{"id":31793,"date":"2021-10-28T13:52:43","date_gmt":"2021-10-28T11:52:43","guid":{"rendered":"https:\/\/phiab.com\/?p=31793"},"modified":"2023-11-01T11:07:38","modified_gmt":"2023-11-01T10:07:38","slug":"single-cell-tracking-assay-protocol","status":"publish","type":"post","link":"https:\/\/phiab.com\/protocol\/single-cell-tracking-assay\/","title":{"rendered":"Single Cell Tracking Assay Protocol"},"content":{"rendered":"<div id=\"top\" 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\" 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=\"Black image showing tracked single cells with colored trajectories\" class=\"wp-image-25893 lazyload figure__media\" data-media-id=\"25893\" width=\"1536\" height=\"512\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-300x100.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-1024x341.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-768x256.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-150x50.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-512x171.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/03\/sct-banner-1280x427.jpg 1280w\" data-sizes=\"auto\"><figcaption class=\"wp-element-caption\">Cell tracks created by the HoloMonitor Cell Tracking Software<\/figcaption>\n  <\/figure>\n  <div class=\"wp-block-columns alignfull 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-vertically-aligned-bottom is-style-default 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:15%;\"><\/div>\n    <div class=\"wp-block-column is-vertically-aligned-center 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:70%;\">\n      <h1 class=\"wp-block-heading has-text-align-center is-style-default has-white-color has-transparent-black-background-color has-text-color has-background has-huge-font-size block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\" id=\"h-single-cell-tracking-assay-protocol\" style=\"font-weight:600;\">\n        <strong>Single Cell Tracking Assay Protocol<\/strong>\n      <\/h1>\n    <\/div>\n    <div class=\"wp-block-column is-vertically-aligned-center 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:15%;\"><\/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 single-cell analysis and tracking icon\" class=\"wp-image-14785 size-full lazyload figure__media\" data-media-id=\"14785\" width=\"150\" height=\"150\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2019\/08\/cell-tracking-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\/applications\/single-cell-tracking\">Single Cell Tracking <\/a>using <a href=\"https:\/\/phiab.com\/holomonitor\/\">HoloMonitor\u00ae M4<\/a> and the HoloMonitor\u00ae <a href=\"https:\/\/phiab.com\/holomonitor\/cell-imaging-software\">App Suite software<\/a>. The HoloMonitor\u00ae Single Cell Tracking facilitates label-free characterization of heterogeneous live cell behavior overtime on an individual cell level. The <a href=\"https:\/\/phiab.com\/applications\/single-cell-tracking\/\">HoloMonitor\u00ae Single Cell Tracking<\/a> can also be used to analyse fluorescence data obtained with <a href=\"https:\/\/phiab.com\/holomonitor\/fluorescence\/\">HoloMonitor\u00ae M4FL<\/a>, for more information see <a href=\"https:\/\/phiab.com\/protocol\/fluorescence-capture\/\">HoloMonitor\u00ae Fluorescence Capture<\/a> protocol.<\/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-single-cell-tracking.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\"><strong>Culture vessel<\/strong> of choice with cells<\/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\"><strong>Vessel holder<\/strong> 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>Plots of cell movement<\/strong> and <strong>morphological features<\/strong> over time<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__second\">\n          <strong>Interactive cell family trees<\/strong>\n        <\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__last\"><strong>Calculation spread sheets <\/strong>of all data including graphs and population averages<\/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\"><li class=\"block-editor-block-list__block block-editor-block-list__first\">\n              <a href=\"https:\/\/phiab.com\/holomonitor\/cell-qc-assay\/?swcfpc=1\">Cell Quality Control<\/a>\n            <\/li>\n            <li class=\"block-editor-block-list__block block-editor-block-list__second\">\n              <a href=\"https:\/\/phiab.com\/holomonitor\/cell-proliferation-assay\/\">Kinetic Cell Proliferation<\/a>\n            <\/li>\n            <li class=\"block-editor-block-list__block\">\n              <a href=\"https:\/\/phiab.com\/applications\/kinetic-motility\/?swcfpc=1\">Kinetic Cell Motility<\/a>\n            <\/li>\n            <li class=\"block-editor-block-list__block block-editor-block-list__last\">\n              <a href=\"https:\/\/phiab.com\/applications\/dose-response\/?swcfpc=1\">Kinetic Dose Response<\/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\"><li class=\"block-editor-block-list__block block-editor-block-list__first\">\n              <a href=\"https:\/\/phiab.com\/applications\/single-cell-tracking\/?swcfpc=1\">Single Cell Tracking<\/a>\n            <\/li>\n            <li class=\"block-editor-block-list__block block-editor-block-list__second 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<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-steps\">Steps<\/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-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>5&nbsp;% confluence<\/strong> (ca. 6000 \u2013 11000&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 auto-calibration. 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: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 morphology assay protocol overview\" class=\"wp-image-31579 size-full lazyload figure__media\" width=\"1024\" height=\"553\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-1024x553.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-1024x553.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-768x415.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide1-6.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> Single Cell Tracking Assay<\/strong> and proceed by clicking the<strong> Setup Capture <\/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=\"Single-cell-tracking-assay-protocol-setup\" class=\"wp-image-31806 size-full lazyload figure__media\" width=\"1024\" height=\"553\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-1024x553.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-1024x553.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-1536x829.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-1280x691.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup.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. It is possible to add wells as <strong>individual treatments<\/strong>. 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: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=\"Single-cell-tracking-assay-protocol-setup-tab\" class=\"wp-image-31807 size-full lazyload figure__media\" width=\"1024\" height=\"550\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-1024x550.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-1024x550.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-300x161.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-768x413.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-512x275.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-1536x826.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab-1280x688.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-tab.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\">Adjust the default settings for <strong>duration<\/strong> and <strong>interval.<\/strong><\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\">Add<strong> capture positions<\/strong>: The position list is open by default. Click positions on the vessel map and add them to the position list with the <strong>Add current location button<\/strong>. In case the image quality is poor, a warning sign appears. <strong>Adjust focus or position location <\/strong>if necessary.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">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\">Run a full or quick <strong>validation <\/strong>of the selected positions to ensure <strong>good image quality<\/strong>.<\/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-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:554px;--phi-aspect-ratio:1.8483754512635;\"><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=\"Single-cell-tracking-assay-protocol-capture\" class=\"wp-image-31808 size-full lazyload figure__media\" width=\"1024\" height=\"554\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-1024x554.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-1024x554.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-768x416.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-512x277.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-1536x831.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture-1280x693.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-capture.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-indented wp-block-paragraph block-editor-block-list__block\">\u25ba Wait for the experiment to finish before starting the In-depth Analysis.<\/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:576px;--phi-aspect-ratio:1.7777777777778;\"><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=\"Single-cell-tracking-assay-protocol-results-setup\" class=\"wp-image-31810 size-full lazyload figure__media\" width=\"1024\" height=\"576\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-1024x576.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-setup.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: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 morphology assay protocol experiments overview\" class=\"wp-image-31584 size-full lazyload figure__media\" width=\"1024\" height=\"552\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-1024x552.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-1024x552.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4.jpg 1280w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Slide6-4.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\">See the experiment <strong>summary<\/strong>, view all <strong>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\">Generate <strong>in-depth analysis<\/strong> data from the captured images by clicking on the<strong> Single Cell Tracking<\/strong> icon. A <strong>new window<\/strong> for in-depth analysis will open.<\/p>\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\"><strong>Create New Guided Assay Results <\/strong>from this experiment by clicking the respective button.<\/p>\n    <\/div>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-in-depth-analysis-identify-cells-tab\">In-depth analysis \u2014 identify cells 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:178px;--phi-aspect-ratio:5.752808988764;\">\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=\"Single-cell-tracking-assay-protocol-reanalysis\" class=\"wp-image-31813 lazyload figure__media\" width=\"1024\" height=\"178\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-1024x178.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-1024x178.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-300x52.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-768x134.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-150x26.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-512x89.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-1536x267.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis-1280x223.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-reanalysis.jpg\">\n      <\/div><figcaption class=\"wp-element-caption\">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 Setup and Operation Manual.<\/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\">First step for morphology analysis is to identify the cells.<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__second\">The software automatically calculates cell count and confluence of each image.<\/li>\n    <li class=\"block-editor-block-list__block block-editor-block-list__last\">Review the image quality and include\/ exclude images from results analysis. See the<strong> <\/strong><a href=\"https:\/\/phiab.com\/protocol\/image-quality-guide\/\">Image quality guide<\/a> for more information.<\/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:576px;--phi-aspect-ratio:1.7777777777778;\">\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=\"Single-cell-tracking-assay-protocol-in-depth-analysis\" class=\"wp-image-31814 lazyload figure__media\" width=\"1024\" height=\"576\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-1024x576.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-in-depth-analysis.jpg\">\n      <\/div><figcaption class=\"wp-element-caption\">It is important for in-depth analysis that cell identification is done correctly. Thus, the more thoroughly the segmentation is performed, the better analysis results are in the following steps.<br>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\"><p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first\">Start by selecting a <strong>frame of interest<\/strong>, so the image is displayed. You can alter the viewing options.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__second\"><strong>Adjust <\/strong>the background <strong>threshold <\/strong>and <strong>object size<\/strong> so the mask best fits the cell segmentation and click. <strong>Apply <\/strong>(Current\/ Checked\/ All) to fix the settings to the frames and to display the <strong>automatic calculation <\/strong>of<strong> cell count (#\/frame) <\/strong>and <strong>confluence (%).<\/strong><\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Manual changes<\/strong> are possible. Add\/remove or grow\/ shrink a cell, delete a cell area or draw a cell area yourself. These changes will <strong>only <\/strong>be saved to the <strong>currently selected image<\/strong>.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Check <\/strong>cell segmentation for some images in the beginning, middle, and end of the experiment to make sure the applied threshold fits. Scrolling through the image list and checking for abnormal jumps in cell count or confluence values may help as well to see if adjustments are necessary.<\/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 on the<strong> Single Cell Tracking<\/strong> tab to begin analysis.<\/p>\n  <\/div>\n<\/div>\n\n<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-in-depth-analysis-wound-healing-tab\">In-depth analysis \u2014 Wound healing 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\"><div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile 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:530px;--phi-aspect-ratio:1.9320754716981;\"><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=\"Single-cell-tracking-assay-protocol-analysis\" class=\"wp-image-31815 size-full lazyload figure__media\" width=\"1024\" height=\"530\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-1024x530.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-1024x530.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-300x155.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-768x397.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-150x78.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-512x265.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-1536x794.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis-1280x662.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-analysis.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\">Review the image quality and include\/ exclude images from results analysis. See the<strong> Image quality guide <\/strong>for more information.<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__second\">For further analysis all results can be exported.<\/li>\n        <li class=\"block-editor-block-list__block block-editor-block-list__last\">For more details, see the<strong> Setup and Operation manual<\/strong>.<\/li>\n      <\/ul>\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\">Click <strong>New Analysis<\/strong> to start a new tracking analysis or<br>load a previous one by clicking the Open button.<\/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\"><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:576px;--phi-aspect-ratio:1.7777777777778;\">\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=\"Single-cell-tracking-assay-protocol-adjustment\" class=\"wp-image-31816 lazyload figure__media\" width=\"1024\" height=\"576\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-1024x576.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-adjustment.jpg\">\n        <\/div><figcaption class=\"wp-element-caption\">Analysis tips:<br>\u2022 Always start resolving warnings by adjusting cell identification. If this step fails, only then adjust tracking manually.<br>\u2022 Use the Auto Track function after manual track adjustments.<\/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\"><strong>Add <\/strong>at least <strong>two frames<\/strong> to the analysis using the Add Selected\/ Add Checked\/ Add All button.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>The software <\/strong>automatically tracks all the cells in the included frames from a time-lapse.<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25ba At the top left corner, there is a <strong>summary <\/strong>of the number of cell and cell families tracked.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">Use the<strong> timeline slider <\/strong>to view cell tracks over time in the time-lapse and evaluate cell tracking status.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\"><strong>Include <\/strong>and <strong>exclude <\/strong>cells and\/or cell families in the tracking by checking\/unchecking tick boxes in the <strong>tracked cells<\/strong> list.<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25ba <strong>Tracking information<\/strong> and <strong>cell features<\/strong> for cells and\/or cell families included in tracked cells list will be added to the <strong>Excel export<\/strong> file.<\/p>\n    <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block\">A list of <strong>possible warnings<\/strong> resulting from tracking issues such as cells leaving the field of view, overlapping, or dividing. Resolve the warnings by:<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">6.1. first <strong>adjusting <\/strong>specific cell and or full-frame <strong>segmentation <\/strong>using <strong>Identify cells <\/strong>functions.<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">\u25ba Segmentation changes created here are applied globally and can influence the results in other In-depth assays.<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block\">6.2. then <strong>adjusting tracks<\/strong> manually. For more details on each button function, see the <strong>Setup and Operation manual<\/strong>, or <strong>choose <\/strong>to <strong>ignore <\/strong>the warning.<\/p>\n    <p class=\"is-style-indented wp-block-paragraph block-editor-block-list__block block-editor-block-list__last\">\u25ba <strong>Repeat <\/strong>steps 6.1. to 6.3. until all warnings are resolved and cell tracks are correct.<\/p>\n  <\/div>\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-style-border is-style-lightbox floated-parent block-editor-block-list__block\" style=\"--phi-media-width:1024px;--phi-media-height:576px;--phi-aspect-ratio:1.7777777777778;\"><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=\"Single-cell-tracking-assay-protocol-cell-movement-plot\" class=\"wp-image-31819 size-full lazyload figure__media\" width=\"1024\" height=\"576\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-1024x576.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-movement-plot.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\"><strong>Export <\/strong>the tracking data to <strong>Excel<\/strong>.<strong> Cell features<\/strong> for cells and cell families included in step 5&nbsp;are exported. The exported file can <strong>include<\/strong> cell feature averages, cell feature data for all individually tracked cells and cell families, as well as cell movement and cell tree plots.<\/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>Save <\/strong>tracking analysis to return to it later.<\/p>\n    <\/div>\n  <\/div>\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile is-style-border is-style-lightbox floated-parent block-editor-block-list__block\" style=\"--phi-media-width:1536px;--phi-media-height:864px;--phi-aspect-ratio:1.7777777777778;\"><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=\"Single-cell-tracking-assay-protocol-cell-feature\" class=\"wp-image-31821 size-phi-banner lazyload figure__media\" width=\"1536\" height=\"864\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-1536x864.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-feature.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>Cell movement plot tab<\/strong>, the tracking data for the selected cells and\/or cell families are displayed in a plot showing the cell track traces. Plots can be saved and scale\/display options can be changed.<\/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\">In the <strong>Cell feature plot tab<\/strong>, cell feature changes of selected cells and\/or cell families can be viewed over time. Select the feature of interest from the drop-down list. Plots can be saved and scale\/display options can be changed.<\/p>\n    <\/div>\n  <\/div>\n  <div class=\"wp-block-media-text alignwide has-media-on-the-right is-stacked-on-mobile 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:576px;--phi-aspect-ratio:1.7777777777778;\"><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=\"Single-cell-tracking-assay-protocol-cell-tree\" class=\"wp-image-31822 size-full lazyload figure__media\" width=\"1024\" height=\"576\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-1024x576.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-1024x576.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-300x169.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-768x432.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-320x180.jpg 320w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-512x288.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-150x84.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-1536x864.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree-1280x720.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-cell-tree.jpg\">\n      <\/div>\n    <\/figure><div class=\"wp-block-media-text__content block-editor-block-list__layout\">\n      <p class=\"is-style-box-numbered wp-block-paragraph block-editor-block-list__block block-editor-block-list__first block-editor-block-list__last\">In the <strong>Cell tree plot tab<\/strong>, cell family trees for selected cell families feature changes of selected cell families are shown. Plots can be saved and scale\/display options can be changed.<\/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 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:768px;--phi-aspect-ratio:1.3333333333333;\"><figure class=\"wp-block-media-text__media is-landscape floating-element\">\n      <a href=\"https:\/\/phiab.com\/holomonitor\/live-cell-assays\/?swcfpc=1\" class=\"figure__media figure__media-link\">\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=\"Single-cell-tracking-assay-protocol-setup-reanalysis-icons\" class=\"wp-image-31823 size-medium_large lazyload\" width=\"1024\" height=\"768\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-1024x768.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-1024x768.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-300x225.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-768x576.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-150x112.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-512x384.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons-1280x960.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons.jpg 1438w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-setup-reanalysis-icons.jpg\">\n        <\/div><\/a>\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 In-depth application icon for the 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<h3 class=\"wp-block-heading alignwide has-small-large-font-size\" id=\"h-generating-guided-assay-results\">Generating Guided Assay results<\/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-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:553px;--phi-aspect-ratio:1.8517179023508;\">\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=\"Single-cell-tracking-assay-protocol-results-analysis\" class=\"wp-image-31825 lazyload figure__media\" width=\"1024\" height=\"553\" data-src=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-1024x553.jpg\" data-srcset=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-1024x553.jpg 1024w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-300x162.jpg 300w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-768x414.jpg 768w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-150x81.jpg 150w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-512x276.jpg 512w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-1536x829.jpg 1536w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis-1280x691.jpg 1280w, https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis.jpg 1920w\" data-sizes=\"auto\" data-full-url=\"https:\/\/phiab.com\/wp-content\/uploads\/2021\/10\/Single-cell-tracking-assay-protocol-results-analysis.jpg\">\n      <\/div><figcaption class=\"wp-element-caption\">When creating a New Guided Assay result from the Single Cell Tracking experiment &#8211; the first analysis will take some time, as the software needs to evaluate image quality and perform image analysis.<\/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\"><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> <strong>from <\/strong>and <strong>select <\/strong>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\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-single-cell-tracking.pdf\">Download this protocol<\/a>\n  <\/div>\n<\/div>","protected":false},"excerpt":{"rendered":"The HoloMonitor\u00ae Single Cell Tracking facilitates label-free characterization of heterogeneous live cell behavior overtime on an individual cell level.","protected":false},"author":16,"featured_media":25893,"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\/2021\/03\/sct-banner.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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