Animal Health – Karl A. Deisseroth, William E. Allen, Brian HSUEH, Li Ye, Leland Stanford Junior University
Abstract for “Methods and Systems for Imaging and Analyzing Biological Specimens”
The present disclosure describes methods for preparing biological specimens for imaging analysis. This includes fixing and clearing the specimen, and then analyzing the specimen with microscopy. Methods of quantifying cells are also included, such as the ability to determine active populations of cells that respond to stimulants. These methods can also be practiced using the devices described in the present disclosure. A flow-assisted clearing apparatus allows for rapid clearance of hydrogel-embedded biological specimens, without the use of special equipment like perfusion or electrophoresis.
Background for “Methods and Systems for Imaging and Analyzing Biological Specimens”
“Methods”
“Fixing”
“Clearing”
“Post-clearing”
“Suitable Specimens”
“Microscopic Analysis”
“Image Processing”
“Image Registration”
“Cell Quantification and Location”
“Cohort-scale Analysis”
“Devices and Systems.”
“Clearing Device”
“Flow-assisted Clearing device”
“Sample Chamber”
“Sample Holder”
“Buffer Circulator”
“Buffer Filter Component”
“Parallelized Devices”
“Automated Cell Quantification Systems.”
“Applications”
“EXAMPLES”
“Materials & Methods:
“Animals”
“Virus and Injection”
“Constructs and viruses”
“Stereotaxic Surgery”
“ArcTRAP Labeling”
“Activity-dependent Ribosome Labeling
“CLARITY Processing”
“Light-sheet Imaging”
“Image Processing and Visualization.”
“Registration and Quantification (TRAP Analys)”
“Histology”
“Ribosome Profiling”
“QPCR and Gene Expression Analysis.”
“Cell Culture and In Vitro Activity Testing.”
“In Vivo Optrode Recording”
Preference for “Real-time Conditioned” Places
“Statistics”
“Example 1”
“Behavioral Cohort-scale Whole Brain Activity Mapping”
“Example 2”
“Molecular Signature of Experience-defined, mPFC Neurons Pre-existing Population”
“Example 3”
“Cocaine and shock-activated populations control appetiteive and aversive behaviors”
Summary for “Methods and Systems for Imaging and Analyzing Biological Specimens”
“Methods”
“Fixing”
“Clearing”
“Post-clearing”
“Suitable Specimens”
“Microscopic Analysis”
“Image Processing”
“Image Registration”
“Cell Quantification and Location”
“Cohort-scale Analysis”
“Devices and Systems.”
“Clearing Device”
“Flow-assisted Clearing device”
“Sample Chamber”
“Sample Holder”
“Buffer Circulator”
“Buffer Filter Component”
“Parallelized Devices”
“Automated Cell Quantification Systems.”
“Applications”
“EXAMPLES”
“Materials & Methods:
“Animals”
“Virus and Injection”
“Constructs and viruses”
“Stereotaxic Surgery”
“ArcTRAP Labeling”
“Activity-dependent Ribosome Labeling
“CLARITY Processing”
“Light-sheet Imaging”
“Image Processing and Visualization.”
“Registration and Quantification (TRAP Analys)”
“Histology”
“Ribosome Profiling”
“QPCR and Gene Expression Analysis.”
“Cell Culture and In Vitro Activity Testing.”
“In Vivo Optrode Recording”
Preference for “Real-time Conditioned” Places
“Statistics”
“Example 1”
“Behavioral Cohort-scale Whole Brain Activity Mapping”
“Example 2”
“Molecular Signature of Experience-defined, mPFC Neurons Pre-existing Population”
“Example 3”
“Cocaine and shock-activated populations control appetiteive and aversive behaviors”
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