Omar A. Saleh
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View article: Cooperation and Competition of Base Pairing and Electrostatic Interactions in Mixtures of DNA Nanostars and Polylysine
Cooperation and Competition of Base Pairing and Electrostatic Interactions in Mixtures of DNA Nanostars and Polylysine Open
Phase separation in biomolecular mixtures can result from multiple physical interactions, which may act either complementarily or antagonistically. In the case of protein-nucleic acid mixtures, charge plays a key role but can have contrast…
View article: Fibrinolysis for Apical Thrombus as a Bridge to Emergent Valve-in-Valve Transcatheter Aortic Valve Replacement
Fibrinolysis for Apical Thrombus as a Bridge to Emergent Valve-in-Valve Transcatheter Aortic Valve Replacement Open
Low-dose, slow-infusion fibrinolysis coupled with echocardiographic monitoring may serve as bridge therapy to urgent structural cardiology intervention in carefully selected patients with LV thrombus and cardiogenic shock.
View article: Blockchain-Integrated Secure Authentication Framework for Smart Grid IoT Using Energy-Aware Consensus Mechanisms
Blockchain-Integrated Secure Authentication Framework for Smart Grid IoT Using Energy-Aware Consensus Mechanisms Open
Integrating IoT devices into smart grids raises some hard problems related to safe data sharing, the ability to grow, and energy use. Blockchain provides a safe way to check identities without a central authority. Typical ways to confirm t…
View article: Secure edge-based smart grid communication using lightweight authentication modeling with autoencoders and real-world data
Secure edge-based smart grid communication using lightweight authentication modeling with autoencoders and real-world data Open
The growing use of edge computing in intelligent grids presents security issues as a result of the limited processing capabilities of edge devices and the intensifying complexities of cyberattacks. The conventional authentication schemes b…
View article: Photonics-Driven Characterization of Highly Energetic Heavy Ion-Induced Modifications in GaAs Single Crystals Using Au and I Ions
Photonics-Driven Characterization of Highly Energetic Heavy Ion-Induced Modifications in GaAs Single Crystals Using Au and I Ions Open
Gallium arsenide (GaAs) (100) samples were irradiated with 1.16 GeV Au ions and 30 MeV I ions at room temperature. The impact of ion fluences, ranging from 5 × 1010 to 2.5 × 1012 Au ions cm−2 and 7 × 1011 to 1 × 1014 I ions cm−2 at a 75° i…
View article: Condensation and activator/repressor control of a transcription-regulated biomolecular liquid
Condensation and activator/repressor control of a transcription-regulated biomolecular liquid Open
Cells operate in part by compartmentalizing chemical reactions. For example, recent work has shown that chromatin, the material that contains the cell's genome, can auto-regulate its structure by utilizing reaction products (proteins, RNA)…
View article: Nucleic acid liquids
Nucleic acid liquids Open
The confluence of recent discoveries of the roles of biomolecular liquids in living systems and modern abilities to precisely synthesize and modify nucleic acids (NAs) has led to a surge of interest in liquid phases of NAs. These phases ca…
View article: Abstract 1471 Developing a specialized course to provide students with hands-on experience in understanding protein structure and function through protein modeling
Abstract 1471 Developing a specialized course to provide students with hands-on experience in understanding protein structure and function through protein modeling Open
Through the Farquhar Honors College (FHC) at Nova Southeastern University (NSU), an education model has been developed, implemented, and oriented towards integrating protein modeling research into students' undergraduate studies. Originall…
View article: From isolated polyelectrolytes to star-like assemblies: the role of sequence heterogeneity on the statistical structure of the intrinsically disordered neurofilament-low tail domain
From isolated polyelectrolytes to star-like assemblies: the role of sequence heterogeneity on the statistical structure of the intrinsically disordered neurofilament-low tail domain Open
Intrinsically disordered proteins (IDPs) are a subset of proteins that lack stable secondary structure. Given their polymeric nature, previous mean-field approximations have been used to describe the statistical structure of IDPs. However,…
View article: Correction to: Pincus blob elasticity in an intrinsically disordered protein
Correction to: Pincus blob elasticity in an intrinsically disordered protein Open
View article: From isolated polyelectrolytes to star-like assemblies: The role of sequence heterogeneity on the statistical structure of the intrinsically disordered Neurofilament-low tail domain
From isolated polyelectrolytes to star-like assemblies: The role of sequence heterogeneity on the statistical structure of the intrinsically disordered Neurofilament-low tail domain Open
Intrinsically disordered proteins (IDPs) are a subset of proteins that lack stable secondary structure. Given their polymeric nature, previous mean-field approximations have been used to describe the statistical structure of IDPs. However,…
View article: Controlling the size and adhesion of DNA droplets using surface-active DNA molecules
Controlling the size and adhesion of DNA droplets using surface-active DNA molecules Open
Liquid droplets of biomolecules serve as organizers of the cellular interior and are of interest in biosensing and biomaterials applications. Here, we investigate means to tune the interfacial properties of a model biomolecular liquid cons…
View article: Towards rational design of power-law rheology via DNA nanostar networks
Towards rational design of power-law rheology via DNA nanostar networks Open
We measure the rheology of transient hydrogels comprised of a single type of DNA nanostar that makes both strong and weak bonds. These gels exhibit power-law frequency-dependence of their storage and loss moduli, with scaling exponents tha…
View article: Spatial Organization of Phase-Separated DNA Droplets
Spatial Organization of Phase-Separated DNA Droplets Open
Many recent studies of liquid-liquid phase separation in biology focus on phase separation as a dynamic control mechanism for cellular function, but it can also result in complex mesoscopic structures. We primarily investigate a model syst…
View article: Intramolecular structural heterogeneity altered by long-range contacts in an intrinsically disordered protein
Intramolecular structural heterogeneity altered by long-range contacts in an intrinsically disordered protein Open
Short-range interactions and long-range contacts drive the 3D folding of structured proteins. The proteins’ structure has a direct impact on their biological function. However, nearly 40% of the eukaryotes proteome is composed of intrinsic…
View article: Vacuole dynamics and popping-based motility in liquid droplets of DNA
Vacuole dynamics and popping-based motility in liquid droplets of DNA Open
Liquid droplets of biomolecules play key roles in organizing cellular behavior, and are also technologically relevant, yet physical studies of dynamic processes of such droplets have generally been lacking. Here, we investigate and quantif…
View article: Intramolecular Structural Heterogeneity altered by Long-range Contacts in an Intrinsically Disordered Protein
Intramolecular Structural Heterogeneity altered by Long-range Contacts in an Intrinsically Disordered Protein Open
Short-range interactions and long-range contacts drive the 3D folding of structured proteins. The proteins' structure has a direct impact on their biological function. However, nearly 40% of the eukaryotes proteome is composed of intrinsic…
View article: Spatial Organization of Phase-separated DNA Droplets
Spatial Organization of Phase-separated DNA Droplets Open
Many recent studies of liquid-liquid phase separation in biology focus on phase separation as a dynamic control mechanism for cellular function, but it can also result in complex mesoscopic structures. We primarily investigate a model syst…
View article: Controlling liquid-liquid phase behavior with an active fluid
Controlling liquid-liquid phase behavior with an active fluid Open
Demixing of binary liquids is a ubiquitous transition, which is explained using a well-established thermodynamic formalism that requires equality of intensive thermodynamics parameters across the phase boundaries. Demixing transitions also…
View article: Tweezepy: A Python package for calibrating forces in single-molecule video-tracking experiments
Tweezepy: A Python package for calibrating forces in single-molecule video-tracking experiments Open
Single-molecule force spectroscopy (SMFS) instruments (e.g., magnetic and optical tweezers) often use video tracking to measure the three-dimensional position of micron-scale beads under an applied force. The force in these experiments is …
View article: Intrinsically disordered proteins at the nano-scale
Intrinsically disordered proteins at the nano-scale Open
The human proteome is enriched in proteins that do not fold into a stable 3D structure. These intrinsically disordered proteins (IDPs) spontaneously fluctuate between a large number of configurations in their native form. Remarkably, the d…
View article: Tweezepy: A Python package for calibrating forces in single-molecule video-tracking experiments
Tweezepy: A Python package for calibrating forces in single-molecule video-tracking experiments Open
Single-molecule force spectroscopy (SMFS) instruments (e.g., magnetic and optical tweezers) often use video tracking to measure the three-dimensional position of micron-scale beads under an applied force. The force in these experiments is …
View article: Automated Labeling of Hyperspectral Images for Oil Spills Classification
Automated Labeling of Hyperspectral Images for Oil Spills Classification Open
The constant increase in oil demand caused a huge loss in the form of oil spills during the process of exporting the product, which leads to an increase in pollution, especially in the marine environment. This research assists in providing…
View article: A DNA-Small Molecule Conjugate Modulates the Complexity of Multicomponent Supramolecular Polymerization in Biorelevant Environments
A DNA-Small Molecule Conjugate Modulates the Complexity of Multicomponent Supramolecular Polymerization in Biorelevant Environments Open
Aqueous multicomponent supramolecular systems hold great promise for designing synthetic biomaterials with tailored properties. Inspired by this notion, we explore the consequences of modulating the assembly behaviour of supramolecular pol…
View article: A DNA-Small Molecule Conjugate Modulates the Complexity of Multicomponent Supramolecular Polymerization in Biorelevant Environments
A DNA-Small Molecule Conjugate Modulates the Complexity of Multicomponent Supramolecular Polymerization in Biorelevant Environments Open
Aqueous multicomponent supramolecular systems hold great promise for designing synthetic biomaterials with tailored properties. Inspired by this notion, we explore the consequences of modulating the assembly behaviour of supramolecular pol…
View article: Single-Molecule Stretching Shows Glycosylation Sets Tension in the Hyaluronan-Aggrecan Bottlebrush
Single-Molecule Stretching Shows Glycosylation Sets Tension in the Hyaluronan-Aggrecan Bottlebrush Open
View article: Glassy Dynamics and Memory Effects in an Intrinsically Disordered Protein Construct
Glassy Dynamics and Memory Effects in an Intrinsically Disordered Protein Construct Open
Glassy, nonexponential relaxations in globular proteins are typically attributed to conformational behaviors that are missing from intrinsically disordered proteins. Yet, we show that single molecules of a disordered-protein construct disp…
View article: Enzymatic degradation of liquid droplets of DNA is modulated near the phase boundary
Enzymatic degradation of liquid droplets of DNA is modulated near the phase boundary Open
Significance Biomolecules, such as proteins or nucleic acids, can condense into liquid droplets whose biological or technological function depends on interactions with other solutes. We explore such interactions using a system of self-asse…
View article: Loss of calpains-1 and -2 prevents repair of plasma membrane scrape injuries, but not small pores, and induces a severe muscular dystrophy
Loss of calpains-1 and -2 prevents repair of plasma membrane scrape injuries, but not small pores, and induces a severe muscular dystrophy Open
The ubiquitous calpains, calpain-1 and -2, play important roles in Ca 2+ -dependent membrane repair. Mechanically active tissues like skeletal muscle are particularly reliant on mechanisms to repair and remodel membrane injury, such as tho…
View article: Investigating the Use of Pozzolans in Portland Cement Concrete and Inorganic Polymer Mortar
Investigating the Use of Pozzolans in Portland Cement Concrete and Inorganic Polymer Mortar Open
The use of pozzolans offers promising signs for a change in the cement industry. Pozzolan in its natural and artificial forms can be used to improve cement properties or to synthesize new cement. This study investigates the use of pozzolan…