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University of Iowa

31 ARTICLES PUBLISHED IN JoVE

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Biology

Fertilization of Xenopus oocytes using the Host Transfer Method
Patricia N. Schneider 1, Alissa M. Hulstrand 1, Douglas W. Houston 1
1Department of Biology, University of Iowa

Procedure for fertilizing Xenopus oocytes by the host transfer method.

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Immunology and Infection

In vivo Imaging of Transgenic Leishmania Parasites in a Live Host
Colin J. Thalhofer 1, Joel W. Graff 2, Laurie Love-Homan 3, Suzanne M. Hickerson 4, Noah Craft 5, Stephen M. Beverley 4, Mary E. Wilson 6,7
1Interdisciplinary Immunology Program, University of Iowa, and the VA Medical Center, 2Department of Biochemistry, University of Iowa, and the VA Medical Center, 3Department of Internal Medicine, University of Iowa, 4Department of Molecular Microbiology, Washington University School of Medicine, 5Division of Dermatology, Harbor-UCLA Medical Center, Hanley-Hardison Research Center, 6Interdisciplinary Immunology Program, Iowa City VA Medical Center, 7Departments of Internal Medicine, Microbiology and Epidemiology, University of Iowa

An in vivo imaging system is used to generate quantitative measurements of murine infection with the Trypanosomatid protozoan Leishmania. This is a non-invasive and non-lethal method for detecting parasites expressing luciferase within many tissues throughout the course of chronic Leishmania spp. infection.

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Neuroscience

Combining Lipophilic dye, in situ Hybridization, Immunohistochemistry, and Histology
Jeremy Duncan 1, Jennifer Kersigo 1, Brian Gray 2, Bernd Fritzsch 1
1Department of Biology, University of Iowa, 2Molecular Targeting Technologies, Inc.

A combination of different techniques to maximize data collection from mouse tissue is presented.

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Medicine

Dissection of Human Vitreous Body Elements for Proteomic Analysis
Jessica M. Skeie 1, Vinit B. Mahajan 1
1Department of Ophthalmology and Visual Sciences, Omics Laboratory, University of Iowa

This video shows an effective technique for differentiating and dissecting the various semi-transparent structures of the human vitreous body in post mortem eyes.

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Biology

Evisceration of Mouse Vitreous and Retina for Proteomic Analyses
Jessica M. Skeie 1,2, Stephen H. Tsang 3, Vinit B. Mahajan 1,2
1Omics Laboratory, University of Iowa, 2Ophthalmology and Visual Sciences, University of Iowa, 3Harkness Eye Institute, Columbia University College of Physicians and Surgeons

The dissection technique illustrates evisceration of the vitreous, retina, and lens from the mouse eye, separation by centrifugation, and characterization with protein assays.

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Medicine

Mouse Eye Enucleation for Remote High-throughput Phenotyping
Vinit B. Mahajan 1,2, Jessica M. Skeie 1,2, Amir H. Assefnia 2,3, MaryAnn Mahajan 1,2, Stephen H. Tsang 2,4
1Department of Ophthalmology and Visual Sciences, University of Iowa, 2Omics Laboratory, University of Iowa, 3School of Dentistry, UCLA, 4Bernard and Shirlee Brown Glaucoma Laboratory, Department of Ophthalmology, College of Physicians and Surgeons, Columbia University

The dissection technique illustrates enucleation of the mouse eye for tissue fixation to perform phenotyping in high-throughput screens.

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Bioengineering

Observing and Quantifying Fibroblast-mediated Fibrin Gel Compaction
Aribet M. De Jesús 1, Edward A. Sander 1
1Department of Biomedical Engineering, University of Iowa

Time-lapse microscopy and image processing techniques were used to observe and analyze fibroblast-mediated gel compaction and fibrin fiber realignment in an environmentally controlled bioreactor over a 48 hr period.

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Biology

Aip1p Dynamics Are Altered by the R256H Mutation in Actin
Alyson R. Pierick 1, Melissa McKane 2, Kuo-Kuang Wen 2, Heather L. Bartlett 1,2
1Department of Pediatrics, Roy J. and Lucille A. Carver College of Medicine, University of Iowa, 2Department of Biochemistry, Roy J. and Lucille A. Carver College of Medicine, University of Iowa

Disease-causing mutations in actin can alter cytoskeletal function. Cytoskeletal dynamics are quantified through imaging of fluorescently tagged proteins using total internal fluorescence microscopy. As an example, the cytoskeletal protein, Aip1p, has altered localization and movement in cells expressing the mutant actin isoform, R256H.

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Neuroscience

In Vivo Functional Brain Imaging Approach Based on Bioluminescent Calcium Indicator GFP-aequorin
Arianna R. Lark 1,2, Toshihiro Kitamoto 2,3, Jean-René Martin 1
1Equipe: Imagerie Cérébrale Fonctionnelle et Comportements (ICFC), Institut des Neurosciences Paris-Saclay (Nero-PSI), UMR-9197, CNRS/Université Paris Sud, 2Interdisciplinary Program in Neuroscience, Graduate College, University of Iowa, 3Department of Anesthesia, Carver College of Medicine, University of Iowa

Here we present a novel Ca2+-imaging approach using a bioluminescent reporter. This approach uses a fused construct GFP-aequorin which binds to Ca2+ and emits light, eliminating the need for light excitation. Significantly this method permits long continuous imaging, access to deep brain structures and high temporal resolution.

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Biochemistry

Dissection of Human Retina and RPE-Choroid for Proteomic Analysis
Thiago Cabral *1,2,7,8, Marcus A. Toral *3,4, Gabriel Velez 3,4, James E. DiCarlo 1,2, Anuradha M. Gore 3, MaryAnn Mahajan 3, Stephen H. Tsang 1,2, Alexander G. Bassuk 5,6, Vinit B. Mahajan 3,9
1Barbara & Donald Jonas Stem Cell Laboratory, and Bernard & Shirlee Brown Glaucoma Laboratory, Department of Pathology & Cell Biology, Institute of Human Nutrition, College of Physicians and Surgeons, Columbia University, 2Edward S. Harkness Eye Institute, New York-Presbyterian Hospital, 3Omics Laboratory, Byers Eye Institute, Department of Ophthalmology, Stanford University, 4Medical Scientist Training Program, University of Iowa, 5Department of Pediatrics, University of Iowa, 6Department of Neurology, University of Iowa, 7Department of Ophthalmology, Federal University of Sao Paulo (UNIFESP), 8Department of Ophthalmology, Federal University of EspÍrito Santo (UFES), 9Palo Alto Veterans Administration, Palo Alto, CA

The human retina is composed of functionally and molecularly distinct regions, including the fovea, macula, and peripheral retina. Here, we describe a method using punch biopsies and manual removal of tissue layers from a human eye to dissect and collect these distinct retinal regions for downstream proteomic analysis.

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Biochemistry

A Yeast 2-Hybrid Screen in Batch to Compare Protein Interactions
Tabitha A. Peterson 1, Mark A. Stamnes 1, Robert C. Piper 1
1Molecular Physiology and Biophysics, University of Iowa

Batch processing of yeast 2-hybrid screens allows for direct comparison of the interaction profiles of multiple bait proteins with a highly complex set of prey fusion proteins. Here, we describe refined methods, new reagents, and how to implement their use for such screens.

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Genetics

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
Venkatramanan Krishnamani 1, Tabitha A. Peterson 1, Robert C. Piper 1, Mark A. Stamnes 1
1Molecular Physiology and Biophysics, University of Iowa

Deep sequencing of yeast populations selected for positive yeast 2-hybrid interactions potentially yields a wealth of information about interacting partner proteins. Here, we describe the operation of specific bioinformatics tools and customized updated software to analyze sequence data from such screens.

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JoVE Journal

Combining Volumetric Capnography And Barometric Plethysmography To Measure The Lung Structure-function Relationship
McKayla Seymour 1, Elizabeth Pritchard 1, Hassan Sajjad 2, Erik P. Tomasson 2, Cole M. Blodgett 1, Harold Winnike 4, Oana V. Paun 3, Michael Eberlein 2, Melissa L. Bates 1,4
1Department of Health and Human Physiology, Department of Internal Medicine, University of Iowa, 2Pulmonary, Critical Care and Occupational Medicine Division, University of Iowa, 3Hematology, Oncology and Bone Marrow Transplant Division, University of Iowa, 4Institute for Clinical and Translational Science and Stead Family Department of Pediatrics, University of Iowa

Here, we describe two measures of pulmonary function – barometric plethysmography, which allows the measurement of lung volume, and volumetric capnography, a tool to measure the anatomic dead space and airways uniformity. These techniques may be used independently or combined to assess airways function at different lung volumes.

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Genetics

Lentiviral Mediated Gene Silencing in Human Pseudoislet Prepared in Low Attachment Plates
Siming Liu 1,2, Mikako Harata 1,2, Joseph A. Promes 1,2, Anthony J. Burand 2,3, James A. Ankrum 2,3, Yumi Imai 1,2
1Department of Internal Medicine, Carver College of Medicine, University of Iowa, 2Fraternal Order of Eagles Diabetes Research Center, University of Iowa, 3Roy J. Carver Department of Biomedical Engineering, University of Iowa

A protocol to create gene modified human pseudoislets from dispersed human islet cells that are transduced by lentivirus carrying short hairpin RNA (shRNA) is presented. This protocol utilizes readily available enzyme and culture vessels, can be performed easily, and produces genetically modified human pseudoislets suitable for functional and morphological studies.

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Biology

Microbiota Analysis Using Two-step PCR and Next-generation 16S rRNA Gene Sequencing
Shailesh K. Shahi 1, Kasra Zarei 2, Natalya V. Guseva 1, Ashutosh K. Mangalam 1,2,3,4
1Department of Pathology, University of Iowa, 2Medical Scientist Training Program, University of Iowa, 3Graduate Program in Immunology, University of Iowa, 4Graduate Program in Molecular Medicine, University of Iowa

Described here is a simplified standard operating procedure for microbiome profiling using 16S rRNA metagenomic sequencing and analysis using freely available tools. This protocol will help researchers who are new to the microbiome field as well as those requiring updates on methods to achieve bacterial profiling at a higher resolution.

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Genetics

Identification of Host Pathways Targeted by Bacterial Effector Proteins using Yeast Toxicity and Suppressor Screens
Robert Faris 1, Mary M. Weber 1
1Department of Microbiology and Immunology, University of Iowa

Bacterial pathogens secrete proteins into the host that target crucial biological processes. Identifying the host pathways targeted by bacterial effector proteins is key to addressing molecular pathogenesis. Here, a method using a modified yeast suppressor and toxicity screen to elucidate host pathways targeted by toxic bacterial effector proteins is described.

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Environment

Microalgae Cultivation and Biomass Quantification in a Bench-Scale Photobioreactor with Corrosive Flue Gases
Hannah R. Molitor 1, Deborah E. Williard 1, Jerald L. Schnoor 1
1Department of Civil and Environmental Engineering, University of Iowa

Bench-scale, axenic cultivation facilitates microalgal characterization and productivity optimization before subsequent process scale-up. Photobioreactors provide the necessary control for reliable and reproducible microalgal experiments and can be adapted to safely cultivate microalgae with the corrosive gases (CO2, SO2, NO2) from municipal or industrial combustion emissions.

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Medicine

Cooling or Warming the Esophagus to Reduce Esophageal Injury During Left Atrial Ablation in the Treatment of Atrial Fibrillation
Jason Zagrodzky 1, Mark M. Gallagher 2, Lisa W. M. Leung 2, Tiffany Sharkoski 3, Pasquale Santangeli 4, Cory Tschabrunn 4, Jose M. Guerra 5, Bieito Campos 5, John MacGregor 6, Jamal Hayat 2, Brad Clark 7, Alex Mazur 8, Marcel Feher 9, Martin Arnold 9, Mark Metzl 10, Jose Nazari 10, Erik Kulstad 11
1St. David's South Austin Medical Center, 2St George's University Hospitals NHS Foundation Trust, St. George's, University of London, 3Hospital of the University of Pennsylvania, Perelman Center for Advanced Medicine, 4University of Pennsylvania Perelman School of Medicine, 5Hospital de la Santa Creu I Sant Pau, Universitat Autònoma de Barcelona, CIBERCV, 6PeaceHealth Medical Group, St. Joseph Medical Center, 7St. Vincent Hospital, 8University of Iowa, 9University Hospital Erlangen, 10NorthShore University Health System, 11Department of Emergency Medicine, University of Texas, Southwestern Medical Center

The goal of this protocol is to describe the use of esophageal temperature modulation to counteract esophageal thermal injury from left atrial ablation for the treatment of atrial fibrillation.

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Immunology and Infection

Kinetic Visualization of Single-Cell Interspecies Bacterial Interactions
Kaitlin D Yarrington *1, Andrea Sánchez Peña *1, Dominique H Limoli 1
1Department of Microbiology and Immunology, Carver College of Medicine, University of Iowa

This live-bacterial cell imaging protocol allows for visualization of interactions between multiple bacterial species at the single-cell level over time. Time-lapse imaging allows for observation of each bacterial species in monoculture or coculture to interrogate interspecies interactions in multispecies bacterial communities, including individual cell motility and viability.

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Medicine

A Murine Model of Fetal Exposure to Maternal Inflammation to Study the Effects of Acute Chorioamnionitis on Newborn Intestinal Development
Brian A. Juber 1, Timothy G. Elgin 1, Erin M. Fricke 2, Huyiu Gong 1, Jeffrey Reese 3, Steven J. McElroy 1,4
1Division of Neonatology, Stead Family Department of Pediatrics, University of Iowa, 2Division of Maternal Fetal Medicine, Department of Obstetrics & Gynecology, University of Iowa, 3Division of Neonatology, Department of Pediatrics, Vanderbilt University, 4Department of Microbiology & Immunology, University of Iowa

We developed a model of chorioamnionitis to simulate fetal exposure to maternal inflammation (FEMI) without complications of live organisms to examine the effects of FEMI on development of the offspring’s intestinal tract. This allows for study of mechanistic causes for development of intestinal injury following chorioamnionitis.

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Developmental Biology

Murine Excisional Wound Healing Model and Histological Morphometric Wound Analysis
Lindsey Rhea 1, Martine Dunnwald 1
1Department of Anatomy and Cell Biology, University of Iowa

This protocol describes how to generate bilateral, full-thickness excisional wounds in mice and how to subsequently monitor, harvest, and prepare the wounds for morphometric analysis. Included is an in-depth description of how to use serial histological sections to define, precisely quantify and detect morphometric defects.

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Cancer Research

Modeling the Effects of Hemodynamic Stress on Circulating Tumor Cells using a Syringe and Needle
Devon L. Moose 1,2, Sophia Williams-Perez 3, Renee Cafun 1, Benjamin L. Krog 1, Michael D. Henry 1,2,4,5,6
1Department of Molecular Physiology and Biophysics, Carver College of Medicine, University of Iowa, 2Holden Comprehensive Cancer Center, University of Iowa, 3MD program, Carver College of Medicine, University of Iowa, 4Department of Pathology, Carver College of Medicine, University of Iowa, 5Department of Urology, Carver College of Medicine, University of Iowa, 6Department of Radiation Oncology, Carver College of Medicine, University of Iowa

Here we demonstrate a method to apply fluid shear stress to cancer cells in suspension to model the effects of hemodynamic stress on circulating tumor cells.

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Cancer Research

Evaluation of the In vivo Antitumor Activity of Polyanhydride IL-1α Nanoparticles
M. M. Hasibuzzaman 1,2, Kathleen A. Ross 3,4, Aliasger K. Salem 1,4,5,6, Balaji Narasimhan 3,4, Andrean L. Simons 1,2,3,5,6,7
1Interdisciplinary Graduate Program in Human Toxicology, University of Iowa, 2Department of Pathology, University of Iowa, 3Department of Chemical and Biological Engineering, College of Engineering, Iowa State University, 4Nanovaccine Institute, Iowa State University, 5Division of Pharmaceutics and Translational Therapeutics, College of Pharmacy, University of Iowa, 6Holden Comprehensive Cancer Center, University of Iowa, 7Department of Oral Pathology, Radiology and Medicine, College of Dentistry, University of Iowa

A standard protocol is described to study the antitumor activity and associated toxicity of IL-1α in a syngeneic mouse model of HNSCC.

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Behavior

Investigating Migraine-Like Behavior Using Light Aversion in Mice
Mengya Wang 1, Bianca N. Mason 2, Levi P. Sowers 3,4, Adisa Kuburas 4, Brandon J. Rea 3,4, Andrew F. Russo 3,4,5
1Department of Neuroscience and Pharmacology, University of Iowa, 2School of Behavioral and Brain Sciences, University of Texas at Dallas, 3Center for the Prevention and Treatment of Visual Loss, Veterans Administration Health Center, Iowa City, IA, 4Department of Molecular Physiology and Biophysics, University of Iowa, 5Department of Neurology, University of Iowa

Rodents are not able to report migraine symptoms. Here, we describe a manageable test paradigm (light/dark and open field assays) to measure light aversion, one of the most common and bothersome symptoms in patients with migraines.

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Medicine

Hemodynamic Precision in the Neonatal Intensive Care Unit using Targeted Neonatal Echocardiography
Marjorie Makoni *1, Trassanee Chatmethakul *1,2, Regan Giesinger 2, Patrick J. McNamara 2
1Department of Pediatrics, Division of Neonatal-Perinatal Medicine, University of Oklahoma Health Sciences Center, 2University of Iowa Department of Pediatrics, Division of Neonatology, University of Iowa

Presented here is a protocol to perform comprehensive neonatal echocardiography by trained neonatologists in the neonatal intensive care unit. The trained individuals provide longitudinal assessments of heart function, systemic and pulmonary hemodynamics in a consultative role. The manuscript also describes the requirements to become a fully trained neonatal hemodynamics specialist.

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Immunology and Infection

Use of In Vivo Imaging to Screen for Morphogenesis Phenotypes in Candida albicans Mutant Strains During Active Infection in a Mammalian Host
Rohan S. Wakade 1, Damian J. Krysan 1,2, Melanie Wellington 1
1Department of Pediatrics, Carver College of Medicine, University of Iowa, 2Department of Microbiology and Immunology, Carver College of Medicine, University of Iowa

This manuscript describes a method for screening moderately sized Candida albicans mutant libraries for morphogenesis phenotypes during active infection in a mammalian host using non-invasive confocal microscopy.

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Neuroscience

Modeling Human Cerebellar Development In Vitro in 2D Structure
Deniz A. Madencioglu 1,3,4,5, Karina A. Kruth 1,3,4,5, Thomas H. Wassink 1,3, Vincent A. Magnotta 1,2,3,4,5, John A. Wemmie 1,3,4,5, Aislinn J. Williams 1,3,4,5
1Department of Psychiatry, University of Iowa, 2Department of Radiology, University of Iowa, 3Carver College of Medicine, University of Iowa, 4Iowa Neuroscience Institute, University of Iowa, 5Pappajohn Biomedical Institute, University of Iowa

The present protocol explains the generation of a 2D monolayer of cerebellar cells from induced pluripotent stem cells for investigating the early stages of cerebellar development.

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Genetics

Mouse In Vivo Placental Targeted CRISPR Manipulation
Annemarie J. Carver 1,2,3, Robert J. Taylor 2,3, Hanna E. Stevens 1,2,3,4
1Interdisciplinary Graduate Program in Genetics, University of Iowa, 2Department of Psychiatry, Carver College of Medicine, University of Iowa, 3Iowa Neuroscience Institute, Carver College of Medicine, University of Iowa, 4Hawk-IDDRC, University of Iowa

Here we describe a time-specific method to effectively manipulate critical developmental pathways in the mouse placenta in vivo. This is performed through the injection and electroporation of CRISPR plasmids into the placentas of pregnant dams on embryonic day 12.5.

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Medicine

Biobanking of Human Aqueous and Vitreous Liquid Biopsies for Molecular Analyses
Julian Wolf 1,2, Teja Chemudupati 1,2, Aarushi Kumar 1,2, Ditte K. Rasmussen 1,2, Karen M. Wai 2, Robert T. Chang 2, Artis A. Montague 2, Peter H. Tang 3,4, Alexander G. Bassuk 5,6,7, Antoine Dufour 8,9, Prithvi Mruthrunjaya 2, Vinit B. Mahajan 1,2,10
1Molecular Surgery Laboratory, Stanford University, 2Department of Ophthalmology, Byers Eye Institute, Stanford University, 3Department of Ophthalmology and Visual Neurosciences, University of Minnesota, 4Retina Consultants of Minnesota, 5Department of Pediatrics, University of Iowa, 6Department of Neurology, University of Iowa, 7The Iowa Neuroscience Institute (INI), University of Iowa, 8Department of Physiology and Pharmacology, Cumming School of Medicine, University of Calgary, 9Department of Biochemistry and Molecular Biology, Cumming School of Medicine, University of Calgary, 10Veterans Affairs Palo Alto Health Care System

This protocol presents an integrated biorepository platform for the standardized collection, annotation, and biobanking of high-quality human aqueous humor and vitreous liquid biopsies for molecular downstream analyses, including proteomics, metabolomics, and glycomics.

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Cancer Research

Multiplexed Live-Cell Imaging for Drug Responses in Patient-Derived Organoid Models of Cancer
Kaitriana E. Colling *1,2, Emily L. Symons *1, Lorenzo Buroni *3, Hiruni K. Sumanasiri 1, Jessica Andrew-Udoh 1, Emily Witt 1,4, Haley A. Losh 1, Abigail M. Morrison 1, Kimberly K. Leslie 5, Christopher J. Dunnill 6, Johann S. de Bono 3, Kristina W. Thiel 1,7
1Department of Obstetrics and Gynecology, Carver College of Medicine, University of Iowa, 2Cancer Biology Graduate Program, Carver College of Medicine, University of Iowa, 3The Institute of Cancer Research: and the Royal Marsden NHS Foundation Trust, 4Department of Radiation Oncology, Carver College of Medicine, University of Iowa, 5Division of Molecular Medicine, Departments of Internal Medicine and Obstetrics and Gynecology, University of New Mexico Comprehensive Cancer Center, University of New Mexico Health Sciences Center, 6Agilent Technologies, 7Holden Comprehensive Cancer Center, University of Iowa

Patient-derived tumor organoids are a sophisticated model system for basic and translational research. This methods article details the use of multiplexed fluorescent live-cell imaging for simultaneous kinetic assessment of different organoid phenotypes.

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Behavior

An Automated Squint Method for Time-syncing Behavior and Brain Dynamics in Mouse Pain Studies
Nathan McCutcheon *1, Micah S. Johnson *1, Brandon Rea 2, Mahnoor Ghumman 1, Levi Sowers 2,3, Rainbo Hultman 1,4
1Department of Molecular Physiology & Biophysics, University of Iowa, 2Department of Pediatrics, University of Iowa, 3VA Center for the Prevention and Treatment of Visual Loss, 4Department of Psychiatry, University of Iowa

This protocol provides a method for tracking automated eye squint in rodents over time in a manner compatible with time-locking to neurophysiological measures. This protocol is expected to be useful to researchers studying mechanisms of pain disorders such as migraine.

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