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UNIVERSITY OF CALIFORNIA, MERCED

9 ARTICLES PUBLISHED IN JoVE

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Biology

Rapid Fibroblast Removal from High Density Human Embryonic Stem Cell Cultures
William S. Turner 1, Kara E. McCloskey 1
1Department of Engineering, University of California, Merced

Despite ongoing efforts to transition cultures to feeder-free conditions, the derivation and culture of human embryonic stem cells (hESC) remain largely dependent on co-cultures with mouse embryonic feeders (MEFs). Here, we show a novel methodology for rapidly removing feeders from hESC cultures prior to experimentation.

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Bioengineering

Tissue Engineering: Construction of a Multicellular 3D Scaffold for the Delivery of Layered Cell Sheets
William S. Turner 1, Nabjot Sandhu 1, Kara E. McCloskey 1
1School of Engineering, University of California, Merced

For creation of highly organized structures of complex tissue, one must assemble multiple material and cell types into an integrated composite. This combinatorial design incorporates organ-specific layered cell sheets with two distinct biologically-derived materials containing a strong fibrous matrix base, and endothelial cells for enhancing new vessels formation.

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Engineering

High Resolution Phonon-assisted Quasi-resonance Fluorescence Spectroscopy
Cyprian Czarnocki 1, Mark L. Kerfoot 1, Joshua Casara 1, Andrew R. Jacobs 1, Cameron Jennings 1, Michael Scheibner 1
1School of Natural Sciences, University of California, Merced

The manuscript describes a method of phonon-assisted quasi-resonant fluorescence spectroscopy that incorporates both laser-limited resolution and photoluminescence (PL) spectroscopy. This method utilizes optical phonons to provide linewidth-limited resolution spectra of atom-like semiconductor structures in the energy domain. The method is also easily realized with a single spectrometer optical spectroscopy setup.

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Use of Decellularized Mammalian Lung Tissues to Study Cell: Matrix Interactions
Christina N. Blaul 1,2, Jenna Balestrini 3,4, Hongyi Pan 5, Julia Winkler 5, Erica L. Herzog 5, Huanxing Sun 5
1NSF Funded Biomedical MD-PhD REU in affiliation with Yale School of Medicine, Yale Pathology Department, Section of Pulmonary, Critical Care, and Sleep Medicine, Yale University School of Medicine, 2School of Natural Sciences: Molecular and Cellular Biology, University of California, Merced, 3Department of Anesthesiology, Yale School of Medicine, 4Cell Bioprocessing, Draper, 5Department of Internal Medicine, Section of Pulmonary, Critical Care, and Sleep Medicine, Yale School of Medicine

This study presents an ex vivo platform based on decellularized lung tissue to study cell: matrix interactions in the healthy and diseased adult lung.

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Biology

Local Field Fluorescence Microscopy: Imaging Cellular Signals in Intact Hearts
Yuriana Aguilar-Sanchez *1, Diego Fainstein *2,3, Rafael Mejia-Alvarez 4, Ariel L. Escobar 5
1School of Natural Sciences, University of California, Merced, 2Centro de Investigaciones Cardiovasculares, Universidad de la Plata and Conicet, 3Facultad de Ingenieria, Universidad Nacional de Entre Rios, 4Department of Physiology, Midwestern University, 5School of Engineering, University of California, Merced

In the heart, molecular events coordinate the electrical and contractile function of the organ. A set of local field fluorescence microscopy techniques presented here enables the recording of cellular variables in intact hearts. Identifying mechanisms defining the cardiac function is critical in understanding how the heart works under pathological situations.

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Immunology and Infection

Visualization of Biofilm Formation in Candida albicans Using an Automated Microfluidic Device
Megha Gulati 1, Craig L. Ennis 1, Diana L. Rodriguez 1, Clarissa J. Nobile 1
1Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced

This protocol describes the use of a customizable automated microfluidic device to visualize biofilm formation in Candida albicans under host physiological conditions.

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Behavior

Continuous Theta Burst Stimulation of the Posterior Medial Frontal Cortex to Experimentally Reduce Ideological Threat Responses
Colin Holbrook 1, Chelsea L. Gordon 1, Marco Iacoboni 2
1Department of Cognitive and Information Sciences, University of California, Merced, 2Department of Psychiatry and Biobehavioral Sciences, University of California, Los Angeles

Threats reliably evoke shifts in high-level ideological investment, but little work to date has explored the neural mechanisms underlying these dynamics. This paper describes how continuous theta burst transcranial magnetic stimulation may be employed to test the contribution of the posterior medial frontal cortex (and/or other regions) to threat-related ideological shifts.

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JoVE Journal

Excitonic Hamiltonians for Calculating Optical Absorption Spectra and Optoelectronic Properties of Molecular Aggregates and Solids
Aleksey A. Kocherzhenko 1, Sapana V. Shedge 2, Pauline F. Germaux 1, Mohammad Heidarian 1, Christine M. Isborn 2
1Department of Chemistry and Biochemistry, California State University, East Bay, 2Department of Chemistry and Chemical Biology, University of California, Merced

Here, we present a protocol for parametrizing a tight-binding excitonic Hamiltonian for calculating optical absorption spectra and optoelectronic properties of molecular materials from first-principles quantum chemical calculations.

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Biology

Genome-wide Profiling of Transcription Factor-DNA Binding Interactions in Candida albicans: A Comprehensive CUT&RUN Method and Data Analysis Workflow
Mohammad N. Qasim *1,2, Ashley Valle Arevalo *1,2, Akshay D. Paropkari *1,2, Craig L. Ennis 1,2,4, Suzanne S. Sindi 3, Clarissa J. Nobile 1,4, Aaron D. Hernday 1,4
1Department of Molecular and Cell Biology, University of California, Merced, 2Quantitative and Systems Biology Graduate Program, University of California, Merced, 3Department of Applied Mathematics, University of California, Merced, 4Health Sciences Research Institute, University of California, Merced

This protocol describes an experimental method and data analysis workflow for cleavage under targets and release using nuclease (CUT&RUN) in the human fungal pathogen Candida albicans.

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