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University of South Florida

2021

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Articles 61 - 90 of 112

Full-Text Articles in Medicine and Health Sciences

Evaluating The Use Of An Interdependent Group Contingency In Online Graduate Courses To Increase Engagement, Tiana Evans Mar 2021

Evaluating The Use Of An Interdependent Group Contingency In Online Graduate Courses To Increase Engagement, Tiana Evans

USF Tampa Graduate Theses and Dissertations

Enrollment in online academic programs has increased substantially in recent years (Allen & Seaman, 2011) and is especially relevant due to the COVID-19 pandemic (Khalil et al., 2020). Peer interaction and engagement opportunities are strategies associated with course satisfaction, test performance, and grades and should be incorporated into online courses (Conaway et al. 2005). Group contingencies have been commonly studied in face-to-face classrooms and have been found to be effective intervention in changing target behavior in elementary and secondary education settings (Barrish et al., 1969; Deshais et al., 2019; Harris & Sherman, 1973; Mitchell et al. 2015; Wiskow et al., …


Bait-And-Kill: Targeting A Novel Heme Biochemical Pathway In Hundreds Of Cancers, Christopher G. Marinescu Mar 2021

Bait-And-Kill: Targeting A Novel Heme Biochemical Pathway In Hundreds Of Cancers, Christopher G. Marinescu

USF Tampa Graduate Theses and Dissertations

Cancer cells are characterized by their ability to grow and proliferate in rates that far exceed normal cells by modifying their iron/heme metabolisms to levels higher than normal. This imbalance of heme biosynthesis can lead to cancer cells having a flux of heme intermediates to the point where they enter a state called heme-overdrive. Heme-overdrive is a process unique to a variety of cancers but absent in normal tissues. With this enhanced production, heme can act as an epigenic regulator for signaling proliferation (18). Through the novel strategy called ‘bait-and-kill,’ cancer cells will be coerced into a state of heme …


Case Studies In Applied Behavior Analysis: Self-Management Package To Increase Walking Behavior And Class Pass Intervention To Decrease Off-Task Behavior, Michelle Wood Mar 2021

Case Studies In Applied Behavior Analysis: Self-Management Package To Increase Walking Behavior And Class Pass Intervention To Decrease Off-Task Behavior, Michelle Wood

USF Tampa Graduate Theses and Dissertations

Case Study 1: Sedentary lifestyles are part of an increasing problem of social significance in the United States. Behavioral interventions can be used to effect change in this area and the target behavior of increase can be physical activity. Multiple behavioral change techniques used within an umbrella of a self-management intervention package were utilized to increase physical activity, more specifically walking behavior, for one participant. The study results showed that the self-management intervention package was effective in increasing walking behavior for the participant, and future research is discussed.

  • Applying behavioral interventions to the area of physical activity can assist clinicians …


Comparison Of The Effectiveness Of Disinfectant-Impregnated Wipes Versus Detergent Wipes For Surface Decontamination, Jacob Amadin Mar 2021

Comparison Of The Effectiveness Of Disinfectant-Impregnated Wipes Versus Detergent Wipes For Surface Decontamination, Jacob Amadin

USF Tampa Graduate Theses and Dissertations

Over time, there is an increased need to adopt more advanced and effective ways of disinfection. The emergence of the coronavirus-2019 (COVID-19) pandemic reminded the world on the importance of disinfection. Disinfection has been a routine in the healthcare setting. However, with the current pandemic problem, it is more prominently and persistently done in the domestic setting and other business settings beyond healthcare. As such, the use of most disinfectants and detergent wipes to achieve a near sanitized environment has become a common practice around the globe. This research presents the efficacy of disinfectant impregnated versus detergents wipes through comparison. …


Evaluating The Use Of Behavioral Skills Training To Teach Substitute Caregivers To Identify Hazards, Carlos Abarca Mar 2021

Evaluating The Use Of Behavioral Skills Training To Teach Substitute Caregivers To Identify Hazards, Carlos Abarca

USF Tampa Graduate Theses and Dissertations

The leading cause of death for children across the world is unintentional injuries (UNICEF 2001). Hazards such as accessible pools, poisons, and small ingestible items are the leading causes of unintentional injuries. Behavioral interventions such as Project 12-Ways/Safe Care have been used to teach parents how to be proactive in structuring a home free of accessible hazards by teaching the parents to identify and remove hazards in their home. Though the Project 12-Ways/Safe Care model has over 30 years of literature supporting its efficacy, the model has not been tested with substitute caregivers who often play a critical role in …


Does Time-Weighted Averaging For Wbgt And Metabolic Rate Work For Work-Recovery Cycles?, John W. Flach Mar 2021

Does Time-Weighted Averaging For Wbgt And Metabolic Rate Work For Work-Recovery Cycles?, John W. Flach

USF Tampa Graduate Theses and Dissertations

Heat stress affects thousands of works annually by causing heat-related illnesses. Wet bulb globe temperature (WBGT) is a widely accepted metric to assess the environmental contributions to heat stress. WBGT-based occupational exposure limits (OELs) include the ACGIH TLVs and the NIOSH RELs. The OEL threshold is adjusted downward with increasing metabolic rate. Further, there is an OEL for acclimatized and non-acclimatized workers. An often-recommended intervention found within a heat stress management program is work-recovery cycles to manage exposure. To prescribe work-recovery cycles, the common practice is to use time-weighted averaging (TWA) for the WBGT and the metabolic rate. The purpose …


Face Mask Use To Protect Against Covid-19; Importance Of Substrate, Fit, And User Tendencies, Evelyn Kassel Mar 2021

Face Mask Use To Protect Against Covid-19; Importance Of Substrate, Fit, And User Tendencies, Evelyn Kassel

USF Tampa Graduate Theses and Dissertations

In 2019, a novel respiratory illness appeared in China and spread rapidly though the country. It was determined that the SARS–CoV-2 virus was the cause of the COVID-19 pandemic. By the end of 2020, almost every continent was experiencing the effects of COVID-19. The virus caused health officials difficulty in determining its route of transmission. They worked tirelessly to discover it was spread via respiratory droplets. Panicked buyers wiped out protective equipment like medical masks and respirators, regardless of what was needed. Essential employees and first responders were subject to large scale personal protective equipment (PPE) shortages as health organizations …


Acclimatization Protocols And Their Outcomes, Ayub M. Odera Mar 2021

Acclimatization Protocols And Their Outcomes, Ayub M. Odera

USF Tampa Graduate Theses and Dissertations

Heat acclimatization provides the opportunity to better tolerate heat stress. Different methods are used to acclimatize participants as part of heat stress studies in the laboratory. The usual acclimatization protocols are greater than the occupational exposure limit represented by the ACGIH TLV® and NIOSH REL. The purpose of this paper was to examine the acclimatization state prior to and at the end of a one-week acclimatization program using two acclimatization protocols.

Prior heat stress studies at the University of South Florida (USF) used two heat stress conditions for participants’ acclimatization. Participants (n = 43) were evaluated using four different studies …


Assessing Prompting And Prompt-Fading Strategies In Individuals With Autism Spectrum Disorder, Ashley L. Frankenfield Mar 2021

Assessing Prompting And Prompt-Fading Strategies In Individuals With Autism Spectrum Disorder, Ashley L. Frankenfield

USF Tampa Graduate Theses and Dissertations

Autism spectrum disorder (ASD) is characterized by restricted interests, repetitive behaviors, and deficits in social and communication skills. In order to help a person with ASD improve their communication skills, behavior analysts should place emphasis on teaching intraverbal skills. Each person has a unique learner history, meaning that different prompts and prompt-fading techniques will result in the most accurate and efficient mastery of intraverbal skills for different people. Assessments were used to identify each participant’s most efficient combination of prompt and prompt-fading procedures in order to maximize one’s potential for learning new skills. Participants’ most efficient prompt/prompt-fading combinations resulted in …


The Distribution In Native Populations From Mexico And Central America Of The C677t Variant In The Mthfr Gene, Lucio A. Reyes Mar 2021

The Distribution In Native Populations From Mexico And Central America Of The C677t Variant In The Mthfr Gene, Lucio A. Reyes

USF Tampa Graduate Theses and Dissertations

Objectives: To explore evolutionary hypotheses for the high frequencies of a substitution in the methylenetetrahydrofolate reductase (MTHFR) gene, in Mexican and Central American Indigenous populations.

Materials and methods: We obtained allele frequencies for the C677T variant in the MTHFR gene and ecological information for 37 indigenous samples from Mexico and Central America. We calculated Hardy–Weinberg equilibrium and computed Fst statistics. We computed correlations between the samples' allele frequencies and ecological and geochemical variables.

Results: Many of the samples have extremely high frequencies of the T allele (q̄ = 0.62, median = 0.66). In this region, the frequency of the T …


Microbiological Study In A Gneissic Cave From Sri Lanka, With Special Focus On Potential Antimicrobial Activities, Ethige Isuru P. Silva, Pathmakumara Jayasingha, Saman Senanayake, Anura Dandeniya, Dona Helani Munasinghe Mar 2021

Microbiological Study In A Gneissic Cave From Sri Lanka, With Special Focus On Potential Antimicrobial Activities, Ethige Isuru P. Silva, Pathmakumara Jayasingha, Saman Senanayake, Anura Dandeniya, Dona Helani Munasinghe

International Journal of Speleology

The emergence of antibiotic resistance is a global health crisis, thus the search for novel antimicrobial compounds has become a continuous necessity. Underexplored and extreme environments, such as cave ecosystems, have been identified as a promising potential source for the discovery of novel microorganisms with novel antimicrobial compounds (AMC). This study presents the first cave microbiological investigation in Sri Lanka, with a special preference for bioprospecting of novel AMC. The cave sediment characterization demonstrated the presence of close to strong acidic conditions (pH 3.1 – 3.3) and thus indicates the possibility of isolating acidophilic microorganisms. Eight cave wall/ceiling fungal strains …


Eating And Body Image Disorders In The Time Of Covid19: An Anthropological Inquiry Into The Pandemic’S Effects On The Bodies, Theresa A. Stoddard Mar 2021

Eating And Body Image Disorders In The Time Of Covid19: An Anthropological Inquiry Into The Pandemic’S Effects On The Bodies, Theresa A. Stoddard

USF Tampa Graduate Theses and Dissertations

This thesis examines how the COVID-19 pandemic and its associated lifestyle changes are impacting the experiences of self-identifying women and females with body image disorders (BIDs) and/or eating disorders (EDs), focusing on the mental, physical, and emotional health of participants. Using surveys, person-centered semi-structured interviews, and autoethnography, I collected qualitative and quantitative data regarding the challenges, triumphs, hopes, and fears of participants regarding their EDs/BIDs during the pandemic and situated their experiences within their sociocultural context. Drawing on anthropological and psychological theory, I examine the data through the lenses of Scheper-Hughes’s and Lock’s “The Three Bodies” (the body politic, body …


Limited Point Of Care Ultrasound Clinical Decision Support Model For Work-Related Injuries Of The Shoulder Utilizing Bayesian Network, Gwen Marie Ayers Mar 2021

Limited Point Of Care Ultrasound Clinical Decision Support Model For Work-Related Injuries Of The Shoulder Utilizing Bayesian Network, Gwen Marie Ayers

USF Tampa Graduate Theses and Dissertations

This descriptive retrospective cohort study utilized a large Workers Compensation insurance database. Included in this study were 481 shoulder MRI's performed during calendar year 2017 that were (a) at least 2 weeks after the initial clinic visit, or (b) greater than 6 weeks after injury, but (c) not more than 3 months after the date of injury. Of the 481 cases, 432 were used to evaluate potential associations between the measured variables and generate a Bayesian network prediction model where only a few variables were required to accurately guide clinical decision making for rotator cuff and biceps tendon injuries. The …


Quality Of Life Of Older Adults With Complicated Grief Receiving Accelerated Resolution Therapy: A Mixed Methods Study, Tina M. Mason Mar 2021

Quality Of Life Of Older Adults With Complicated Grief Receiving Accelerated Resolution Therapy: A Mixed Methods Study, Tina M. Mason

USF Tampa Graduate Theses and Dissertations

Background: It is estimated that 10-15% of bereaved people in the general population are experiencing prolonged, complicated grief after a loss. Persons with complicated grief experience a disruption of usual, pre-death activities, destructive thoughts and actions, and can develop or find a worsening of comorbidities and impairments. All of these, in turn, worsen the experience. Complicated grief reactions can compound the stress of the loss, disrupting the normal functioning of the central nervous, immune, cardiovascular, neuroendocrine, and gastrointestinal systems, which in turn can contribute to poor quality of life for the surviving family member. However, due to a paucity of …


The Relationship Between New Graduate Registered Nurse Knowledge, Experiences, Attitudes, And Age Bias Toward The Older Adult, Michelle Fox Mar 2021

The Relationship Between New Graduate Registered Nurse Knowledge, Experiences, Attitudes, And Age Bias Toward The Older Adult, Michelle Fox

USF Tampa Graduate Theses and Dissertations

There had been a lack of research on the relationship between a new graduate Registered Nurses’ knowledge, experiences, attitudes, and age bias toward older adults. The purpose of this study was to investigate whether there was a relationship between new graduate Registered Nurses’ knowledge, experiences, attitudes, and age bias toward older adults.

The researcher used correlational, non-experimental, quantitative design for this study. The instruments used in this study were the Facts on Aging Quiz, the Kogan Attitude Toward Old People scale, and a demographic questionnaire. Descriptive statistics were used to analyze the demographic data and correlation coefficients were used to …


Does Better A1c Control Worsen Osteoarthritis? An Electronic Health Record Cross-Sectional Study, Sarah C. Cattaneo Mar 2021

Does Better A1c Control Worsen Osteoarthritis? An Electronic Health Record Cross-Sectional Study, Sarah C. Cattaneo

USF Tampa Graduate Theses and Dissertations

Obesity is a major risk factor for osteoarthritis (OA). There is evidence that diabetes also increases risk. Our hypothesis is that A1C is a predictor of OA severity. The aim is to investigate the association between A1C, BMI, and knee and hip OA severity. This is a cross-sectional study within the Veterans Health Administration (VHA) database containing 818 patients with diagnosed diabetes. Patients at one VHA facility with recorded diabetes in fiscal year 2020 were identified. A1C and BMI data was obtained from the electronic health record. Chart reviews were performed to collect data on imaging reports of weight-bearing joints …


Bone Microenvironmental Control Of Skeletal Malignancy, Chen Hao Lo Feb 2021

Bone Microenvironmental Control Of Skeletal Malignancy, Chen Hao Lo

USF Tampa Graduate Theses and Dissertations

Bone is a common site of metastasis for many solid malignancies. Bone-metastatic cancers pose a significant clinical problem worldwide and is among the main causes for cancer patient morbidity and mortality. Patients with advanced bone-metastatic diseases often present with either osteolytic or osteogenic bone diseases as their cancers progress. These bone pathologies are products of the cancer co-opting the local bone remodeling stroma to yield important growth nutrients and factors. Unfortunately, skeletal metastases remain incurable and are fatal. Identifying and understanding the causal multicellular and molecular interactions underlying skeletal malignancies can yield crucial ideas for targeting and inhibiting disease progression. …


Review Of Innumeracy In The Wild: Misunderstanding And Misusing Numbers By Ellen Peters, Gizem Karaali Jan 2021

Review Of Innumeracy In The Wild: Misunderstanding And Misusing Numbers By Ellen Peters, Gizem Karaali

Numeracy

Ellen Peters’s new book Innumeracy in the Wild: Misunderstanding and Misusing Numbers (Oxford University Press, 2020) is a whirlwind tour of psychological research on numeracy and its interactions with decision-making. The book is packed full of convincing arguments about the impact of numeracy and innumeracy on people's decisions and life outcomes, piles of supporting evidence and relevant references, and detailed expositions of multitudes of research results. Thus, it can serve the motivated reader well as a comprehensive literature review of psychologically oriented research on numeracy and decision-making.


The Finite Size Effects And Two-State Paradigm Of Protein Folding, Artem Badasyan, Matjaz Valant, Jože Grdadolnik, Vladimir N. Uversky Jan 2021

The Finite Size Effects And Two-State Paradigm Of Protein Folding, Artem Badasyan, Matjaz Valant, Jože Grdadolnik, Vladimir N. Uversky

Molecular Medicine Faculty Publications

The coil to globule transition of the polypeptide chain is the physical phenomenon behind the folding of globular proteins. Globular proteins with a single domain usually consist of about 30 to 100 amino acid residues, and this finite size extends the transition interval of the coil-globule phase transition. Based on the pedantic derivation of the two-state model, we introduce the number of amino acid residues of a polypeptide chain as a parameter in the expressions for two cooperativity measures and reveal their physical significance. We conclude that the 𝑘2 measure, defined as the ratio of van ’t Hoff and calorimetric …


On The Roles Of Intrinsically Disordered Proteins And Regions In Cell Communication And Signaling, Sarah E. Bondos, A. Keith Dunker, Vladimir N. Uversky Jan 2021

On The Roles Of Intrinsically Disordered Proteins And Regions In Cell Communication And Signaling, Sarah E. Bondos, A. Keith Dunker, Vladimir N. Uversky

Molecular Medicine Faculty Publications

For proteins, the sequence → structure → function paradigm applies primarily to enzymes, transmembrane proteins, and signaling domains. This paradigm is not universal, but rather, in addition to structured proteins, intrinsically disordered proteins and regions (IDPs and IDRs) also carry out crucial biological functions. For these proteins, the sequence → IDP/IDR ensemble → function paradigm applies primarily to signaling and regulatory proteins and regions. Often, in order to carry out function, IDPs or IDRs cooperatively interact, either intra- or inter-molecularly, with structured proteins or other IDPs or intermolecularly with nucleic acids. In this IDP/IDR thematic collection published in Cell Communication …


Predicting Associations Of Mirnas And Candidate Gastric Cancer Genes For Nanomedicine, Aigul Akimniyazova, Anna Pyrkova, Vladimir N. Uversky, Anatoliy Ivashchenko Jan 2021

Predicting Associations Of Mirnas And Candidate Gastric Cancer Genes For Nanomedicine, Aigul Akimniyazova, Anna Pyrkova, Vladimir N. Uversky, Anatoliy Ivashchenko

Molecular Medicine Faculty Publications

Nanoscale miRNAs regulate the synthesis of most human proteins involved in differentiation, proliferation, cell cycle, apoptosis, and other processes associated with the growth and the development of an organism. miRNAs also play a number of important roles in the development of gastric cancer. In this work, we studied the quantitative characteristics of miRNA interactions with 69 candidate gastric cancer genes using bioinformatics approaches. To this end, the MirTarget program was used, which determines the characteristics of miRNA binding to mRNA in the 5′UTR, CDS, and 3′UTR. Associations of miRNAs with alternative target genes and associations of genes with alternative miRNAs …


Serotonin Promotes Serum Albumin Interaction With The Monomeric Amyloid Β Peptide, Ekaterina A. Litus, Alexei S. Kazakov, Eugenia I. Deryusheva, Ekaterina L. Nemashkalova, Marina P. Shevelyova, Aliya A. Nazipova, Maria E. Permyakova, Elena V. Raznikova, Vladimir N. Uversky, Sergei E. Permyakov Jan 2021

Serotonin Promotes Serum Albumin Interaction With The Monomeric Amyloid Β Peptide, Ekaterina A. Litus, Alexei S. Kazakov, Eugenia I. Deryusheva, Ekaterina L. Nemashkalova, Marina P. Shevelyova, Aliya A. Nazipova, Maria E. Permyakova, Elena V. Raznikova, Vladimir N. Uversky, Sergei E. Permyakov

Molecular Medicine Faculty Publications

Prevention of amyloid β peptide (Aβ) deposition via facilitation of Aβ binding to its natural depot, human serum albumin (HSA), is a promising approach to preclude Alzheimer’s disease (AD) onset and progression. Previously, we demonstrated the ability of natural HSA ligands, fatty acids, to improve the affinity of this protein to monomeric Aβ by a factor of 3 (BBRC, 510(2), 248–253). Using plasmon resonance spectroscopy, we show here that another HSA ligand related to AD pathogenesis, serotonin (SRO), increases the affinity of the Aβ monomer to HSA by a factor of 7/17 for Aβ40/Aβ42, respectively. Meanwhile, the structurally homologous SRO …


The Role Of Non-Specific Interactions In Canonical And Alt-Associated Pml-Bodies Formation And Dynamics, Alexander V. Fonin, Sergey A. Silonov, Olesya G. Shpironok, Iuliia A. Antifeeva, Alexey V. Petukhov, Anna E. Romanovich, Irina M. Kuznetsova, Vladimir N. Uversky, Konstantin K. Turoverov Jan 2021

The Role Of Non-Specific Interactions In Canonical And Alt-Associated Pml-Bodies Formation And Dynamics, Alexander V. Fonin, Sergey A. Silonov, Olesya G. Shpironok, Iuliia A. Antifeeva, Alexey V. Petukhov, Anna E. Romanovich, Irina M. Kuznetsova, Vladimir N. Uversky, Konstantin K. Turoverov

Molecular Medicine Faculty Publications

In this work, we put forward a hypothesis about the decisive role of multivalent nonspecific interactions in the early stages of PML body formation. Our analysis of the PML isoform sequences showed that some of the PML isoforms, primarily PML-II, are prone to phase separation due to their polyampholytic properties and the disordered structure of their C-terminal domains. The similarity of the charge properties of the C-terminal domains of PML-II and PML-VI isoforms made it possible for the first time to detect migration of PML-VI from PML bodies to the periphery of the cell nucleus, similar to the migration of …


Association Analysis Of Genetic Variants Of Sodium Taurocholate Co-Transporting Polypeptide Ntcp Gene (Slc10a1) And Hbv Infection Status In A Cohort Of Egyptian Patients, Maissa El Said El Raziky, Naglaa Ali Zayed, Yasmin Saad Ibrahim, Fatma Elrashdy, Rasha Mohamad Hosny Shahin, Mohamed Hassany, Magdy El Serafy, Wahid Doss, Vladimir N. Uversky, Ayman Yosry, Hadeel Gamal Eldeen Jan 2021

Association Analysis Of Genetic Variants Of Sodium Taurocholate Co-Transporting Polypeptide Ntcp Gene (Slc10a1) And Hbv Infection Status In A Cohort Of Egyptian Patients, Maissa El Said El Raziky, Naglaa Ali Zayed, Yasmin Saad Ibrahim, Fatma Elrashdy, Rasha Mohamad Hosny Shahin, Mohamed Hassany, Magdy El Serafy, Wahid Doss, Vladimir N. Uversky, Ayman Yosry, Hadeel Gamal Eldeen

Molecular Medicine Faculty Publications

Background: Single nucleotide polymorphisms (SNPs) in the SLC10A1 gene, coding for a functional receptor of hepatitis B virus (HBV), sodium taurocholate co-transporting polypeptide (NTCP), may influence the susceptibility, outcome, and disease course of HBV infection in some populations. Aim: to determine the prevalence of SNPs of the NTCP gene, rs2296651 and rs943277, and their relationship with chronic HBV infection in a group of Egyptian patients. Methods: One hundred and thirty seven patients with HBV and 65 healthy controls were enrolled, and the patients were divided into two groups; group I chronic HBV infection (68 patients with normal ALT and minimal …


Potential Molecular Mechanisms Of Rare Anti-Tumor Immune Response By Sars-Cov-2 In Isolated Cases Of Lymphomas, Debmalya Barh, Sandeep Tiwary, Lucas Gabriel Rodrigues Gomes, Marianna E. Weener, Khalid J. Alzahrani, Khalaf F. Alsharif, Alaa A. A. Aljabali, Murtaza M. Tambuwala, Kenneth Lundstrom, Sk. Sarif Hassan, Ángel Serrano-Aroca, Kazuo Takayama, Preetam Ghosh, Elrashdy M. Redwan, Bruno Silva Andrade, Siomar De Castro Soares, Vasco Azevedo, Vladimir N. Uversky Jan 2021

Potential Molecular Mechanisms Of Rare Anti-Tumor Immune Response By Sars-Cov-2 In Isolated Cases Of Lymphomas, Debmalya Barh, Sandeep Tiwary, Lucas Gabriel Rodrigues Gomes, Marianna E. Weener, Khalid J. Alzahrani, Khalaf F. Alsharif, Alaa A. A. Aljabali, Murtaza M. Tambuwala, Kenneth Lundstrom, Sk. Sarif Hassan, Ángel Serrano-Aroca, Kazuo Takayama, Preetam Ghosh, Elrashdy M. Redwan, Bruno Silva Andrade, Siomar De Castro Soares, Vasco Azevedo, Vladimir N. Uversky

Molecular Medicine Faculty Publications

Recently, two cases of complete remission of classical Hodgkin lymphoma (cHL) and follicular lymphoma (FL) after SARS-CoV-2 infection were reported. However, the precise molecular mechanism of this rare event is yet to be understood. Here, we hypothesize a potential anti-tumor immune response of SARS-CoV-2 and based on a computational approach show that: (i) SARS-CoV-2 Spike-RBD may bind to the extracellular domains of CD15, CD27, CD45, and CD152 receptors of cHL or FL and may directly inhibit cell proliferation. (ii) Alternately, upon internalization after binding to these CD molecules, the SARS-CoV-2 membrane (M) protein and ORF3a may bind to gamma-tubulin complex …


The Participation Of The Intrinsically Disordered Regions Of The Bhlh-Pas Transcription Factors In Disease Development, Marta Kolonko-Adamska, Vladimir N. Uversky, Beata Greb-Markiewicz Jan 2021

The Participation Of The Intrinsically Disordered Regions Of The Bhlh-Pas Transcription Factors In Disease Development, Marta Kolonko-Adamska, Vladimir N. Uversky, Beata Greb-Markiewicz

Molecular Medicine Faculty Publications

The basic helix–loop–helix/Per-ARNT-SIM (bHLH-PAS) proteins are a family of transcription factors regulating expression of a wide range of genes involved in different functions, ranging from differentiation and development control by oxygen and toxins sensing to circadian clock setting. In addition to the well-preserved DNA-binding bHLH and PAS domains, bHLH-PAS proteins contain long intrinsically disordered C-terminal regions, responsible for regulation of their activity. Our aim was to analyze the potential connection between disordered regions of the bHLH-PAS transcription factors, post-transcriptional modifications and liquid-liquid phase separation, in the context of disease-associated missense mutations. Highly flexible disordered regions, enriched in short motives which …


Disphscan: A Multi-Sequence Web Tool For Predicting Protein Disorder As A Function Of Ph, Carlos Pintado-Grima, Valentín Iglesias, Jaime Santos, Vladimir N. Uversky, Salvador Ventura Jan 2021

Disphscan: A Multi-Sequence Web Tool For Predicting Protein Disorder As A Function Of Ph, Carlos Pintado-Grima, Valentín Iglesias, Jaime Santos, Vladimir N. Uversky, Salvador Ventura

Molecular Medicine Faculty Publications

Proteins are exposed to fluctuating environmental conditions in their cellular context and during their biotechnological production. Disordered regions are susceptible to these fluctuations and may experience solvent-dependent conformational switches that affect their local dynamism and activity. In a recent study, we modeled the influence of pH in the conformational state of IDPs by exploiting a charge–hydrophobicity diagram that considered the effect of solution pH on both variables. However, it was not possible to predict context-dependent transitions for multiple sequences, precluding proteome-wide analysis or the screening of collections of mutants. In this article, we present DispHScan, the first computational tool dedicated …


Structural Protein Analysis Of Driver Gene Mutations In Conjunctival Melanoma, Mak B. Djulbegovic, Vladimir N. Uversky, J. William Harbour, Anat Galor, Carol L. Karp Jan 2021

Structural Protein Analysis Of Driver Gene Mutations In Conjunctival Melanoma, Mak B. Djulbegovic, Vladimir N. Uversky, J. William Harbour, Anat Galor, Carol L. Karp

Molecular Medicine Faculty Publications

In recent years, there has been tremendous enthusiasm with respect to detailing the genetic basis of many neoplasms, including conjunctival melanoma (CM). We aim to analyze five proteins associated with CM, namely BRAF, NRAS, c-KIT, NF1, and PTEN. We evaluated each protein for its intrinsically disordered protein regions (IDPRs) and its protein-protein interactions (PPI) with the Predictor of Natural Disordered Protein Regions (PONDR®) and the Search Tool for the Retrieval of Interacting Genes (STRING®). Our PONDR® analysis found high levels of IDPRs in all five proteins with mutations linked to CM. The highest levels of IDPRs were in BRAF (45.95%), …


Covid-19 Vaccines And Thrombosis—Roadblock Or Dead-End Street?, Kenneth Lundstrom, Debmalya Barh, Bruce D. Uhal, Kazuo Takayama, Alaa A. A. Aljabali, Tarek Mohamed Abd El-Aziz, Amos Lal, Elrashdy M. Redwan, Parise Adadi, Gaurav Chauhan, Samendra P. Sherchan, Gajendra Kumar Azad, Nima Rezaei, Ángel Serrano-Aroca, Nicolas G. Bazan, Sk. Sarif Hassan, Pritam Kumar Panda, Pabitra Pal Choudhury, Damiano Pizzol, Ramesh Kandimalla, Wagner Baetas-Da-Cruz, Yogendra Kumar Mishra, Giorgio Palù, Adam M. Brufsky, Murtaza M. Tambuwala, Vladimir N. Uversky Jan 2021

Covid-19 Vaccines And Thrombosis—Roadblock Or Dead-End Street?, Kenneth Lundstrom, Debmalya Barh, Bruce D. Uhal, Kazuo Takayama, Alaa A. A. Aljabali, Tarek Mohamed Abd El-Aziz, Amos Lal, Elrashdy M. Redwan, Parise Adadi, Gaurav Chauhan, Samendra P. Sherchan, Gajendra Kumar Azad, Nima Rezaei, Ángel Serrano-Aroca, Nicolas G. Bazan, Sk. Sarif Hassan, Pritam Kumar Panda, Pabitra Pal Choudhury, Damiano Pizzol, Ramesh Kandimalla, Wagner Baetas-Da-Cruz, Yogendra Kumar Mishra, Giorgio Palù, Adam M. Brufsky, Murtaza M. Tambuwala, Vladimir N. Uversky

Molecular Medicine Faculty Publications

Two adenovirus-based vaccines, ChAdOx1 nCoV-19 and Ad26.COV2.S, and two mRNA-based vaccines, BNT162b2 and mRNA.1273, have been approved by the European Medicines Agency (EMA), and are invaluable in preventing and reducing the incidence of coronavirus disease-2019 (COVID-19). Recent reports have pointed to thrombosis with associated thrombocytopenia as an adverse effect occurring at a low frequency in some individuals after vaccination. The causes of such events may be related to SARS-CoV-2 spike protein interactions with different C-type lectin receptors, heparan sulfate proteoglycans (HSPGs) and the CD147 receptor, or to different soluble splice variants of the spike protein, adenovirus vector interactions with the …


Analysis Of The Dark Proteome Of Chandipura Virus Reveals Maximum Propensity For Intrinsic Disorder In Phosphoprotein, Nishi R. Sharma, Kundlik Gadhave, Prateek Kumar, Mohammad Saif, Md. M. Khan, Debi P. Sarkar, Vladimir N. Uversky, Rajanish Giri Jan 2021

Analysis Of The Dark Proteome Of Chandipura Virus Reveals Maximum Propensity For Intrinsic Disorder In Phosphoprotein, Nishi R. Sharma, Kundlik Gadhave, Prateek Kumar, Mohammad Saif, Md. M. Khan, Debi P. Sarkar, Vladimir N. Uversky, Rajanish Giri

Molecular Medicine Faculty Publications

Chandipura virus (CHPV, a member of the Rhabdoviridae family) is an emerging pathogen that causes rapidly progressing influenza-like illness and acute encephalitis often leading to coma and death of the human host. Given several CHPV outbreaks in Indian sub-continent, recurring sporadic cases, neurological manifestation, and high mortality rate of this infection, CHPV is gaining global attention. The ‘dark proteome’ includes the whole proteome with special emphasis on intrinsically disordered proteins (IDP) and IDP regions (IDPR), which are proteins or protein regions that lack unique (or ordered) three-dimensional structures within the cellular milieu. These proteins/regions, however, play a number of vital …