Biomedical Engineering and Bioengineering Commons^™

An Eco-Inspired Emulsion Membrane Harnessed With Waste Vegetable Oil For Effective Separation Of Ibuprofen: Insights Into Stability, Performance, And Kinetics, Huma Warsi Khan, A. Vijaya Bhaskar Reddy, Parvez Alam Khan, Samsur Akm Rahman, Muhammad Moniruzzaman

Publications and Research

Emulsion liquid membranes (ELMs) have emerged as excellent alternatives for the separation and recovery of biologically active drugs (BADs) from industrial waste at trace concentrations. Conventional ELMs generally utilize toxic petroleum-based solvents (PBS) that pose environmental and health risks. Although virgin vegetable oils have been appeared as sustainable alternatives to PBS, their widespread application is limited by economic constraints, resource sustainability, and competition with the food supply. In contrast, waste vegetable oil (WVO) represents an abundant, low-cost, and eco-friendly alternative, yet its potential as a green diluent for ELMs remains largely unexplored. To address this challenge, present study investigated the …

Hydration-Tunable Ionic Liquid-In-Oil Microemulsions For Increased Transdermal Delivery Of High-Molecular-Weight Proteins, Roy Jabidash, Kiyohiro Toyofuku, Rie Wakabayashi, Yoshirou Kawaguchi, Noriho Jeffrey Kamiya, Muhammad Moniruzzaman, Masahiro Goto

Publications and Research

Transdermal delivery of high-molecular-weight proteins is challenging because of their large molecular size and hydrophilicity, and the barrier properties of the stratum corneum. We report a hydrated ionic liquid-in-oil (HIL/O) microemulsion for transdermal delivery of high-molecular-weight proteins. A biocompatible ionic liquid (IL) composed of cholinium cation and propionate anion, optimized at 45 wt% hydration, was developed as a protein-compatible solubilization medium that dissolved ovalbumin (molecular mass ∼ 45 kDa) and bovine serum albumin (molecular mass ∼ 66 kDa), whereas lower hydration levels were insufficient for effective protein dissolution. Following solubilization, circular dichroism spectroscopy showed recovery of the native-like secondary structures …

Visualization And Marker-Less Tracking Of User-Defined Pre-Processed Mri Articulator Data Using Deep Learning, Michael De George

Student Theses

This thesis presents a comprehensive framework for the automated tracking and visualization of articulatory movements based on magnetic resonance imaging (MRI) data. A well-known data analysis tool for markerless pose estimation, known as DeepLabCut, is investigated for this purpose. The performance of this tool is enhanced through the design and implementation of a pre-processor. DeepLabCut is a markerless pose estimation toolbox based on deep learning, which overcomes the issue of making manual annotations frame-by-frame. Limitations from manually marking the MRI images are addressed by implementing transfer learning with convolutional neural networks to achieve accurate, user-defined articulator tracking without markers. Current …

Ai Method For Classification Of Diagnosis Of Near-Infrared Breast Lesion Images, Kaiquan Chen, Fangyang Shen, Honggang Wang, Zhengchao Dong, Jizhong Xiao, Ming Ma, Afroza Aktar, Christopher Chow, Wenxiong Zhang

Publications and Research

In near-infrared optical breast lesion screening and diagnosis systems, high-speed four-dimensional scanners can dynamically acquire tens of thousands of lesion images within a five-minute period. Currently, manual computer annotation is required to generate standard samples from these scanned breast lesion images, a process that depends heavily on physicians with clinical expertise. On average, a single physician can annotate only approximately ten samples per working day. As a result, this process is time-consuming and labor-intensive, and the collected samples often suffer from low accuracy, large variability, and limited diagnostic reliability. Several AI-based annotation tools, such as QuPath, HALO AI™, and X-AnyLabeling, …

Development Of An Adhesive Emulsion Hydrogel For Soft Tissue Reconstruction, David J. Alpert

Dissertations and Theses

Soft tissue filling materials are most commonly associated with various aesthetic, cosmetic procedures, primarily using lightly cross-linked hyaluronic acid to fill wrinkles and give facial features a more youthful appearance. These natural materials are biocompatible but degrade over time while more persistent synthetic fillers may provoke a chronic inflammatory response. Migration from the injection site is also a key factor as this may not only render the implant non- functional but necessitate further procedures for removal of the foreign material. Such concerns are more pronounced for soft tissue reconstruction procedures (e.g., to treat congenital defects or traumatic injuries), which require …

Strategies For Prolonging Ventricular Action Potential Duration Without Increasing Transmural Dispersion Of Repolarization, Candido Cabo

Publications and Research

Dispersion of repolarization results from a non-homogeneous recovery of excitability in cardiac tissue, and it is an important factor in arrhythmogenesis because it could lead to the initiation and maintenance of a variety of arrhythmias. Antiarrhythmic agents that prolong action potential duration (APD) by selectively blocking specific ion channels (like IKr) often increase dispersion of repolarization, which could result in a pro-arrhythmic risk. In this report, using computer models of the action potential of human epicardial, mid-myocardial, and endocardial myocytes, we have identified strategies to prolong APD without increasing transmural dispersion of repolarization. The first strategy, which involves blocking several …

Targeting Poor Solubility Of Docetaxel: Computational Screening Of Ionic Liquids Using Cosmo-Rs, Najihah Mohd Noor, Amal A.M. Elgharbawy, Huma Warsi Khan, Yumi Zuhanis Has-Yun Hashim, Muhammad Moniruzzaman, Mohd Firdaus Abd. Wahab, Hamzah Mohd Salleh, Siti Nur Idayu Matusin

Publications and Research

Docetaxel (DTX), a chemotherapeutic agent widely used in cancer treatment, has limited therapeutic efficacy owing to its poor oral absorption and low bioavailability. This study aims to improve DTX solubility by predicting its compatibility with ionic liquids (ILs) using conductor-like screening model for real solvents (COSMO-RS) computational modelling. A library of 340 ILs comprising 17 cations and 20 anions was screened for their potential to dissolve DTX, with a particular focus on imidazolium-based ILs that enhance its solubility and pertinence to cytotoxic applications. Computational analysis identifies ILs containing cations such as 1-methylimidazolium [MIM] and 1,3-dimethylimidazolium [DMIM] and anions such as …

Advances In Bone And Orthopedics 2025 – 5th Edition, Jean-Philippe Berteau, Laurent Pujo-Menjouet, Hélène Follet, Aurélie Levillain

Publications and Research

This volume brings together selected works from the 2025 Bone and Orthopedics Interdisciplinary Symposium (BONITOS), underscoring our community’s ongoing commitment to advancing research in biomechanics, bone health, and orthopedic science. The symposium unites leading experts from around the world, fostering collaboration and the exchange of ideas across disciplines. Organized in partnership with the French-speaking Society of Biomechanics, the French National Institute of Health and Medical Research (INSERM), the University of Lyon, the College of Staten Island of the City University of New York (CUNY), and the American Association of Physical Therapists (APTA) – Brooklyn Staten Island Chapter, BONITOS 2025 represents …

Towards The Performance Characterization Of A Robotic Multimodal Diagnostic Imaging System, George Papaioannou, Christos Mitrogiannis, Mark Schweitzer, Nikolaos Michailidis, Maria Pappa, Pegah Khosravi, Apostolos Karantanas, Sean Starling, Christian Ruberg

Publications and Research

Characterizing imaging performance requires a multidisciplinary approach that evaluates various interconnected parameters, including dosage optimization and dynamic accuracy. Radiation dose and dynamic accuracy are challenged by patient motion that results in poor image quality. These challenges are more prevalent in the brain/cardiac pediatric patient imaging, as they relate to excess radiation dose that may be associated with various complications. Scanning vulnerable pediatric patients ought to eliminate anesthesia due to critical risks associated in some cases with intracranial hemorrhages, brain strokes, and congenital heart disease. Some pediatric imaging, however, requires prolonged scanning under anesthesia. It can often be a laborious, suboptimal …

Multimodal Imaging Of Protein-Based Biomaterials For Delivering Chemo-Agent Cargo For Glioblastoma Treatment In A Murine Model, Orin Mishkit

Dissertations and Theses

Protein-based self-assembling biomaterials, known as Thermo-Responsive Assembled Proteins (TRAP), present meaningful potential as drug delivery carriers. These materials enable the controlled, slow release of poorly soluble chemotherapeutic agents, such as doxorubicin (Dox), while potentially reducing systemic off-target effects. In collaboration with multiple NYU labs, this study evaluated the efficacy of two TRAP variants—TRAP and F-TRAP—as drug delivery carriers in a xenograft mouse model of glioblastoma multiforme (GBM).

The primary objective was to compare the effectiveness of TRAP-loaded Dox (TRAP-DOX) to free Dox in achieving tumor extravasation and accumulation, facilitating sustained drug release. We hypothesized that the leaky vasculature of GBM …

Adaptation Of The Biodent For Spherical Microindentation To Determine Elastic Modulus In Small Rodent Bones, Mixame E. Jerome

Dissertations and Theses

Mechanical and material properties of bone are essential for understanding both normal skeletal function and the progression of bone-related diseases. Microindentation has become a widely used method for evaluating tissue mechanical properties of bone, as it samples the contributions of microarchitecture and composition. Microindentation using a standard pointed tip inherently introduces both elastic and plastic deformation into the material. In contrast, indentation with a spherical tip can be operated entirely in the elastic range, providing for a non-damaging test that has significant advantages over sharp indentation techniques. Moreover, a key advantage of using spherical indentation lies in its operation under …

Explorations Of Dna-Single-Walled Carbon Nanotube Interactions To Develop Multiplexed Molecularly Specific Biosensors For Inflammation, Amelia K. Ryan

Dissertations and Theses

Inflammatory cytokines such as interleukin-6 (IL-6) and interleukin-12 (IL-12) are central regulators of immune signaling and key biomarkers of disease, yet existing assays for their detection remain slow, invasive, and lack multiplexing ability. This dissertation advances the development of single-walled carbon nanotube (SWCNT) optical nanosensors capable of real-time, multiplexed, and molecularly specific cytokine detection through innovative use of single-stranded DNA (ssDNA) interfaces.

First, an IL-6-specific DNA aptamer was employed as both a dispersing agent and recognition probe for SWCNT fluorescence sensing. Sequence modifications, including anchor domains, truncations, and thermally induced refolding, were systematically tested to optimize sensitivity and selectivity. The …

Advancing Electrical Stimulation: Full-Head Mri Segmentation For Abnormal Brain Anatomy With Tdcs, Andrew Birnbaum

Dissertations and Theses

Evaluating the effectiveness of transcranial direct current stimulation (tDCS) is essential for guiding its integration into therapeutic and performance-enhancement applications. In our laboratory, we investigate the efficacy of tDCS across multiple experimental models, including both animal and human studies. I have contributed significantly to the execution and analysis of these experiments, which include studies in rats and healthy human participants aimed at evaluating whether electrical stimulation of the motor cortex can enhance motor learning. These studies assess improvements in fine motor performance resulting from tDCS. In stroke patients, I contribute to our investigation of tDCS as a rehabilitative intervention, particularly …

Wearable Disposable Elecetrotherapy, Mohamad Fallahrad

Dissertations and Theses

Non-invasive electrotherapies offer promising treatments for a wide range of conditions such as pain, headaches, depression, addiction, cognitive decline, wound healing, and drug delivery. However, patient compliance remains low due to the high initial cost, cumbersomeness and inconvenience of existing technology compared to pharmaceuticals. Current electrotherapy devices are often bulky and require users to connect disposable electrodes, initiate programs, and manage charging cycles, which hinders widespread adoption.

We address these challenges by designing and validating a novel electrotherapy platform that is single-use, disposable, low-cost, and wearable. Activated automatically upon skin contact, the device delivers a preset dose of controlled electrical …

Characterization Of The Intrinsic Neural Timescale Indices As A Reliable Fingerprint Of Brain Dynamics, Helya Honarpisheh

Dissertations and Theses

Intrinsic neural timescales (INTs) characterize the persistence of neural activity over time and offer insight into the brain’s temporal hierarchy. This thesis evaluates and compares six autocorrelation-based INT metrics—AR(1) Coefficient (Autoregressive Coefficient at 1), First Zero Lag, Lag at ACF = 1/e, Sum of Positive ACFs, ACF at Half Lag, Exponential Decay Constant (τ)— using resting-state fMRI data from 400 cortical regions across a large, lifespan sample (ages 6– 85) from the NKI-Rockland dataset. A discriminability analysis revealed that the AR(1) coefficient provided the highest test-retest reliability and individual specificity across repeated scans, establishing it as the most reliable INT …

Generation And Characterization Of Human Blood-Brain Barrier Models For Investigating Neuropsychiatric Disorders And Tumor Metastasis, Yunfei Li

Dissertations and Theses

The blood–brain barrier (BBB) is important in the normal function of the central nervous system (CNS). An altered BBB has been described in various neuropsychiatric disorders. The brain-specific microvascular endothelial cell (BMEC) is an essential structural component of the BBB. To test if integrity of the BBB formed by BMECs is compromised in 22q11.2 deletion syndrome (also called DiGeorge syndrome), which is one of the validated genetic risk factors for schizophrenia, a 2D iBBB (induced BBB) on a Transwell filter was generated from human microvascular endothelial cells (HBMECs) derived from the induced pluripotent stem cells (iPSCs) out of patients with …

Resting-State Eeg Microstate Features For Major Depressive Disorder Classification, George M. V. Quinn

Dissertations, Theses, and Capstone Projects

Neuroimaging studies have revealed consistent abnormalities in functional connectivity within specific neural networks that may serve as biomarkers for major depressive disorder (MDD). It is important to find inexpensive, non-invasive techniques that target these biomarkers to make diagnosis easier and more objective. EEG microstates are quasi-stable potential topographies that are thought to reflect the quasi-stable network activity of the underlying neural generators. MDD has been shown to alter features of the four canonical EEG microstates (A, B, C, D) with some conflicting results. The most consistent network abnormalities in MDD are found in the anterior default mode network, and this …

Advances In Bone And Orthopedics 2024 Edition, Jean-Philippe Berteau, Laurent Pujo-Menjouet

Publications and Research

We are delighted to present the latest edition of ”Advances in Bone and Orthopedics,” a comprehensive compilation of pioneering research and innovative developments in the field. This volume brings together a selection of peer-reviewed abstracts from BONITOS 2024, the Fourth Season of the Bone and Orthopedics Interdisciplinary Symposium, held on May 31st, 2024, at the College of Staten Island in New York. This symposium, a hallmark event in the calendar of professionals dedicated to bone health and orthopedic excellence. The contributions within this volume reflect the breadth and depth of research presented at BONITOS 2024. These abstracts represent cutting-edge studies …

Analysis And Evaluation Of Different Transformer Architectures For The Protein Sequence Representation And The Corresponding Hypothetical Applications, Mary Mao

Theses and Dissertations

This project is to investigate and assess several Transformer topologies for the modeling of protein sequences and their corresponding uses. Each major model for the protein sequence representations is inspected with its mathematical theory and analyzed for the different performance of the models with various validation repositories.

Rational Design Of Peptide-Based Materials Informed By Multiscale Molecular Dynamics Simulations, Dhwanit Rahul Dave

Dissertations, Theses, and Capstone Projects

The challenge of establishing a sustainable and circular economy for materials in medicine and technology necessitates bioinspired design. Nature's intricate machinery, forged through evolution, relies on a finite set of biomolecular building blocks with through-bond and through-space interactions. Repurposing these molecular building blocks requires a seamless integration of computational modeling, design, and experimental validation. The tools and concepts developed in this thesis pioneer new directions in peptide-materials design, grounded in fundamental principles of physical chemistry. We present a synergistic approach that integrates experimental designs and computational methods, specifically molecular dynamics simulations, to gain in-depth molecular insights crucial for advancing the …

Nanoparticles For Applications In Specific Diagnostics And Precision Medicine, Naxhije Berisha

Dissertations, Theses, and Capstone Projects

Heterogeneity is common in the expression of cancer and treatment response. Precision medicine enables healthcare providers to tailor medical care to an individual's distinct genetic and environmental makeup. This customization has the potential to result in more efficient treatments while minimizing side effects. We believe that by studying the interface of nanotechnology and cancer medicine we can elucidate innovative solutions that address the challenges of disease heterogeneity. This includes advancements in drug delivery, formulations development, and diagnostic sensing. We highlight three studies that use nanotechnology for applications in precision medicine. In Chapter 2, we highlight design optimization of drug formulations …

An Optical Aptamer-Based Carbon Nanosensor For Cortisol Detection, Jessica Kretli Zanetti

Dissertations and Theses

Cortisol is a hormone related to numerous biological functions. This hormone is primarily associated with regulating the body’s stress response, including its effects on metabolism, immune function, and energy balance. Additionally, it plays a critical role in maintaining physiological homeostasis during periods of physical or psychological stress. Consequently, it is critical to monitor levels of this hormone to understand different vital processes it can impact. This work presents the development of an optical aptamer-based carbon nanosensor for the detection of cortisol. The sensor utilizes single-walled carbon nanotubes (SWCNTs) functionalized with a specific DNA aptamer to achieve high specificity and sensitivity. …

Using Mechanical Interventions To Enhance Drug Transport To Bone Tumors, Michelle Gelbs

Dissertations and Theses

Bone metastasis occurs when cancer cells spread from a primary site to a secondary location in bone. Current treatments for metastatic bone tumors typically involve systemic chemotherapy, bisphosphonates, radiotherapy, or surgery; however, due to morphological changes in the tumor microenvironment and elevated interstitial fluid pressure, tissue penetration of therapeutic agents is often more limited in cancerous tumors compared to normal tissue. Weight-bearing mechanical loading applied to bone, as well as other mechanical stimulations such as vibration, have been shown to cause loading-induced bone deformations that increase convective transport via interstitial fluid flow. We hypothesize that mechanical loading can increase the …

Optimizing Transcranial Focused Ultrasound: Calibration, Neuro Navigation, And Bold Fmri Evidence Of Neuromodulation, Amilcar J. Malave

Dissertations and Theses

This thesis presents the development, calibration, and initial implementation of transcranial focused ultrasound (tFUS) for neuromodulation in a human study. The primary objectives were to design a system capable of delivering precise and safe ultrasound stimulation to targeted brain regions and to conduct preliminary trials to assess its effects on brain activity. A custom calibration device was developed to ensure accurate measurement of acoustic pressure, addressing challenges such as voltage alterations caused by changes in system impedance. Additionally, a neuro-navigation tool was created to facilitate precise targeting of the right subgenual anterior cingulate cortex (right sgACC), enabling accurate placement of …

Modulation Of Motor Learning With High-Intensity Transcranial Electric Stimulation, Gavin Hsu

Dissertations and Theses

Research thus far on noninvasive, transcranial electric stimulation have produced mixed results from in vivo human experiments. This work tests the hypothesis that applying higher stimulation intensities would induce intracranial electric fields that more closely match the higher magnitudes used in animal and in vitro studies and subsequently yield more robust effects. As done commonly in the literature, we targeted the motor cortex (M1), specifically in the context of neuroplastic changes taking place during motor learning in healthy adult humans. This work also seeks a better understanding of the neural correlates underlying motor skill learning.

Through multiple large-sample studies, this …

Mechanisms For Regenerative Intervertebral Disc Healing During Early Growth In Mice, Danielle N. D'Erminio

Dissertations and Theses

Annulus Fibrosus (AF) defects of intervertebral discs (IVDs) cause painful disability, for example when herniated tissue compresses against adjacent nerves. Discectomy, the current standard of treatment to address herniation, does not repair AF defects and can result in re-herniation and recurrent pain. As such there is a need for improved AF repair strategies. It has previously been established that neonatal mice functionally regenerate following severe AF injury providing a model of successful innate AF repair processes that contrasts the poor healing of adult mice. This dissertation focuses on identifying mechanisms of AF regenerative healing in neonatal mice subjected to severe …

Compton Scattering Of Mammographic Soft X-Ray Beams By Alkali And Transition Metal Salt Filters Produce X-Ray Interference Zones That May Have Treatment Potential For Localized Cancer Lesions, Subhendra N. Sarkar, Eric Lobel, Sabina Rakhmatova, Derbie Desir, Somdat Kissoon, Daler Djuraev, Katie Tam

Publications and Research

In breast x-ray imaging scattered radiation adds 50% of harmful radiation dose from anisotropic Compton scattering mechanism. We have been working with double layered inorganic salt materials that can induce Compton scattering to the incident mammographic x ray beams (in 20-30 kVp range) with adequate isotropy (angular control). Typically metal nitrates and alkali halide salt layers are shown here to cause low energy radiation interference zones with high and low photon intensities and local flux heterogeneity in terms of flux covariance. Spatial variation of low energy photon flux creates concentrated and sparse radiation zones that may be used to induce …

Construction And Performance Optimization Of Bioconjugated Nanosensors For Early Detection Of Breast Cancer And Pro-Inflammatory Diseases, Pooja Gaikwad

Dissertations, Theses, and Capstone Projects

In recent years, nanosensors have emerged as a tool with strong potential in medical diagnostics. Single-walled carbon nanotube (SWCNT) based optical nanosensors have notably garnered interest due to the unique characteristics of their near-infrared fluorescence emission, including tissue transparency, photostability, and various chiralities with discrete absorption and fluorescence emission bands. Additionally, the optoelectronic properties of SWCNT are sensitive to the surrounding environment, which makes them suitable for in vitro and in vivo biosensing. Single-stranded (ss) DNA-wrapped SWCNTs have been reported as optical nanosensors for cancers and metabolic diseases. Breast cancer and cardiovascular diseases are the most common causes of death …

Multichannel Modulation Of Depolarizing And Repolarizing Ion Currents Increases The Positive Rate-Dependent Action Potential Prolongation, Candido Cabo

Publications and Research

Prolongation of the action potential duration (APD) could prevent reentrant arrhythmias if prolongation occurs at the fast excitation rates of tachycardia with minimal prolongation at slow excitation rates (i.e., if prolongation is positive rate-dependent). APD prolongation by current anti-arrhythmic agents is either reverse (larger APD prolongation at slow rates than at fast rates) or neutral (similar APD prolongation at slow and fast rates), which may not result in an effective anti-arrhythmic action. In this report we show that, in computer models of the human ventricular action potential, the combined modulation of both depolarizing and repolarizing ion currents results in a …

Electromagnetic Theory And Applications, Nicholas Madamopoulos, George Kliros

Open Educational Resources

This book intends to provide both the fundamentals of Electromagnetics but also some practical applications of the concepts covered. Having taught electromagnetics for several years, the authors feel that many times the field of electromagnetics comes as “old” and often times students do not appreciate the concepts and their importance in everyday applications. The authors intend to accompany the EM concepts with life applications. Hence, students may see the direct impact of the knowledge they acquire through the study of the field of electromagnetics and better appreciate the field.