Supported Assay Types

Currently the Enable Medicine Cloud Platform supports 8, 16, and 32 bit images for several microscopy assay types:

Enable Medicine Name	External System Name	Additional info	Image Dimensions	File Extension
PhenoCycler	PhenoCycler (formerly CODEX)	Akoya’s high-plex imaging platform, uses oligonucleotide conjugated antibodies and iterative rounds of imaging to achieve high plex	Timestep, Channel, Y Value, X Value (TCYX). The timestep for PhenoCycler images are called “Cycles”. There are 4 channels per cycle. In other words the image is TCYX, where C equals 4.

We also accept Channel, Y Value, X Value (CYX) images. | .tif, .ome.tif, .qptiff | | PhenoImager HT | PhenoImager HT (Formerly Vectra Polaris) | Akoya’s 8-plex imaging platform, uses spectral deconvolution of fluorophores to acheive high plex | Channel, Y Value, X Value (CYX). | .tif, .ome.tif, .qptiff | | Imaging Mass Cytometry (Standard BioTools IMC, Ionpath MiBi) | Standard Biotools (Formerly Fluidigm) Hyperion+ Imaging Mass Cytometry

IonPath Multiplexed Ion Beam Imaging (MIBI) | Standard BioTools’s multiplexed imaging platform, uses heavy metal conjugated antibodies to achieve high plex | Channel, Y Value, X Value (CYX). | .tif, .ome.tif, .qptiff | | General Fluorescence Microscopy | General Fluorescence Microscopy | | Channel, Y Value, X Value (CYX). Please do not submit images with additional dimensions such Z planes, Timesteps, or Cycles to this category. | .tif, .ome.tif, .qptiff | | Hematoxylin and Eosin (H&E) | Hematoxylin and Eosin (H&E) | | Please submit 3-channel RGB (Red, Green, Blue) images. | .tif, .ome.tif, .qptiff | | Immunohistochemistry (IHC) | Immunohistochemistry (IHC) | | Please submit 3-channel RGB (Red, Green, Blue) images. | .tif, .ome.tif, .qptiff |

Clarification of terminology

CODEX is the biochemical technology used on the tissue
PhenoCycler is the fluidics robot that automates that technology during data generation
Fusion is Akoya’s proprietary microscope, which can be used with both PhenoCycler and PhenoImager
The instrumentation formerly known as “CODEX” (and now known as “PhenoCycler-Open”) is a PhenoCycler interacting with a microscope of our choice, in this case one made by the company Keyence

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