gebhart/patrepeval huggingface dataset:
RF09 | PSUN06 ARMC5 as a possible regulator of acetylation in the adrenal cortex in partnership with SIRT1 (2022)

Abstract ARMC5 is a tumor suppressor gene responsible for 20 to 40% of Primary Bilateral Macronodular Adrenal Hyperplasia (PBMAH) with a function that remains unclear. Based on pathway analysis from RNAseq results obtained on zebrafish models of transient Armc5 up- and down-regulation, we identified transcriptional alterations of several members of SIRT1 (sirtuin (silent mating type information regulation 2 homolog) 1) signaling in our models and hypothesized that ARMC5 can regulate SIRT1 and its signaling in adrenocortical cells. Accordingly, the expression of the desacetylase SIRT1 is significantly increased in PBMAH tissues mutated for ARMC5 compared to tumors without mutations. However, this overexpression of SIRT1 is associated with an elevation of the profile of acetylated protein in the absence of ARMC5 suggesting that SIRT1 activity is actually decreased and that SIRT1 expression could increase to maintain its activity. Consistently, the measurement of SIRT activity on PBMAH tissues demonstrate a decrease of its activity when ARMC5 is mutated. Similar results are obtained in adrenal cells of 18-month-old Armc5+/- mice that are also hyper-corticosteronemic. Altogether, these data support that ARMC5 could regulate SIRT1 expression and/or activity. In vitro measurement of purified SIRT1 activity in the presence of ARMC5-enriched protein extracts demonstrated that the presence of ARMC5 protein does indeed alter SIRT1 activity. We hypothesize, therefore, that ARMC5 may be a new regulator of SIRT1 function but the underlying mechanism and the consequences of abnormal acetylated proteins on adrenocortical function require further investigation. Presentation: Saturday, June 11, 2022 1:36 p.m. - 1:41 p.m., Sunday, June 12, 2022 12:30 p.m. - 2:30 p.m.
Highly efficient SERS substrate for direct detection of explosive TNT using popcorn-shaped gold nanoparticle-functionalized SWCNT hybrid (2012)

This paper reports for the first time the development of a large-scale SERS substrate from a popcorn-shaped gold nanoparticle-functionalized single walled carbon nanotubes hybrid thin film for the selective and highly sensitive detection of explosive TNT material at a 100 femtomolar (fM) level.
Semibiological Molecular Machine with an Implemented “AND” Logic Gate for Regulation of Protein Folding (2006)

A semibiological molecular machine with an implemented "AND" logic gate was developed, which was capable of controlling the folding process of proteins in response to ATP and light as input stimuli. The molecular design made use of a genetically engineered chaperonin GroEL bearing, at both entrance parts of its cylindrical cavity, cysteine residues, which were functionalized by an azobenzene derivative to construct photoresponsive mechanical gates (azo-GroEL). This engineered chaperonin trapped denatured green fluorescent protein (GFP(denat)) and prohibited its refolding. However, when hosting azo-GroEL detected ATP (input stimulus 1) and UV light (input stimulus 2) at the same time, it quickly released GFP(denat) to allow its refolding. In contrast, reception of either input stimulus 1 or 2 resulted in only very slow or no substantial refolding of GFP(denat). Implementation of such "AND" logic gate mechanisms in mechanically driven biomolecular systems is an important step toward the design of secured drug delivery systems.
Supplementary Figure Legends from Targeting Myddosome Signaling in Waldenström's Macroglobulinemia with the Interleukin-1 Receptor-Associated Kinase 1/4 Inhibitor R191 (2023)

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Enhanced Virulence of the Escherichia coli O157:H7 Spinach-Associated Outbreak Strain in Two Animal Models Is Associated with Higher Levels of Stx2 Production after Induction with Ciprofloxacin (2014)

Shiga toxin (Stx)-producing Escherichia coli (STEC) causes hemorrhagic colitis and the hemolytic-uremic syndrome (HUS). STEC strains may produce Stx1a and/or Stx2a or variants of either toxin. A 2006 spinach-associated outbreak of STEC O157:H7 resulted in higher hospitalization and HUS rates than previous STEC outbreaks. The spinach isolate, strain K3995, contains both stx2a and stx2c. We hypothesized that the enhanced virulence of K3995 reflects the combination of stx2 alleles (carried on lysogenic phages) and/or the amount of Stx2 made by that strain. We compared the virulence of K3995 to those of other O157:H7 isolates and an isogenic Stx2 mutant in rabbits and mice. We also measured the relative levels of Stx2 produced from those strains with or without induction of the stx-carrying phage. Some rabbits infected with K3995 exhibited intestinal pathology and succumbed to infection, while none of those infected with O157:H7 strain 2812 (Stx1a(+) Stx2a(+)) died or showed pathological signs. Rabbits infected with the isogenic Stx2a mutant K3995 stx2a::cat were not colonized as well as those infected with K3995 and exhibited no signs of disease. In the streptomycin-treated mouse model, more animals infected with K3995 died than did those infected with O157:H7 strain 86-24 (Stx2a(+)). Additionally, K3995 produced higher levels of total Stx2 and toxin phage DNA in cultures after phage induction than did 86-24. Our results demonstrate the greater virulence of K3995 compared to other O157:H7 strains in rabbits and mice. We conclude that this enhanced virulence is linked to higher levels of Stx2 expression as a consequence of increased phage induction.
Early Biological Markers of Post-Acute Sequelae of SARS-CoV-2 Infection (2023)

Abstract To understand the roles of acute phase viral dynamics and host immune responses in PASC, we enrolled 136 participants within 5 days of their first positive SARS-CoV-2 real-time PCR. Participants self-collected nasal specimens up to 21 times within the first 28 days after symptom onset; Interviewer-administered clinical questionnaires and blood samples were collected at enrollment and days 9, 14, 21, 28, and month 4 and 8 post-symptom. Defining PASC as the presence of any symptom new or worse since infection reported at their 4-month visit, we compared viral markers (quantity and duration of viral RNA load, infectious viral load, and plasma N-antigen level) and host immune markers (IL-6, IL-10, TNF-α, IFN-α, IFN-γ, MCP, IP-10, and Spike IgG) over the acute period. In comparison to those who fully recovered, those who developed PASC demonstrated significantly higher maximum levels of SARS-CoV-2 RNA, infectious virus, and N-antigen, longer duration of viral shedding, and lower Spike-specific IgG levels within the first 10 days of the acute phase of illness. No significant differences were identified among a panel of host immune markers, though there was a trend toward higher initial levels of certain markers (e.g., MCP-1, IFN-α, and IFN-γ) in those who went on to develop PASC. Early viral dynamics and the associated host immune responses play a role in the pathogenesis of PASC. These findings highlight the importance of understanding the early biological markers from acute SARS-CoV-2 infection in the natural history of PASC. Onset Sentence Summary Early viral dynamics and the associated host immune responses play a role in the pathogenesis of PASC.
Parameter distribution mapping in a gas turbine engine (2023)

A profile map of parameter values in a region is determined based on average values along linear paths through the region. In one example, a temperature map of a region of a gas turbine engine is created based on time-of-flight measurements from acoustic transceiver pairs arranged circumferentially around the region. A speed of sound for each transceiver pair is determined based on the time-of-flight measurements. An average temperature along each path is estimated from the time of flight, and the profile map is computed from the average temperatures. The profile map may be computed using a polynomial approximation technique, a grid optimization technique or a basis function technique.
Admission Control based Traffic-Agnostic Delay-Constrained Random Access (AC/DC-RA) for M2M Communication (2019)

The problem of wireless M2M communication is twofold: the reliability aspect and the scalability aspect. The solution of this problem demands a delay constrained random access protocol. To this end we propose Admission Control based Traffic Agnostic Delay Constrained Random Access (AC/DC-RA) protocol. Our main contribution is enabling the stochastic delay constraints agnostic to the traffic, such that the stochastic delay constraint is valid with respect to varying number of arrivals. We achieve this with an admission control decision that uses a novel collision estimation algorithm for active number of arrivals per contention resource. We use an adaptive contention resolution algorithm to react to the varying number of arrivals. Using these tools, the admission control solves the stability problem. We show with simulations that AC/DC-RA provide stochastic delay constrained random access in a traffic agnostic way to sustain a stable performance against Poisson and Beta arrivals without any modification to the protocol.
Immunotherapy for Dogs: Still Running Behind Humans (2021)

Despite all good intentions, dogs are still running behind humans in effective cancer immunotherapies. The more effective treatments in humans, like infusions of CAR-T and NK-cells are not broadly pursued for canines due to significant costs, the rather complicated logistics and the lack of targetable surface antigens. Monoclonal antibodies are challenging to develop considering the limited knowledge about canine target antigens and about their mode of action. Although immunogenic vaccines could be less costly, this approach is hampered by the fact that cancer by itself is immuno-suppressive and any preceding chemotherapy may suppress any clinically meaningful immune response. This review - rather than providing a comprehensive listing of all available immunotherapies for dogs, aims at pointing out the issues that are holding back this field but which hopefully can be addressed so that dogs can "catch up" with what is available to humans.
A global suppressor motif for p53 cancer mutants (2004)

The transcription factor and tumor suppressor protein p53 is frequently inactivated in human cancers. In many cases, p53 gene mutations result in high levels of inactive, full-length p53 protein with one amino acid change in the core domain that recognizes p53 DNA-binding sites. The ability to endow function to mutated p53 proteins would dramatically improve cancer therapy, because it would reactivate a central apoptotic pathway. By using genetic strategies and p53 assays in yeast and mammalian cells, we identified a global suppressor motif involving codons 235, 239, and 240. These intragenic suppressor mutations, either alone or in combination, restored function to 16 of 30 of the most common p53 cancer mutants tested. The 235-239-240 suppressor motif establishes that manipulation of a small region of the core domain is sufficient to activate a large number of p53 cancer mutants. Understanding the structural basis of the rescue mechanism will allow the pursuit of small compounds able to achieve a similar stabilization of p53 cancer mutants.
Lymphocyte Apoptosis and Thrombocytopenia in Spleen during Classical Swine Fever: Role of Macrophages and Cytokines (2005)

Thirty-two Large White x Landrace pigs, 4 months old, were inoculated with the classical swine fever (CSF) or hog cholera virus strain "Alfort" in order to identify the mechanism responsible for the lymphopenia and thrombocytopenia observed in the spleen during the experimental induction of disease, by immunohistochemical and ultrastructural techniques. Results showed a progressive depletion of splenic lymphoid structures and evidence of platelet aggregation processes. Lymphoid depletion was due to lymphocyte apoptosis, which could not be ascribed to the direct action of the virus on these cells; direct virus action could play only a secondary role in the death of these cells. Absence of severe tissue and endothelial damage, together with moderate procoagulant cytokine levels in the serum, suggest that these pathologies can be ruled out as the cause of platelet aggregation and thrombocytopenia in CSF. Monocyte/macrophages were the main target cells for the CSF virus, and they exhibited phagocytic and secretory activation leading to the synthesis and release of tumor necrosis factor alpha, which proved to be the chief mediator, followed by IL-6, IL-1alpha, and C1q complement component. In view of their characteristics, TNF-alpha and, to a lesser extent, IL-1alpha and IL-6 appear to be the major cytokines involved in the pathogenesis of lymphocytopenia and thrombocytopenia; a clear spatial and temporal relationship was observed between these two phenomena.
Quantitative phase imaging of adherent mammalian cells: a comparative study (2019)

The Quantitative phase imaging methods have several advantages when it comes to monitoring cultures of adherent mammalian cells. Because of low photo-toxicity and no need for staining, we can follow cells in a minimally invasive way over a long period of time. The ability to measure the optical path difference in a quantitative manner allows the measurement of the cell dry mass, an important metric for studying the growth kinetics of mammalian cells. Here we present and compare cell measurements obtained with three different techniques: digital holographic microscopy, lens-free microscopy and quadriwave lateral sheering interferometry. We report a linear relationship between optical volume density values measured with these different techniques and estimate the precisions of this measurement for the different individual instruments.
A Quiet Revolution: Growth of Credentialed-Based Manufacturing Education in Florida (2018)

FLATE serves the state of Florida as its region and is involved in outreach and recruitment of students into technical career pathways; has produced award winning curriculum design and reform
Developing a neuroprotective therapy for Parkinson’s and Huntington’s diseases (2007)

Parkinson’s disease (PD) and Huntington’s disease (HD) are slow and progressive neurological disorders that affect the lives of many thousands of patients and their families. Both diseases are characterized by selective neurodegeneration in specific brain areas, which causes long-term suffering and, ultimately, death. Although symptomatic treatment is available for Parkinson’s patients, therapies that inhibit disease progression are not available. Significant progress has been made in our understanding of the pathological process, although the precise molecular mechanisms causing neuronal dysfunction and death remain elusive. Despite differences in the clinical manifestations of PD and HD, there are striking similarities in the underlying pathological processes. These observations suggest common pathways of neurodegeneration and tempt researchers to focus their efforts on pathological processes shared by both diseases. This article reviews some of the recent literature and discusses the feasibility of discovering neuroprotective agent(s) for treating PD and HD in the near future.
Specialized proresolving lipid mediators (SPMs) decrease human B cell IgE production: implications for allergy and asthma (HYP7P.309) (2014)

Abstract Resolution of inflammation is a biologically active process regulated by newly identified specialized proresolving lipid mediators (SPMs). These endogenous lipid-derived mediators promote the resolution of inflammation and maintain homeostasis by regulating the immune system. Little is known about the functions of SPMs on adaptive immune cells, such as B cells. Our laboratory has discovered that certain omega-3 fatty acid derived SPMs promote human B cell IgM and IgG antibody production in vitro. Human B cells also produce IgE antibodies, which play an essential role in the onset of inflammatory diseases, such as seasonal allergies and asthma. Here, we show that certain SPMs decrease human B cell IgE production in vitro. Omega-3-derived SPMs, 17-HDHA (17-hydoxydocosahexaenoic acid) and RvD1 (resolvin D1), strongly decreased the IgE production in B cells, as well as the number of IgE-secreting cells in peripheral blood of healthy and asthmatic human donors. In addition, 17-HDHA and RvD1 also reduced IgE production by the spontaneously IgE secreting multiple myeloma B cell line, U266. These results show that SPMs are non-immunosuppressive endogenous mediators that could specifically dampen IgE production and have potential as therapeutics for asthma. Moreover, SPMs might also be effective on other IgE-mediated inflammatory diseases such as atopic dermatitis.
Tunable Localized Surface Plasmon Resonance and Broadband Visible Photoresponse of Cu Nanoparticles/ZnO Surfaces (2018)

Plasmonic Cu nanoparticles (NP) were successfully deposited on ZnO substrates by atomic layer deposition (ALD) owing to the Volmer-Weber island growth mode. An evolution from Cu NP to continuous Cu films was observed with an increasing number of ALD cycles. Real and imaginary parts of the NP dielectric functions, determined by spectroscopic ellipsometry using an effective medium approach, evidence a localized surface plasmon resonance that can be tuned between the visible and near-infrared ranges by controlling the interparticle spacing and size of the NP. The resulting Cu NP/ZnO device shows an enhanced photoresponse under white light illumination with good responsivity values, fast response times, and stability under dark/light cycles. The significant photocurrent detected for this device is related to the hot-electron generation at the NP surface and injection into the conduction band of ZnO. The possibility of tuning the plasmon resonance together with the photoresponsivity of the device is promising in many applications related to photodetection, photonics, and photovoltaics.
Abstract 152: The Contrastim Stroke Study: Improving Hand and Arm Function After Stroke With Combined Non-Invasive Brain Stimulation and Task-Oriented Therapy - A Pilot Study (2014)

Objective: To determine whether neuro-navigated 1hz rTMS targeted to the non-lesioned hemisphere (NLH) combined with task-oriented occupational therapy (OT) can improve motor function of arm and hand in patients with subacute stroke. Methods: 30 patients (3-9 months post-stroke) were randomly assigned to sham (n=10) or active 1hz rTMS (n=20) targeted to the wrist extensor representation in the NLH. Patients completed 3 visits per week for 6 weeks that included: 20min pre-functional OT, neuro-navigated 1hz rTMS or sham, and 60 min upper-limb task-oriented OT. Patients returned for 1 week, 1 month, and 6 month follow-up visits. Groups were well matched at baseline but there was a trend toward more severe impairment in the active treatment group on the Upper Extremity Fugl Meyer (UEFM) (23.8±10.2, active; 31.5±15.3, sham: p=0.11). Results: Patients receiving active rTMS prior to OT made significantly greater gains on the UEFM by 6 months post-intervention than patients receiving sham stimulation (change in UEFM 14.4 ± 10.0 vs. 4.1 ± 5.5; p=0.013). On ANOVA differences were significant for group, time and group x time (F=5.73, df=2, p=0.006). Individuals receiving active rTMS were significantly more likely to exceed the published minimal clinical important difference (MCID) on the UEFM at 6 months post (88% vs. 38%, p = 0.002). Similar trends at 1 week and 1 month post were not statistically significant. Ceiling effects were unlikely. Conclusion: These findings suggest neuro-navigated 1hz rTMS paired with task-oriented OT is more likely to promote clinically important improvements than OT alone. Of note is the finding that significant improvements in impairment were seen 6 months following therapy, suggesting non-invasive brain stimulation as an adjuvant to therapy promotes lasting motor improvement.
A Dual CuH- and Pd-Catalyzed Stereoselective Synthesis of Highly Substituted 1,3-Dienes (2021)

Conjugated dienes are versatile building blocks and prevalent substructures in synthetic chemistry. Herein, we report a method for the stereoselective hydroalkenylation of alkynes, utilizing readily available enol triflates. We leveraged an in situ generated and geometrically pure vinyl-Cu(I) species to form the Z,Z- or Z,E-1,3-dienes in excellent stereoselectivity and yield. This approach allowed for the synthesis of highly substituted Z-dienes, including pentasubstituted 1,3-dienes, which are difficult to prepare by existing approaches.
ChemInform Abstract: On Baldwin′s Kinetic Barrier Against 5‐(Enol‐endo)‐exo‐trigonal Closures: A Comparison of Ionic and Analogous Radical Reactions, and a New Synthesis of Cyclopentanones. (1988)

Abstract The cycloalkenols (I) are transformed into the methyl ketones (II) which react with benzeneselenenyl chloride (III) to give the α‐benzeneselenenyl ketones (IV).
Divacant polyoxotungstates: Reactivity of the gamma-decatungstates [γ-XW10O36]8−(X = Si, Ge) (2011)

The dilacunary, Keggin-based gamma-decatungstate ions [γ-XW(10)O(36)](8-) (X = Si, Ge) {XW(10)} exhibit an exciting and versatile solution chemistry, which is probably unmatched by any other lacunary polytungstate. The reactivity of {XW(10)} in the presence, and even absence, of electrophiles, includes loss/gain of tungsten, isomerization, and dimerization. Ever since the syntheses and structures of {XW(10)} were reported, many research groups around the world have investigated the reactivity of these polyanions towards nucleophiles (mostly d-block metal ions) and different products with various shape, size and composition were obtained. Here we provide an overview of the state-of-the-art in this subarea of polyoxometalate chemistry, with a focus on synthetic and structural aspects.
Field trial results for a Wi-Fi based spectrum sharing technology in TVWS (2014)

We describe performance results for a Dynamic Spectrum Management (DSM) Platform, including over-the-air data captured outdoors near our Melville, NY facility and in an indoor office environment. The DSM system configuration used to generate the results, and the flexibility of the DSM system that allows it to operate in different bandwidth TV channels are presented. The results include data throughput, received signal strength indicator (RSSI), signal-to-noise plus interference (SNIR) and spectrum coexistence data. We analyze the results, including the advantages and efficiency of channel aggregation, and discuss lessons learned during the measurement campaign that apply to future deployments of spectrum sharing equipment.
Impact of myopia control spectacle lenses with highly aspherical lenslets on peripheral visual acuity and central visual acuity with peripheral gaze (2023)

Under high-contrast and low-luminance conditions, the HAL lens reduced central VA with peripheral gaze by approximately one line compared with the SVL. The impact on central VA did not vary with gaze direction, age or SER. The HAL lens did not affect peripheral VA in this condition.