Engineering Commons^™

Murine Hearing Abr/Dpoae Assessments In Cmv-Infected Mouse Pups Receiving Peritoneal Antivirals Of Gcv, Quercetin+P188, Or A Combination. Controls Include Infected And Untreated And Non-Infected And Treated. Second Dataset Of Antiviral Assay In A Murine Stria Vascularis (Sv) Monolayer Cell Culture, David Britt, Albert Park

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Ganciclovir (GCV) has been shown to be an effective antiviral for the treatment of congenital cytomegalovirus (cCMV) induced sensorineural hearing loss. However, dose-dependent adverse effects (e.g. neutropenia) require strict, burdensome monitoring, limiting GCV use in some patients. Quercetin is a flavonoid with antioxidant properties that has demonstrated antiviral therapy against CMV. Although more benign than GCV, quercetin has limited therapeutic value due to its poor solubility. We previously reported that GCV improves hearing thresholds in a murine model of cCMV. We also noted that solubilizing quercetin with poloxamer 188 (P188) and combining with GCV therapy amplified CMV inhibition in murine …

Dataset For Manuscript: Comparing Performance Of Spectral Image Analysis Approaches For Detection Of Cellular Signals In Time-Lapse Hyperspectral Imaging Fluorescence Excitation-Scanning Microscopy, Silas J. Leavesley

BioImaging and BioSystems Research

The dataset contains raw and processed hyperspectral timelapse image data that are described in the manuscript:

Parker, M., Annamdevula, N. S., Pleshinger, D., Ijaz, Z., Jalkh, J., Penn, R., Deshpande, D., Rich, T. C. & Leavesley, S. J. Comparing Performance of Spectral Image Analysis Approaches for Detection of Cellular Signals in Time-Lapse Hyperspectral Imaging Fluorescence Excitation-Scanning Microscopy. Bioengineering 10, 642 (2023).

Using Scratch Wound Assay To Study The Effect Of Soil Arsenic On Human Keratinocyte Cell Migration Due To Contact Exposure, Manas Warke, Laura De March, Srinivas Kannan, Madeline English, Rohan Sarkar, Rupali Datta, Smitha Rao

Michigan Tech Research Data

The scratch wound assay was performed on Human immortalized keratinocytes (HaCaT) cells to observe the effect on cell migration due to contact exposure to arsenic-contaminated Immokalee soil. The cell migration was observed through a microscope for 72 h. HaCaT cells were seeded in 48-well plate. On day 3, treatment media was added (n=8). The cells were treated with four concentrations of soil As (45, 225, 450, and 900 mg/kg) and two controls - Negative control (NC; Pure media) and control (C; 0 mg/kg soil As) for 72 h. A scratch was made using a pipette tip. The wound healing was …

Using Scratch Wound Assay To Study The Effect Of Soil Arsenic On Human Dermal Fibroblasts Cell Migration Due To Contact Exposure, Manas Warke, Laura De Marchi, Srinivas Kannan, Madeline English, Rohan Sarkar, Rupali Datta, Smitha Rao

Michigan Tech Research Data

The scratch wound assay was performed on Normal Human Primary Dermal Fibroblasts (HDFa) cells to observe the effect on cell migration due to contact exposure to arsenic-contaminated Immokalee soil. The cell migration was observed through a microscope for 72 h. HDFa cells were seeded in 48-well plate. On day 3, treatment media was added (n=8). The cells were treated with four concentrations of soil As (45, 225, 450, and 900 mg/kg) and two controls - Negative control (NC; Pure media) and control (C; 0 mg/kg soil As) for 72 h. A scratch was made using a pipette tip. The wound …

Kinematic Analysis Of Gait In An Underwater Treadmill Using Land-Based Vicon T 40s Motion Capture Cameras Arranged Externally, Shreyas L. Raghu, Ryan T. Conners, Chang-Kwon Kang, David B. Landrum, Paul N. Whitehead

PRC-Affiliated Research

Aquatic therapy for rehabilitation can be performed in a variety of environments, which can vary from a traditional swimming pool to a self-contained underwater treadmill. While kinematic analysis has been performed in large volume swimming pools using specific underwater motion capture systems, researchers may only have access to a land-based motion-capture system, which is not waterproof. Additionally, underwater motion capture systems may not fit within the confines of a smaller underwater treadmill. Thus, the purpose of this study was to design and analyze methodology to quantify lower limb kinematics during an aquatic treadmill session, using a land-based motion capture system. …

Kinematic Analysis Of Gait In An Underwater Treadmill Using Land-Based Vicon T 40s Motion Capture Cameras Arranged Externally, Shreyas L. Raghu, Ryan T. Conners, Chang-Kwon Kang, David B. Landrum, Paul N. Whitehead

PRC-Affiliated Research

Aquatic therapy for rehabilitation can be performed in a variety of environments, which can vary from a traditional swimming pool to a self-contained underwater treadmill. While kinematic analysis has been performed in large volume swimming pools using specific underwater motion capture systems, researchers may only have access to a land-based motion-capture system, which is not waterproof. Additionally, underwater motion capture systems may not fit within the confines of a smaller underwater treadmill. Thus, the purpose of this study was to design and analyze methodology to quantify lower limb kinematics during an aquatic treadmill session, using a land-based motion capture system. …

Kinematic Analysis Of Gait In An Underwater Treadmill Using Land-Based Vicon T 40s Motion Capture Cameras Arranged Externally, Shreyas L. Raghu, Ryan T. Conners, Chang-Kwon Kang, David B. Landrum, Paul N. Whitehead

PRC-Affiliated Research

Aquatic therapy for rehabilitation can be performed in a variety of environments, which can vary from a traditional swimming pool to a self-contained underwater treadmill. While kinematic analysis has been performed in large volume swimming pools using specific underwater motion capture systems, researchers may only have access to a land-based motion-capture system, which is not waterproof. Additionally, underwater motion capture systems may not fit within the confines of a smaller underwater treadmill. Thus, the purpose of this study was to design and analyze methodology to quantify lower limb kinematics during an aquatic treadmill session, using a land-based motion capture system. …

Kinematic Analysis Of Gait In An Underwater Treadmill Using Land-Based Vicon T 40s Motion Capture Cameras Arranged Externally, Shreyas L. Raghu, Ryan T. Conners, Chang-Kwon Kang, David B. Landrum, Paul N. Whitehead

PRC-Affiliated Research

Aquatic therapy for rehabilitation can be performed in a variety of environments, which can vary from a traditional swimming pool to a self-contained underwater treadmill. While kinematic analysis has been performed in large volume swimming pools using specific underwater motion capture systems, researchers may only have access to a land-based motion-capture system, which is not waterproof. Additionally, underwater motion capture systems may not fit within the confines of a smaller underwater treadmill. Thus, the purpose of this study was to design and analyze methodology to quantify lower limb kinematics during an aquatic treadmill session, using a land-based motion capture system. …

Highly Branched Polymers Based On Poly(Amino Acid)S For Biomedical Application, Marisa Thompson, Carmen Scholz

PRC-Affiliated Research

Polymers consisting of amino acid building blocks continue to receive consideration for biomedical applications. Since poly(amino acid)s are built from natural amino acids, the same building blocks proteins are made of, they are biocompatible, biodegradable and their degradation products are metabolizable. Some amino acids display a unique asymmetrical AB2 structure, which facilitates their ability to form branched structures. This review compares the three forms of highly branched polymeric structures: structurally highly organized dendrimers, dendrigrafts and the less organized, but readily synthesizable hyperbranched polymers. Their syntheses are reviewed and compared, methods of synthesis modulations are considered and variations on their traditional …

Highly Branched Polymers Based On Poly(Amino Acid)S For Biomedical Application, Marisa Thompson, Carmen Scholz

PRC-Affiliated Research

Polymers consisting of amino acid building blocks continue to receive consideration for biomedical applications. Since poly(amino acid)s are built from natural amino acids, the same building blocks proteins are made of, they are biocompatible, biodegradable and their degradation products are metabolizable. Some amino acids display a unique asymmetrical AB2 structure, which facilitates their ability to form branched structures. This review compares the three forms of highly branched polymeric structures: structurally highly organized dendrimers, dendrigrafts and the less organized, but readily synthesizable hyperbranched polymers. Their syntheses are reviewed and compared, methods of synthesis modulations are considered and variations on their traditional …

Effects Of Flight Altitude On The Lift Generation Of Monarch Butterflies: From Sea Level To Overwintering Mountain, Madhu K. Sridhar, Chang-Kwon Kang, Brian D. Landrum, Hikaru Aono, Shannon L. Mathis, Taeyoung Lee

PRC-Affiliated Research

Aerodynamic efficiency behind the annual migration of monarch butterflies, the longest among insects, is an unsolved mystery. Monarchs migrate 4000 km at high-altitudes to their overwintering mountains in Central Mexico. The air is thinner at higher altitudes, yielding reduced aerodynamic drag and enhanced range. However, the lift is also expected to reduce in lower density conditions. To investigate the ability of monarchs to produce sufficient lift to fly in thinner air, we measured the climbing motion of freely flying monarchs in high-altitude conditions. An optical method was used to track the flapping wing and body motions inside a large pressure …

Alternative Upper Configurations During Agility-Based Movements: Part 1, Biomechanical Performance, Bradley S. Davidson, Kevin B. Shelburne, Moira Pyrhoda, Rachel Wathen, Nick Nelson, Sean Higinbotham, Jay Dicharry, Daniel Feeney, Kate Harrison

Alternative Upper Configurations During Agility-Based Movements

The objective of this research was to determine if three alternative shoe closures improve biomechanical performance measures compared to a standard lace closure in agility-based movements. NCAA Division 1 and club-level male athletes recruited from lacrosse, soccer, tennis, and rugby performed four court-based movements: Lateral Skater Jump Repeats (LSJ), Countermovement Jump Repeats (CMJ), Triangle Drop Step Drill (TDS), and Anterior-Posterior Drill (AP). Each athlete performed the movements in four shoe upper closures: Standard Closure, Lace Replacement, Y Wrap, and Tri Panel. Movement completion time, Ground contact time, peak eccentric rate of force development (RFD), peak concentric GRF, peak concentric COM …

Alternative Upper Configurations During Agility-Based Movements: Part 2, Joint-Level Biomechanics, Bradley S. Davidson, Kevin B. Shelburne, Moira Pyrhoda, Rachel Wathen, Nick Nelson, Sean Higinbotham, Jay Dicharry, Daniel Feeney, Kate Harrison

Alternative Upper Configurations During Agility-Based Movements

The objective of this research was to determine if three alternative shoe closures improve biomechanical performance measures compared to a standard lace closure in agility-based movements. NCAA Division 1 and club-level male athletes recruited from lacrosse, soccer, tennis, and rugby performed four court-based movements: Lateral Skater Jump Repeats (LSJ), Countermovement Jump Repeats (CMJ), Triangle Drop Step Drill (TDS), and Anterior-Posterior Drill (AP). Each athlete performed the movements in four shoe upper closures: Standard Closure, Lace Replacement, Y Wrap, and Tri Panel. Movement completion time, Ground contact time, peak eccentric rate of force development (RFD), peak concentric GRF, peak concentric COM …

Development Of A Low-Cost, Open Source Miniature Rotary Cell Culture System To Simulate Microgravity Within An Irradiated Environment, Elizabeth Vargis, Jr Dennison

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A major challenge for astronauts in long-duration space travel is combatting the hazardous spaceflight environment caused by microgravity and increased levels of ionizing radiation. Microgravity damages cellular DNA by increasing the production of harmful reactive oxygen species, while ionizing radiation damages DNA by creating double-stranded DNA (dsDNA) breaks. Cellular damage due to microgravity and radiation has been investigated using ground-based models, but most models consider microgravity and ionizing radiation alone, or asynchronously. Synchronous modeling better mimics spaceflight conditions and can be used to understand the combined effects of microgravity and ionizing radiation. However, commercially available devices to model microgravity and …

Microwave-Assisted And One-Step Synthesis Of Peg Passivated Fluorescent Carbon Dots From Gelatin As An Efficient Nanocarrier For Methotrexate Delivery, Nasser Arsalani, Parinaz Nezhad-Mokhtari, Esmaiel Jabbari

Faculty Publications

A green and simple process for preparing the polyethylene glycol passivated fluorescent carbon dots (CDs-PEG) have been studied by a microwave pyrolysis method, using gelatin and PEG as starting materials. This method is very effective for development of carbon-based quantum dots from gelatin with high quantum yield (QY). The synthesized CDs-PEG were found to emit blue photoluminescence (PL) with a maximum QY of 34%. At the following research, we investigated the effect of the presence of PEG on PL intensity, and the result showed that CDs-PEG becomes stronger PL properties than pure CDs from gelatin. The synthesized CDs-PEG were characterized …

Static Accuracy Analysis Of Vicon T40s Motion Capture Cameras Arranged Externally For Motion Capture In Constrained Aquatic Environments, Shreyas L. Raghu, Chang-Kwon Kang, Paul Whitehead, Akifumi Takeyama, Ryan Conners

PRC-Affiliated Research

While the capabilities of land-based motion capture systems in biomechanical applications have been previously reported, the possibility of using motion tracking systems externally to reconstruct markers submerged inside an aquatic environment has been under explored. This study assesses the ability of a motion capture system (Vicon T40s) arranged externally to track a retro-reflective marker inside a glass tank filled with water and without water. The reflective tape used for marker creation in this study was of Safety of Life at Sea (SOLAS) grade as the conventional marker loses its reflective properties when submerged. The overall trueness calculated based on the …

Static Accuracy Analysis Of Vicon T40s Motion Capture Cameras Arranged Externally For Motion Capture In Constrained Aquatic Environments, Shreyas L. Raghu, Chang-Kwon Kang, Paul Whitehead, Akifumi Takeyama, Ryan Conners

PRC-Affiliated Research

While the capabilities of land-based motion capture systems in biomechanical applications have been previously reported, the possibility of using motion tracking systems externally to reconstruct markers submerged inside an aquatic environment has been under explored. This study assesses the ability of a motion capture system (Vicon T40s) arranged externally to track a retro-reflective marker inside a glass tank filled with water and without water. The reflective tape used for marker creation in this study was of Safety of Life at Sea (SOLAS) grade as the conventional marker loses its reflective properties when submerged. The overall trueness calculated based on the …

Static Accuracy Analysis Of Vicon T40s Motion Capture Cameras Arranged Externally For Motion Capture In Constrained Aquatic Environments, Shreyas L. Raghu, Chang-Kwon Kang, Paul Whitehead, Akifumi Takeyama, Ryan Conners

PRC-Affiliated Research

While the capabilities of land-based motion capture systems in biomechanical applications have been previously reported, the possibility of using motion tracking systems externally to reconstruct markers submerged inside an aquatic environment has been under explored. This study assesses the ability of a motion capture system (Vicon T40s) arranged externally to track a retro-reflective marker inside a glass tank filled with water and without water. The reflective tape used for marker creation in this study was of Safety of Life at Sea (SOLAS) grade as the conventional marker loses its reflective properties when submerged. The overall trueness calculated based on the …

Cold Plasma Poration And Corrugation Of Pumpkin Seed Coats, Alexander G. Volkov, Jewel S. Hairston, Darayas Patel, Ryan P. Gott, Kunning G. Xu

PRC-Affiliated Research

The treatment of seeds and plants by electrically generated cold atmospheric pressure plasma can accelerate seed germination and radicle growing rates. The plasma generated reactive oxygen and nitrogen species, UV photons, and high frequency electromagnetic fields can penetrate into seed coats and modify their surface properties. Atomic force microscope data shows that cold helium or argon plasma induces strong corrugation of pumpkin seed coats, produces pores and surface defects. These structural deformations and poration enhance water uptake by seeds during the imbibing process, accelerate seeds germination, and increase seed growth. The cold atmospheric pressure plasmas treatment of pumpkin seeds also …

Cold Plasma Poration And Corrugation Of Pumpkin Seed Coats, Alexander G. Volkov, Jewel S. Hairston, Darayas Patel, Ryan P. Gott, Kunning G. Xu

PRC-Affiliated Research

The treatment of seeds and plants by electrically generated cold atmospheric pressure plasma can accelerate seed germination and radicle growing rates. The plasma generated reactive oxygen and nitrogen species, UV photons, and high frequency electromagnetic fields can penetrate into seed coats and modify their surface properties. Atomic force microscope data shows that cold helium or argon plasma induces strong corrugation of pumpkin seed coats, produces pores and surface defects. These structural deformations and poration enhance water uptake by seeds during the imbibing process, accelerate seeds germination, and increase seed growth. The cold atmospheric pressure plasmas treatment of pumpkin seeds also …

Cold Plasma Poration And Corrugation Of Pumpkin Seed Coats, Alexander G. Volkov, Jewel S. Hairston, Darayas Patel, Ryan P. Gott, Kunning G. Xu

PRC-Affiliated Research

The treatment of seeds and plants by electrically generated cold atmospheric pressure plasma can accelerate seed germination and radicle growing rates. The plasma generated reactive oxygen and nitrogen species, UV photons, and high frequency electromagnetic fields can penetrate into seed coats and modify their surface properties. Atomic force microscope data shows that cold helium or argon plasma induces strong corrugation of pumpkin seed coats, produces pores and surface defects. These structural deformations and poration enhance water uptake by seeds during the imbibing process, accelerate seeds germination, and increase seed growth. The cold atmospheric pressure plasmas treatment of pumpkin seeds also …

A Numerical Analysis Of The Effects Of Wing Kinematics On Flapping Wing Aeroacoustics, Kabilan Nedunchezian, Chang-Kwon Kang, Hikaru Aono

PRC-Affiliated Research

Despite the recent interest in flapping wing aerodynamics, the aerodynamic sound generation mechanism of a flapping wing is inadequately understood. In this paper, the interplay between the wing motion, resulting unsteady aerodynamics, and aeroacoustics of a flapping wing flyer is investigated. The wing motion is varied in terms of the flapping amplitude, pitching amplitude, and the phase difference between flap and pitch. The unsteady flow around the flapping wing is numerically calculated using a well-validated Navier-Stokes equation solver. Acoustic pressures are computed using the Ffowcs-Williams-Hawkings equation in a three-dimensional space at varying distances from the wing. Two main sound generation …

A Numerical Analysis Of The Effects Of Wing Kinematics On Flapping Wing Aeroacoustics, Kabilan Nedunchezian, Chang-Kwon Kang, Hikaru Aono

PRC-Affiliated Research

Despite the recent interest in flapping wing aerodynamics, the aerodynamic sound generation mechanism of a flapping wing is inadequately understood. In this paper, the interplay between the wing motion, resulting unsteady aerodynamics, and aeroacoustics of a flapping wing flyer is investigated. The wing motion is varied in terms of the flapping amplitude, pitching amplitude, and the phase difference between flap and pitch. The unsteady flow around the flapping wing is numerically calculated using a well-validated Navier-Stokes equation solver. Acoustic pressures are computed using the Ffowcs-Williams-Hawkings equation in a three-dimensional space at varying distances from the wing. Two main sound generation …

A Numerical Analysis Of The Effects Of Wing Kinematics On Flapping Wing Aeroacoustics, Kabilan Nedunchezian, Chang-Kwon Kang, Hikaru Aono

PRC-Affiliated Research

Despite the recent interest in flapping wing aerodynamics, the aerodynamic sound generation mechanism of a flapping wing is inadequately understood. In this paper, the interplay between the wing motion, resulting unsteady aerodynamics, and aeroacoustics of a flapping wing flyer is investigated. The wing motion is varied in terms of the flapping amplitude, pitching amplitude, and the phase difference between flap and pitch. The unsteady flow around the flapping wing is numerically calculated using a well-validated Navier-Stokes equation solver. Acoustic pressures are computed using the Ffowcs-Williams-Hawkings equation in a three-dimensional space at varying distances from the wing. Two main sound generation …

Bioenergy From Wastewater-Based Biomass, Ronald C. Sims, Sean K. Bedingfield, Reese Thompson, Judith L. Sims

Biological Engineering Faculty Publications

The U.S. Department of Energy (DOE) has stated that biomass is the only renewable resource that can supplant petroleum-based liquid transportation fuels in the near term. Wastewater is beginning to be viewed as a potential resource that can be exploited for biomass production and conversion to bioenergy. We suggest that using wastewater from municipalities and industries as a resource for cultivating biomass and combining wastewater treatment with the production of biomass for bioenergy would provide benefits to both industries. Two waste-based biomass production systems that currently have large nationwide infrastructures include: (1) wastewater treatment systems that can be used to …

Metacom: Automated Data Processing And Analysis Of Metagenomic Community Sequences, Cody A. Tramp, Charles D. Miller

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Advances in next generation sequencing technology have allowed metagenomic researchers to study the composition of bacterial communities through analysis of the vast numbers of sequence reads that these technologies generate. It is not feasible to analyze and interpret this large amount of data manually and individual research groups must create automated scripts and programs to analyze this data. Here, we present MetaCom, a program that offers a common set of analysis and organizational tools that can be used by research groups in the analysis of environmental samples. MetaCom is an open-source software tool that can process next generation sequencing output, …

Predictive Mathematical Model For Polyhydroxybutyrate Synthesis In Escherichia Coli, Angela Dixon

Engineering Datasets

Polyhydroxybutyrate has been studied as a potential biodegradable replacement for petrochemical plastics. Polyhydroxybutyrate synthesis is not native to Escherichia coli, but the genes have successfully been inserted through plasmids. However, polyhydroxybutyrate production needs to be more cost-effective before it can be commercially produced. A mathematical model for polyhydroxybutyrate synthesis was developed to identify genes that could be altered to increase polyhydroxybutyrate production. The major metabolic pathways included in the model were glycolysis, acetyl coenzyme-A synthesis, tricarboxylic acid cycle, glyoxylate bypass, and polyhydroxybutyrate synthesis. Reactions were modeled using kinetic mechanisms identified for each enzyme. The transcriptional network was incorporated into the …

Looking Below The Surface Of Breast Tissue During Surgery, A Mahadevan-Jansen, Md Keller, Elizabeth Vargis, B Caldwell, T-Q Nguyen, Ndm Granja, M Sanders, Mc Kelley

Biological Engineering Faculty Publications

In this article, we present a method that provides prompt detection of the presence of cancer cells inside the 2-mm margin of tissue surrounding the tumor after excision using spatially offset Raman spectroscopy (SORS). SORS was developed to detect subtle changes in soft tissue spectra in the 100–2000 μm range and tested on excised breast tissues. The results display a very high specificity and sensitivity (100% and 95%, respectively) of classification between positive and negative tumor margins. SORS is a clinically feasible method, suitable for the real-time, intraoperative assessment of tumor margins at the micrometer level.

Bie6300 - Irrigation & Conveyance Control Systems, Spring 2004, Gary P. Merkley

Biological and Irrigation Engineering - OCW

This is a course regarding measurement of flow rates and water levels. Calibration, design, and selection of open-channel flow measurement structures. Design of irrigation conveyance and distribution system infrastructure.

Bie6810 - Biochemical Engineering, Spring 2004, Ron Sims

Biological and Irrigation Engineering - OCW

Biochemical processes, thermodynamics, and kinetics are used in the application of engineering principles to analyze, design, and develop processes using biocatalysts. Processes covered in the course include those that are involved in the formation of desirable compounds and products or in the transformation, or destruction of unwanted or toxic substances.