi-blue-color has-text-color block-editor-block-list__block block-editor-block-list__first\" id=\"reanalysis\">Reanalysis:<\/h2>\n      <ul class=\"is-style-default wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second\">\n        <li class=\"block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">Guided assays<ul class=\"wp-block-list block-editor-block-list__layout\">\n            <li class=\"block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">\n              <a href=\"https:\/\/phiab.com\/holomonitor\/cell-qc-assay\/?swcfpc=1\">Cell Quality Control<\/a>\n            <\/li>\n          <\/ul>\n        <\/li>\n      <\/ul>\n      <ul class=\"wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__last\">\n        <li class=\"block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">In-depth analysis<ul class=\"wp-block-list block-editor-block-list__layout\">\n            <li class=\"block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">\n              <a href=\"https:\/\/phiab.com\/holomonitor\/cell-morphology-assay\/?swcfpc=1\">Cell Morphology<\/a>\n            <\/li>\n          <\/ul>\n        <\/li>\n      <\/ul>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-group alignwide is-style-curve has-phi-blue-background-color has-background is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <h2 class=\"wp-block-heading alignwide is-style-page-break has-large-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-preparations\">\n    <strong>PREPARATIONS<\/strong>\n  <\/h2>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-materials\">Materials<\/h3>\n\n<div class=\"wp-block-group alignwide is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <ul class=\"wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\"><li class=\"block-editor-block-list__block block-editor-block-list__first\"><strong><a href=\"https:\/\/phiab.com\/holomonitor\/?swcfpc=1\">HoloMonitor\u00ae M4<\/a><\/strong>, placed inside the incubator<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__second\">HoloMonitor\u00ae <a href=\"https:\/\/phiab.com\/holomonitor\/cell-imaging-software\/?swcfpc=1\">App Suite software<\/a><\/li>\n    <li class=\"block-editor-block-list__block\"><strong>Cell culture vessel<\/strong>. Please check <a href=\"https:\/\/phiab.com\/protocol\/recommended-vessel-list\/\">our list<\/a> of recommended vessels.<\/li>\n    <li class=\"block-editor-block-list__block\"><a href=\"https:\/\/phiab.com\/holomonitor\/hololids\/?swcfpc=1\">HoloLid\u2122<\/a> for the selected vessel<\/li>\n    <li class=\"block-editor-block-list__block\"><strong>Vessel holder<\/strong> for selected vessel<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__last\"><a href=\"https:\/\/phiab.com\/resources\/manuals-protocols\/\">Setup and Operation Manual<\/a> for HoloMonitor\u00ae<sub><sup> <\/sup><\/sub>M4<\/li>\n  <\/ul>\n<\/div>\n\n<h2 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-steps\">Steps<\/h2>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\"><div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-center is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first\" style=\"--phi-media-width:708px;--phi-media-height:474px;--phi-aspect-ratio:1.4936708860759;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"calibration\" class=\"wp-image-31309 size-full lazyload figure__media\" data-media-id=\"31309\" width=\"708\" height=\"474\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration.png\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration.png 708w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration-300x201.png 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration-150x100.png 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration-512x343.png 512w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/calibration.png\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Seed the cells with about <strong>10% confluence<\/strong> (ca. 12000 \u2013 22000&nbsp;cells\/cm<sup>2<\/sup>).<\/p>\n      <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">\u25baPlease note that too few cells may lead to inadequate results due to auto-focus failure.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block\">Place the vessel in the incubator and let <strong>cells attach<\/strong> for 2-24&nbsp;hours.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Start <\/strong>the <strong>software <\/strong>and wait for complete instrument <strong>initialization<\/strong>.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Run an <strong>auto-calibration<\/strong>. With successful calibration (as shown in the picture), the instrument is ready to use.<\/p>\n    <\/div>\n  <\/div>\n  <figure class=\"wp-block-table alignwide is-style-stripes block-editor-block-list__block block-editor-block-list__second\">\n    <table>\n      <tbody><tr><td>\n            <strong>Vessel<\/strong>\n          <\/td><td class=\"has-text-align-center\" data-align=\"center\">\n            <strong>Vendor cat.<br>number<\/strong>\n          <\/td><td class=\"has-text-align-center\" data-align=\"center\">\n            <strong>HoloLid\u2122<\/strong>\n          <\/td><td class=\"has-text-align-center\" data-align=\"center\">\n            <strong>Final working<br>volume<\/strong>\n          <\/td><td class=\"has-text-align-center\" data-align=\"center\">\n            <strong>Growth area,<br>cm2\/well<\/strong>\n          <\/td><td class=\"has-text-align-center\" data-align=\"center\">\n            <strong>Vessel cut in<br>a holder<\/strong>\n          <\/td>\n        <\/tr><tr><td>Sarstedt TC-dish 35<\/td><td class=\"has-text-align-center\" data-align=\"center\">83.3900<\/td><td class=\"has-text-align-center\" data-align=\"center\">71110<\/td><td class=\"has-text-align-center\" data-align=\"center\">3.0 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">8.00<\/td><td class=\"has-text-align-center\" data-align=\"center\">NA<\/td>\n        <\/tr><tr><td>Sarstedt TC 6-well plate<\/td><td class=\"has-text-align-center\" data-align=\"center\">83.3920.005<\/td><td class=\"has-text-align-center\" data-align=\"center\">71120<\/td><td class=\"has-text-align-center\" data-align=\"center\">3.0 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">8.80<\/td><td class=\"has-text-align-center\" data-align=\"center\">top left<\/td>\n        <\/tr><tr><td>Sarstedt lumox\u00ae 24-multiwell plate<\/td><td class=\"has-text-align-center\" data-align=\"center\">94.6000.014<\/td><td class=\"has-text-align-center\" data-align=\"center\">71130<\/td><td class=\"has-text-align-center\" data-align=\"center\">1.9 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">1.90<\/td><td class=\"has-text-align-center\" data-align=\"center\">top left<\/td>\n        <\/tr><tr><td>Sarstedt lumox\u00ae 96-multiwell plate<\/td><td class=\"has-text-align-center\" data-align=\"center\">94.6000.024<\/td><td class=\"has-text-align-center\" data-align=\"center\">71140<\/td><td class=\"has-text-align-center\" data-align=\"center\">170 \u00b5L\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">0.34<\/td><td class=\"has-text-align-center\" data-align=\"center\">top left<\/td>\n        <\/tr><tr><td>ibidi\u00ae \u03bc-dish 35 mm, high<\/td><td class=\"has-text-align-center\" data-align=\"center\">81156<\/td><td class=\"has-text-align-center\" data-align=\"center\">71111<\/td><td class=\"has-text-align-center\" data-align=\"center\">2.5 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">3.50<\/td><td class=\"has-text-align-center\" data-align=\"center\">NA<\/td>\n        <\/tr><tr><td>ibidi\u00ae \u03bc-plate 24 Well Black<\/td><td class=\"has-text-align-center\" data-align=\"center\">80241<\/td><td class=\"has-text-align-center\" data-align=\"center\">71131<\/td><td class=\"has-text-align-center\" data-align=\"center\">2.5 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">1.90<\/td><td class=\"has-text-align-center\" data-align=\"center\">NA<\/td>\n        <\/tr><tr><td>Eppendorf CCCadvanced\u00ae FN1 &#8211; 6 well<\/td><td class=\"has-text-align-center\" data-align=\"center\">0038110010<\/td><td class=\"has-text-align-center\" data-align=\"center\">71150<\/td><td class=\"has-text-align-center\" data-align=\"center\">3.0 mL\/well<\/td><td class=\"has-text-align-center\" data-align=\"center\">9.40<\/td><td class=\"has-text-align-center\" data-align=\"center\">bottom right<\/td>\n        <\/tr>\n      <\/tbody>\n    <\/table>\n  <\/figure>\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:552px;--phi-aspect-ratio:1.8550724637681;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocol overview\" class=\"wp-image-31649 size-full lazyload figure__media\" width=\"1024\" height=\"552\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-1024x552.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-1024x552.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-7.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Sterilize the <a href=\"https:\/\/phiab.com\/holomonitor\/hololids\/\">HoloLids\u2122<\/a> according to the HoloLid\u2122 sterilization and use protocol.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Add the <strong>treatment <\/strong>to your cells. The final working volumes per well, essential for using <strong>HoloLids\u2122<\/strong>, are shown in the table above.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Slide <\/strong>the cell culture <strong>vessel <\/strong>onto the Vessel <strong>holder<\/strong>, its grips facing towards you. Ensure that the vessel is parallel to the holder. There is a spring that holds the vessel in place.<\/p>\n      <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25baWhen using multi-well plates, place them with the cut-off corner to the left.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Replace <\/strong>the standard lids with the <strong>HoloLid\u2122<\/strong>.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Put <\/strong>the vessel holder with the sample on the <strong>HoloMonitor\u00ae M4&nbsp;stage<\/strong>.<\/p>\n      <p class=\"is-style-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Select the<strong> Cell Quality Control Assay<\/strong> and proceed by clicking the<strong> Setup Assay <\/strong>button.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-group alignwide is-style-curve has-phi-blue-background-color has-background is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <h2 class=\"wp-block-heading alignwide is-style-page-break has-large-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-experiment-setup\">\n    <strong>EXPERIMENT SETUP<\/strong>\n  <\/h2>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide is-style-numbered has-small-large-font-size\" id=\"h-basic-setup-describe-the-experiment-and-assign-treatments-to-the-wells\">Basic setup: describe the experiment and assign treatments to the wells<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:553px;--phi-aspect-ratio:1.8517179023508;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocol overview tab\" class=\"wp-image-31653 size-full lazyload figure__media\" width=\"1024\" height=\"553\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-1024x553.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-1024x553.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-768x415.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide2-4.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Enter the experiment <strong>name<\/strong>, optional experiment <strong>description, <\/strong>and cell types.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Select the correct <strong>vessel map <\/strong>from the drop-down list.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">Map <strong>treatments and conditions<\/strong> on the vessel map. <strong>Select wells<\/strong> by marking them with the left mouse button while moving the cursor over the relevant well\/s.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">Add the<strong> treatment name(s)<\/strong> in the text box below the vessel map and click <strong>Add<\/strong>\/ press Enter. Marked well\/s are light blue, selected wells will appear dark blue.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Proceed to<strong> Capture setup<\/strong>.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide is-style-numbered has-small-large-font-size\" id=\"h-capture-setup-select-the-experiment-time-settings-and-choose-capture-positions\">Capture setup: Select the experiment time settings and choose capture positions<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\"><div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first\" style=\"--phi-media-width:1024px;--phi-media-height:552px;--phi-aspect-ratio:1.8550724637681;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocol setup\" class=\"wp-image-31654 size-full lazyload figure__media\" width=\"1024\" height=\"552\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-1024x552.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-1024x552.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide3-4.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">The <strong>number of positions<\/strong> is set by default and can be adjusted.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Ensure that the <strong>storage requirement<\/strong> for the experiment does not exceed the computer capacity.<\/p>\n      <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">\u25ba When running an experiment, <strong>data needs to be stored on the computer <\/strong>connected to the instrument. Storing data on an external drive (e.g. connected via USB or internet server) may cause data loss due to erratic USB connections or poor internet connection.<\/p>\n    <\/div>\n  <\/div>\n  <div class=\"wp-block-group alignwide is-style-float-right is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout floated-parent block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><div class=\"wp-block-group is-style-default is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first floating-element\">\n      <figure class=\"wp-block-image alignleft size-large is-style-lightbox has-caption is-landscape block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:236px;--phi-aspect-ratio:4.3389830508475;\">\n        <div class=\"lightbox-image-wrapper\">\n          <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"Manual focus adjustment\" class=\"wp-image-31364 lazyload figure__media\" width=\"1024\" height=\"236\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-1024x236.png\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-1024x236.png 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-300x69.png 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-768x177.png 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-150x35.png 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-512x118.png 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment-1280x296.png 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment.png 1490w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Manual-focus-adjustment.png\">\n        <\/div><figcaption class=\"wp-element-caption\"><strong>MANUAL FOCUS ADJUSTMENT:<\/strong> The focusing tool is located in the<strong> Controls tab<\/strong>. Move the black square or click on the Arrow buttons to move the stage up and down. Save an adjusted focus setting for the selected position by using the Apply Current Focus button. For details, consult the<a href=\"https:\/\/phiab.com\/resources\/manuals-protocols\/\"> <strong>Setup and Operational Manual<\/strong><\/a><strong>.<\/strong><\/figcaption>\n      <\/figure>\n    <\/div>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Click the p<strong>ositions list<\/strong> button to view the position list.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Inspect the images<\/strong> by hovering over the image icon in the list. Move the stage to that position by double-clicking the icon. If the image quality is poor, a warning sign appears. <strong>Adjust <\/strong>position location or focus if necessary.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">When satisfied with the experiment setup, click <strong>Proceed<\/strong> <strong>to Capture<\/strong>.<\/p>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide is-style-numbered has-small-large-font-size\" id=\"h-capture-review-the-experiment-in-real-time-during-the-time-lapse\">Capture: Review the experiment in real-time during the time-lapse<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:550px;--phi-aspect-ratio:1.8618181818182;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocol setup tab\" class=\"wp-image-31655 size-full lazyload figure__media\" width=\"1024\" height=\"550\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-1024x550.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-1024x550.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-300x161.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-768x412.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5-512x275.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide4-5.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Click <strong>Start Capture.<\/strong><\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">To stop the experiment ahead of time, click the stop button.<\/p>\n      <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25ba Note that it is NOT possible to restart the experiment once it has been stopped.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">Go to the <strong>Experiments tab <\/strong>and open your ongoing experiment to preview the results during the run.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">When the Experiment capture finishes, click the <strong>Show Result<\/strong> button to get directly to the <strong>Results page<\/strong>.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-group alignwide is-style-curve has-phi-blue-background-color has-background is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <h2 class=\"wp-block-heading alignwide is-style-page-break has-large-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-results-analysis\">\n    <strong>RESULTS &amp; ANALYSIS<\/strong>\n  <\/h2>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-experiments-tab\">Experiments tab<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:553px;--phi-aspect-ratio:1.8517179023508;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocol results tab\" class=\"wp-image-31657 size-full lazyload figure__media\" width=\"1024\" height=\"553\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-1024x553.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-1024x553.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-768x415.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide5-5.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Click Experiments to see a <strong>list of the experiments<\/strong>.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Click on the experiment title to open an <strong>experiment summary<\/strong>.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Click <strong>Open <\/strong>to open the results page.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-experiment-overview-tab\">Experiment overview tab<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-center is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:550px;--phi-aspect-ratio:1.8618181818182;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocell quality control assay protocol \" class=\"wp-image-31658 size-full lazyload figure__media\" width=\"1024\" height=\"550\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-1024x550.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-1024x550.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-300x161.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-768x413.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5-512x275.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-5.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">See the experiment <strong>summary<\/strong>, view <strong>all images,<\/strong> and go to the experiment <strong>setup <\/strong>by choosing the respective tab.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Open the <strong>experiment data<\/strong> by clicking on the experiment result icon or its name in the Guided Assay Result list.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Create New Results<\/strong> from this experiment by clicking the button.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Reach <strong>In-depth Analysis<\/strong> by clicking the respective icon.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-cell-quality-control-data-results-tab\">Cell quality control data results tab<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-float-right is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout floated-parent\"><div class=\"wp-block-group is-style-default is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first floating-element\">\n    <figure class=\"wp-block-image alignleft size-large is-style-lightbox has-caption is-landscape block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:156px;--phi-aspect-ratio:6.5641025641026;\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt class=\"wp-image-31394 lazyload figure__media\" width=\"1024\" height=\"156\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-1024x156.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-1024x156.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-300x46.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-768x117.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-150x23.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1-512x78.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-smaller-1.jpg\">\n      <\/div><figcaption class=\"wp-element-caption\">\n        <strong>The HoloMonitor\u00ae App Suite experiment data can be re-analyzed to generate results for other assay types. Find more information in the overview and the <a href=\"https:\/\/phiab.com\/resources\/manuals-protocols\/\">Setup and Operational Manual<\/a>.<\/strong>\n      <\/figcaption>\n    <\/figure>\n  <\/div>\n  <ul class=\"is-style-checkmark wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><li class=\"block-editor-block-list__block block-editor-block-list__first\">The assay results are generated during image capturing.<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__second\">The software automatically analyzes quantitative data generated from each image.<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__last\">For a more detailed analysis, all results can be exported.<\/li>\n  <\/ul>\n<\/div>\n\n<div class=\"wp-block-group alignwide is-style-float-right is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout floated-parent\"><div class=\"wp-block-group is-style-default is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first floating-element\">\n    <figure class=\"wp-block-image alignleft size-large is-style-border is-style-lightbox has-caption is-landscape block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:550px;--phi-aspect-ratio:1.8618181818182;\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocell quality control assay results\" class=\"wp-image-31659 lazyload figure__media\" width=\"1024\" height=\"550\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-1024x550.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-1024x550.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-300x161.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-768x413.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5-512x275.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide7-5.jpg\">\n      <\/div><figcaption class=\"wp-element-caption\">It is the users&#8217; responsibility to verify that the software algorithm was correctly applied during analysis and that results are accurate.<\/figcaption>\n    <\/figure>\n  <\/div>\n  <div class=\"wp-block-group is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\">\n    <div class=\"wp-block-group is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">The results for each selected well\/treatment are presented in a <strong>table <\/strong>showing<strong> cell count (#\/cm<sup>2<\/sup>)<\/strong>, <strong>confluence (%), mean cell volume (\u00b5m\u00b3), mean cell area (\u00b5m\u00b2),<\/strong> and<strong> mean cell diameter (\u00b5m)<\/strong>.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Enlarge the histograms to have a closer look at cell volume (\u00b5m\u00b3) and area distribution (\u00b5m\u00b2).<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">For further analysis, <strong>export <\/strong>all results to <strong>Excel<\/strong>. The exported data include <strong>population data based on means<\/strong>, including <strong>data for each captured position<\/strong> and standard deviations.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-image-analysis-tab\">Image analysis tab<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top is-style-border is-style-lightbox floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:552px;--phi-aspect-ratio:1.8550724637681;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocell quality control assay results tab\" class=\"wp-image-31663 size-full lazyload figure__media\" width=\"1024\" height=\"552\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-1024x552.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3.jpg 1360w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-300x160.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-1024x545.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-768x409.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-150x80.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-512x273.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3-1280x681.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide8-3.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><ul class=\"is-style-checkmark wp-block-list block-editor-block-list__layout block-editor-block-list__block block-editor-block-list__first\"><li class=\"block-editor-block-list__block block-editor-block-list__first\">An image analysis algorithm filters out images of poor quality and excludes them from results data.<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\">Include or exclude images from results analysis. See the<strong> image guide<\/strong> for more information.<\/li>\n      <\/ul>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">The captured images from the experiment are displayed in a <strong>tree-view list<\/strong>. Clicking an item in the tree will show a list of all images contained in the selected level\/category.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Checked checkboxes<\/strong>\u2014 all images are included.<br><strong>Empty checkboxes <\/strong>\u2014 all images are excluded.<br><strong>Checkboxes with a dash <\/strong>\u2014 some images are included.<br>Symbols in the list show cell analysis (yellow exclamation mark) or image quality warning (red exclamation mark).<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">It is possible to adjust the sensitivity of image(s) and view the image threshold and markers.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">The <strong>Advanced controls<\/strong> let the user adjust <strong>Threshold value<\/strong>, <strong>Threshold method<\/strong> and <strong>Min. cell size<\/strong> so the segmentation mask fits the holography signal. Choose which frames to apply the changes to in the dropdown meny and click <strong>Copy<\/strong> to apply the changes.<br>\u25ba Check cell segmentation for some images in the beginning, middle, and end of the experiment to make sure the applied threshold fits.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">Once satisfied with the cell identification, click <strong>Apply changes<\/strong> to save the changes.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-group alignwide is-style-curve has-phi-blue-background-color has-background is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <h2 class=\"wp-block-heading alignwide is-style-page-break has-large-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-one-experiment-multiple-results\">\n    <strong>One experiment \u2014 multiple results<\/strong>\n  <\/h2>\n<\/div>\n\n<ul class=\"is-style-checkmark wp-block-list block-editor-block-list__layout\">\n  <li class=\"block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">This section helps to reanalyze data between different assays using HoloMonitor\u00ae App Suite software.<\/li>\n<\/ul>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-generating-in-depth-assay-results\">Generating In-depth Assay results<\/h3>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-vertically-aligned-top floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:959px;--phi-media-height:719px;--phi-aspect-ratio:1.3337969401947;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocell quality control assay protocol\" class=\"wp-image-31684 size-full lazyload figure__media\" data-media-id=\"31684\" width=\"959\" height=\"719\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3.jpg 959w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3-300x225.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3-768x576.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3-150x112.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide10-3-512x384.jpg 512w\" data-sizes=\"auto\">\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">In the <strong>Experiment overview page<\/strong> under Guided Assay Results select <strong>Create New Result<\/strong>.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\"><strong>Choose the type<\/strong> of analysis in the pop up window and name the new result.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">Tick<strong> copy image analysis<\/strong> from and select the experiment to copy from. This will copy the image analysis settings from the selected result including all changes.<\/p>\n      <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25ba For further data analysis steps, please see the respective assay protocol.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\"><strong>Press create<\/strong>.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h2 class=\"wp-block-heading alignwide\" id=\"h-generating-in-depth-assay-results-1\">Generating In-depth Assay results<\/h2>\n\n<div class=\"wp-block-group alignwide is-style-restart-numbering is-layout-flow wp-block-group-is-layout-flow block-editor-block-list__layout\">\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-style-lightbox is-style-border floated-parent block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" style=\"--phi-media-width:1024px;--phi-media-height:552px;--phi-aspect-ratio:1.8550724637681;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <div class=\"lightbox-image-wrapper\">\n        <img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/phiab.com\/wp-content\/themes\/phi-xxvi\/images\/placeholder.svg\" alt=\"cell quality control assay protocell quality control assay reanlysis\" class=\"wp-image-31685 size-full lazyload figure__media\" width=\"1024\" height=\"552\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-1024x552.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-1024x552.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide11-1.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">In the <strong>Experiment overview page<\/strong> select the<br>In-depth application icon for wanted result.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second block-editor-block-list__last\"><strong>Follow <\/strong>the respective assay protocol.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<div class=\"wp-block-buttons is-horizontal is-content-justification-center is-layout-flex wp-container-core-buttons-layout-2 wp-block-buttons-is-layout-flex\">\n  <div class=\"wp-block-button\">\n    <a class=\"wp-block-button__link wp-element-button\" href=\"https:\/\/phiab.com\/reports\/AppSuite-4.0\/AppSuite-protocol-cell-quality-control.pdf\">Download this protocol<\/a>\n  <\/div>\n<\/div>","protected":false},"excerpt":{"rendered":"The HoloMonitor\u00ae Cell Quality Control assay can be used to ensure the cell count and\/ or confluence, or as a tool to detect undesired cell changes.","protected":false},"author":16,"featured_media":21182,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"ub_ctt_via":"","footnotes":""},"categories":[6157],"tags":[],"featured_image_src":"https:\/\/phiab.com\/wp-content\/uploads\/2020\/08\/cell-qc.jpg","author_info":{"display_name":"Haoran Yu","author_link":"https:\/\/phiab.com\/author\/hy\/"},"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v21.6 (Yoast SEO v21.6) - 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