gebhart/patrepeval huggingface dataset:
Data from Arginine Depletion Therapy with ADI-PEG20 Limits Tumor Growth in Argininosuccinate Synthase–Deficient Ovarian Cancer, Including Small-Cell Carcinoma of the Ovary, Hypercalcemic Type (2023)

&lt;div&gt;AbstractPurpose:&lt;p&gt;Many rare ovarian cancer subtypes, such as small-cell carcinoma of the ovary, hypercalcemic type (SCCOHT), have poor prognosis due to their aggressive nature and resistance to standard platinum- and taxane-based chemotherapy. The development of effective therapeutics has been hindered by the rarity of such tumors. We sought to identify targetable vulnerabilities in rare ovarian cancer subtypes.&lt;/p&gt;Experimental Design:&lt;p&gt;We compared the global proteomic landscape of six cases each of endometrioid ovarian cancer (ENOC), clear cell ovarian cancer (CCOC), and SCCOHT to the most common subtype, high-grade serous ovarian cancer (HGSC), to identify potential therapeutic targets. IHC of tissue microarrays was used as validation of arginosuccinate synthase (ASS1) deficiency. The efficacy of arginine-depriving therapeutic ADI-PEG20 was assessed &lt;i&gt;in vitro&lt;/i&gt; using cell lines and patient-derived xenograft mouse models representing SCCOHT.&lt;/p&gt;Results:&lt;p&gt;Global proteomic analysis identified low ASS1 expression in ENOC, CCOC, and SCCOHT compared with HGSC. Low ASS1 levels were validated through IHC in large patient cohorts. The lowest levels of ASS1 were observed in SCCOHT, where ASS1 was absent in 12 of 31 cases, and expressed in less than 5% of the tumor cells in 9 of 31 cases. ASS1-deficient ovarian cancer cells were sensitive to ADI-PEG20 treatment regardless of subtype &lt;i&gt;in vitro&lt;/i&gt;. Furthermore, in two cell line mouse xenograft models and one patient-derived mouse xenograft model of SCCOHT, once-a-week treatment with ADI-PEG20 (30 mg/kg and 15 mg/kg) inhibited tumor growth &lt;i&gt;in vivo&lt;/i&gt;.&lt;/p&gt;Conclusions:&lt;p&gt;Preclinical &lt;i&gt;in vitro&lt;/i&gt; and &lt;i&gt;in vivo&lt;/i&gt; studies identified ADI-PEG20 as a potential therapy for patients with rare ovarian cancers, including SCCOHT.&lt;/p&gt;&lt;/div&gt;
Design of a Multicomponent Peptide-Woven Nanocomplex for Delivery of siRNA (2015)

We developed and tested a multicomponent peptide-woven siRNA nanocomplex (PwSN) comprising different peptides designed for efficient cellular targeting, endosomal escape, and release of siRNA. To enhance tumor-specific cellular uptake, we connected an interleukin-4 receptor-targeting peptide (I4R) to a nine-arginine peptide (9r), yielding I4R-9r. To facilitate endosomal escape, we blended endosomolytic peptides into the I4R-9r to form a multicomponent nanocomplex. Lastly, we modified 9r peptides by varying the number and positions of positive charges to obtain efficient release of siRNA from the nanocomplex in the cytosol. Using this step-wise approach for overcoming the biological challenges of siRNA delivery, we obtained an optimized PwSN with significant biological activity in vitro and in vivo. Interestingly, surface plasmon resonance analyses and three-dimensional peptide models demonstrated that our designed peptide adopted a unique structure that was correlated with faster complex disassembly and a better gene-silencing effect. These studies further elucidate the siRNA nanocomplex delivery pathway and demonstrate the applicability of our stepwise strategy to the design of siRNA carriers capable of overcoming multiple challenges and achieving efficient delivery.
Methylation patterns at the novel DMR of GNAS (GNAS-AS2) in pseudohypoparathyroidism 1B (PHP1B or iPPSD3) subtypes (2017)

Searchable abstracts of presentations at key conferences in endocrinology ISSN 1470-3947 (print) | ISSN 1479-6848 (online)
Relation of Steroid Hormones to Glucose Tolerance and Plasma Insulin Levels in Men: Importance of visceral adipose tissue (1995)

These results suggest that the previously reported relationships between androgen levels and indexes of plasma glucose-insulin homeostasis are mediated, to a large extent, by concomitant alterations in levels of total body fat and visceral AT in men.
Genetic and Epigenetic screening for gene alterations of the chromatin‐remodeling factor, SMARCA4/BRG1, in lung tumors (2004)

The SMARCA4/BRG1 gene product is a component of the SWI-SNF chromatin-remodeling complex and regulates gene expression by disrupting histone-DNA contacts in an ATP-dependent manner. Inactivating mutations of the SMARCA4 gene, on chromosome arm 19p, are present in several human cancer cell lines, including cell lines derived from lung cancers. Interestingly, loss of heterozygosity (LOH) at 19p and absence of the SMARCA4 protein have been reported in lung tumors. To evaluate further the possible contribution of SMARCA4 gene inactivation to lung carcinogenesis, we performed a complete analysis of the SMARCA4 gene to search for (a) point mutations in all 35 coding exons, including an existing splicing variant and the intron-exon boundaries, and (b) abrogation of gene expression through promoter hypermethylation by using the methylation-specific polymerase chain reaction (MSP) assay. We selected genomic DNA from 20 lung primary tumors with LOH on 19p for the screening of point mutations and 10 lung cancer cell lines and 52 lung primary tumors for the MSP analysis. Through our mutational screening, we identified an in-frame and germ-line insertion of 24 bp in exon 4 whose biological relevance is unknown. This variant was not detected in the germ line of the 62 additional individuals analyzed, indicating it is not a common polymorphism. Moreover, two missense alterations were identified in the tumors of 2 patients, a somatic Gly1160Arg mutation and a Ser1176Cys mutation. Neither was present in the germ line of the 51 additional lung cancer individuals tested. Because these mutations lead to substitution of highly conserved amino acids, they may affect the ATPase function of the protein. Finally, no promoter hypermethylation was observed in any lung primary tumor or cancer cell line, indicating that this is not a major mechanism for SMARCA4 inactivation during lung carcinogenesis. In conclusion, our data revealed that somatic point mutations of the SMARCA4 gene are present in a small subset of lung tumors, although mutations affecting the ATPase domain may be a hot-spot for SMARCA4 gene inactivation. We cannot rule out that other mechanisms, such as complete or partial deletions of the SMARCA4 gene, are contributing to the loss of the SMARCA4 protein in lung cancer.
N-Glycomic Profiling of Pheochromocytomas and Paragangliomas Separates Metastatic and Nonmetastatic Disease (2017)

MALDI-TOF MS profiling of primary pheochromocytomas and paragangliomas can identify diseases with metastatic potential based on their different N-glycan profiles. Thus, malignancy-linked N-glycan structures may serve as potential diagnostic tools for pheochromocytomas and paragangliomas.
Correlations of Perceived Deficits Questionnaire of Multiple Sclerosis Quality of Life Inventory with Beck Depression Inventory and neuropsychological tests (2006)

The Perceived Deficits Questionnaire (PDQ) is a part of the Multiple Sclerosis (MS) Quality of Life Inventory that assesses self-perceived cognitive difficulties. We used baseline data from 49 MS subjects participating in a clinical trial to evaluate the correlation of the PDQ with two measures of cognitive impairment, the Paced Auditory Serial Addition Test (PASAT) and the California Verbal Learning Test, 2nd edition (CVLT-II), total score, and one measure of depression, the Beck Depression Inventory-Amended (BDI-IA). The PDQ correlated significantly (r = 0.42; 95% confidence interval [CI], 0.15 to 0.62; p = 0.003) with the BDI-IA scores but not with either the PASAT (r = -0.22; 95% CI, -0.48 to 0.06; p = 0.2) or the CVLT-II total (r = -0.17; 95% CI, -0.43 to 0.12; p = 0.25). A subset of 38 of these subjects who scored worse than 0.5 standard deviation below the mean on the PASAT or CVLT-II received a more extensive neuropsychological battery of tests. No significant correlations were found between any of these tests and the PDQ. These results suggest that self-perceived cognitive dysfunction relates more to depression than to objective cognitive dysfunction.
Controlled Hydrogel Formation in the Internal Compartment of Giant Unilamellar Vesicles (2005)

The introduction of poly(ethylene dioxythiophene) (PEDOT)/poly(styrene sulfonate) (PSS) polyelectrolyte into giant unilamellar phospholipid vesicles (GUVs) and cross-linking with Ca2+ ions to generate a hydrogel within the internal compartment are reported. The aqueous colloidal suspension of PEDOT with excess PSS was microinjected into the internal compartment of liposomes as well as networks of GUVs and lipid nanotubes. The subsequent introduction of calcium ions as cross-linking agent in order to induce hydrogel formation was achieved by three different methods: vesicle fusion, electroporation, and direct microinjection. Gel formation was probed by coinjection of fluorescent nanoparticles and tracking of Brownian motion. Particle mobility was shown to be distinctly reduced in the gel-filled vesicles. Diffusion constants for the particles were calculated from the projected movement of the particles and compared to particles in reference gels and solutions.
Peanut Allergen Threshold Study (PATS): validation of eliciting doses using a novel single-dose challenge protocol (2013)

The validation of the ED05 threshold for allergic reactions in peanut allergic subjects has potential value for public health measures. The single dose OFC, based upon the statistical dose-distribution analysis of past challenge trials, promises an efficient approach to identify the most highly sensitive patients within any given food-allergic population.
Bioinspired Artificial [FeFe]-Hydrogenase with a Synthetic H-Cluster (2019)

[FeFe]-hydrogenases are powerful hydrogen evolution biocatalysts because of the activity of their unique metallocofactor, the H-cluster, derived from the association of a [4Fe-4S] cluster and a [2Fe]-subcluster, containing 2 CO and 2 CN– ligands as well as an aza-propanedithiolate (adt2–) ligand bridging the two Fe atoms. Various analogues of the H-cluster have been assembled in the iron–sulfur protein HydF, containing a [4Fe-4S] cluster, by reaction with a series of synthetic di-iron complexes mimicking the [2Fe]-subcluster of hydrogenases. The mimics contain a mixture of CO and CN– ligands and various dichalcogenide (S or Se) bridging ligands. The resulting hybrid proteins have been characterized and shown to behave as active artificial hydrogenases. On the basis of the present structure–activity relationship study, we report that the most active and stable artificial hydrogenase was obtained with the mimic containing a propane diselenol bridging ligand. This opens the possibility to developing a class of hydrogen-evolving enzymes with a synthetic active site mimicking that of the natural hydrogenase.
Solvent Effects on Polysulfide Redox Kinetics and Ionic Conductivity in Lithium-Sulfur Batteries (2016)

Lithium-sulfur (Li-S) batteries have high theoretical energy density and low raw materials cost compared to present lithium-ion batteries and are thus promising for use in electric transportation and other applications. A major obstacle for Li-S batteries is low rate capability, especially at the low electrolyte/sulfur (E/S) ratios required for high energy density. Herein, we investigate several potentially rate-limiting factors for Li-S batteries. We study the ionic conductivity of lithium polysulfide solutions of varying concentration and in different ether-based solvents and their exchange current density on glassy carbon working electrodes. We believe this is the first such investigation of exchange current density for lithium polysulfide in solution. Exchange current densities are measured using both electrochemical impedance spectroscopy and steady-state galvanostatic polarization. In the range of interest (1-8 M [S]), the ionic conductivity monotonically decreases with increasing sulfur concentration while exchange current density shows a more complicated relationship to sulfur concentration. The electrolyte solvent dramatically affects ionic conductivity and exchange current density. The measured ionic conductivities and exchange current densities are also used to interpret the overpotential and rate capability of polysulfide-nanocarbon suspensions; this analysis demonstrates that ionic conductivity is the rate-limiting property in the solution regime (i.e. between Li2S8 and Li2S4).
Manufacturable hybrid silicon array laser source using an interposer based back-end-of-the-line integration (2016)

We report a silicon interposer based 1×4 external-cavity hybrid III-V/Si laser array using a manufacturable back-end-of-the-line integration. All channels are individually-tunable and wavelength-stabilized with a threshold current of 14mA, output powers of >3mW, over 35dB side mode suppression ratio and less then 46kHz linewidth.
DEVELOPMENT AND TESTING OF A LOW-COST CONDENSATION DETECTION SYSTEM (2006)

A condensation sensing and control system was designed to detect condensation using a commercially availableleaf wetness sensor (LWS). The leaf wetness sensor was a variable resistance grid-type that responded to moisture on thesurface. A circuit was developed to compare the LWS voltage output to a user specified reference voltage, and operate a relayfor possible switching of a humidity control device (for example a fan and/or heater). The condensation detection systemoperation was validated in an environmental chamber in the laboratory using a heat exchanger and water bath. Condensatewas immediately detected when the plate was cooled below the dew point temperature of the chamber. When the watertemperature increased above the dew point temperature, there was a delay as the moisture evaporated from the plate. Soiland other foreign material were added to the leaf wetness sensor with little effect on system performance. The soil acted tofurther delay the sensor from drying and predicted slightly longer condensation and recovery periods. The condensationdetection system was tested in a transplant growing greenhouse and a grain bin, with operation verified by simultaneouslymeasuring the relative humidity and dry bulb temperature. There were frequent periods of condensation in the greenhouseand the system accurately predicted them. Condensation did not occur in the grain bin, as was verified using the relativehumidity and dry bulb temperature. The condensation detection system can provide a low-cost, rugged method fordetermining periods of condensation without the need for routine maintenance and calibration.
Mobility Based Distributed Domain Generation Algorithm for MANETs (2005)

Ad hoc networks are very important for scenarios where there is not fixed network infrastructure. These scenarios may appear both in the military and the commercial world. Even though there is much advancement in the area of these networks, they do not scale well. This is due to the inability of the existing protocols (e.g., MAC, routing, security) to tolerate the dynamics of these networks when their size becomes large. A remedy is to apply these protocols in a hierarchical manner. The hierarchy generation in these dynamic environments can be advantageous since the network appears to be smaller due to the aggregation and abstraction resulted from the grouping of nodes. The numerous topological changes can be tolerated easier and the applied protocols can perform better. This division greatly reduces overall overhead (e.g., routing overhead with n nodes goes from O(n/sup 2/) to O(nlogn) and allows protocols to be tuned to more homogenous conditions). On the other hand, hierarchy has to be generated carefully in order to be beneficial for the network otherwise it may harm it, due to the imposed maintenance overhead. Towards this objective we have to take into consideration the network environment and design appropriately the hierarchy generation algorithms. In this paper we present a mobility based domain generation algorithm (DGA), which in a distributed manner attempts to exploit similarities in the mobility patterns of the participating nodes by utilizing a set of mobility metrics. By grouping together nodes with similar mobility characteristics, the mobility based DGA targets the generation of robust to mobility hierarchical structures. The algorithm presents better scalability and robustness characteristics from well known existing distributed domain generation algorithms.
The effect of background doping and dose on diffusion of ion-implanted tin in gallium arsenide (1990)

The diffusion of ion-implanted tin in gallium arsenide has been investigated as a function of implant dose and background doping. Secondary ion mass spectroscopy and electrochemical etch profiling were used to obtain chemical and carrier profiles. Based on the shapes of the concentration profiles and the background doping dependence, we have concluded that tin diffusivity is dependent on the electron concentration. This implies that Sn diffuses via negatively charged gallium vacancies. Tin diffusivity outside the implanted region is independent of dose, with an activation energy of 1.98 eV.
Gallium(III) Corroles (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Macrophage migration inhibitory factor - a therapeutic target in gallbladder cancer (2015)

Our findings support the role of MIF in tumor aggressiveness and suggest its potential application as a therapeutic target for gallbladder cancer.
Highly sensitive spintronic strain-gauge sensor based on a MgO magnetic tunnel junction with an amorphous CoFeB sensing layer (2018)

We investigated spintronic strain-gauge sensors (Spin-SGSs) based on magnetic tunnel junctions (MTJs). To enhance the strain sensitivity of Spin-SGSs, which is defined as the gauge factor = (ΔR/R)/Δε, we investigated MgO-MTJs with an amorphous CoFeB sensing layer that exhibits high magnetostriction and soft magnetic properties. To maintain the amorphous structure of the CoFeB sensing layer even after post annealing, we applied a MgO capping layer (MgO-cap) to the CoFeB sensing layer and compared it with a Ta capping layer (Ta-cap). After post annealing at 320 °C, the CoFeB sensing layer with a MgO-cap maintained a low coercivity of 3 Oe, whereas that with a Ta-cap exhibited a high coercivity of 25 Oe. Microstructure analysis revealed that the CoFeB sensing layer with the MgO-cap has an amorphous structure because boron remains in the CoFeB sensing layer even after post annealing. The gauge factor for the Spin-SGS with the MgO-cap was 4016, which was four times larger than 942 for the Spin-SGS with the Ta-cap.
Surface plasmon effects excitation from three-pair arrays of silver-shell nanocylinders (2009)

Surface plasmon effects excitation from the three-pair arrays of silver-shell nanocylinders are investigated numerically by using the finite-element method. Effects from different illumination wavelengths, interparticle distance, interpair distance, and the radii of air hole in nanocylinders are studied. Compared to the three-pair arrays of solid silver cylinder, the near-field optical response of the shell exhibits electric field enhancements and redshift which are found to be strongly influenced by tuning the radius of the air-hole in the nanocylinders.
Predicting respiratory motion for active canceling during percutaneous needle insertion (2005)

Prediction of bodily motion due to respiration was investigated preparatory to implementation of active compensation for respiration in a robot-assisted system for percutaneous kidney surgery. Data for preliminary testing were recorded from the chest wall of a subject using an optical displacement sensor. The weighted-frequency Fourier linear combiner algorithms an adaptive modeling: algorithm, was used to model and predict respiratory movement. Preliminary results are presented, in which the algorithm is shown to track a 0.86 mm rms respiration signal with 0.11 mm rms error. The general robotic system and compensation scheme are also described.
Identifying and Allocating Resources during Out of Hospital Cardiac Arrest (2019)

In out of hospital cardiac arrest (OHCA) situations, public access to an automated external defibrillator (AED) increases patient survival when it is applied to the patient before the arrival of an emergency team. Time is of essence during an OHCA event and it is crucial to identify the nearest functional AED, and a user to transport the device to the patient in the shortest time. Determining the best combination of the user and AED for an emergency situation when there are multiple users and AEDs available becomes an issue. There are multiple factors that can change the selection of the pair; for example, the walking pace of the user, AED status, battery level of the user's phone, the AED itself, and other factors. It is important to optimize these factors so that the best user and AED combination can be identified and directed so they will take the least amount of time to reach the emergency. The new IoT AEDs being developed will have a communication ability to transmit information. A multi-objective optimization approach has been proposed in this paper to prioritize a multitude of factors dependent upon the level of importance of each factor to the OHCA situation. Each factor will be individually prioritized and then optimized so the best combination of user and AED device can reach the emergency location in minimal time.
Protein-to-Prote in Interactions: Criteria Defining theAssembly oftheEnamelOrganic Matrix (1998)

Enamelcrystallites forminaprotein matrix located proximal totheameloblast cell layer. Thisunique organic extracellular matrix isconstructed fromstructural protein components biosynthesized andsecreted by ameloblasts. Todate, three distinct classes ofenamel matrix proteins havebeencloned. Thesearetheamelogenins, tuftelin, andameloblastin, withrecent dataimplicating ameloblastin geneexpression during cementogenesis. The organic enamel extracellular matrix undergoes assembly to provide athree-dimensional array ofprotein domains that carryoutthephysiologic function ofguiding enamel hydroxyapatite crystallite formation. Usingtheyeast two- hybrid system, wehavesurveyed these three knownenamel geneproducts fortheir ability todirect self-assembly. We measured thecapacity oftheenamel geneproducts todirect protein-to-protein interactions, acharacteristic ofenamel proteins predicated toberequired forself-assembly. We provide additional evidence fortheself-assembly nature of amelogenin andtuftelin. Ameloblastin self-assembly could notbedemonstrated, norwereprotein-to-protein inter- actions observed betweenameloblastin andeither amelogenin ortuftelin. Within thelimits oftheyeast two- hybrid assay, these findings constrain theemerging model ofenamel matrix assembly byhelping todefine thelimits of enamel matrix protein-protein interactions that arebelieved toguide enamel mineral crystallite formation.