Coding for multiplexed fluorescence microscopy

US12131498B2 · kind B2 · utility

Assignees

• The Broad Institute, Inc. · US
• Massachusetts Institute of Technology · US
• Yeda Research and Development Co. LTD. of Weizmann Institute of Science · IL
• National University of Ireland Maynooth · IE

Inventors

• Mehrtash Babadi · Cambridge, US
• Luca D'Alessio · Cambridge, US
• Muriel Medard · Belmont, US
• Ken Duffy · Maynooth, IE
• Yonina Eldar · Haifa, IL
• Litian Liu · Beijing, CN

Key dates

• Filing date: Apr 27, 2022
• Grant date: Oct 29, 2024
• Expiry date: May 10, 2043

Classification

• Technology area (CPC G): Physics
• CPC primary: G06T2207/30242
• WIPO field: Measurement
• WIPO sector: Instruments

Abstract

A way to design a codebook for estimating the type of a molecule at a particular location in a fluorescence microscopy image makes use of one or both of (1) knowledge of the non-uniform prior distribution of molecule types (i.e., some types are known a priori to occur more frequently than others) and/or knowledge of co-occurrence of molecule types at close locations (e.g., in a same cell); and (2) knowledge of a model of the (e.g., random) process that yields the intensities that are expected at a location when a molecule with a particular subset of markers (i.e., a molecule of a type that has been assigned a codeword that defines that subset) is present at that location. The codebook design may provide experimental efficiency by reducing the number of images that need to be acquired and/or improve classification or detection accuracy by making the codewords for different molecule types more distinctive.