gebhart/patrepeval huggingface dataset:
Right Ventricular Endocardial Segmentation in CMR Images using a Novel Inter:Modality Statistical Shape Modelling Approach (2016)

Statistical shape modelling (SSM) approaches have been proposed as a powerful tool to segment the left ventricle in cardiac magnetic resonance (CMR) images. Our aim was to extend this method to segment the RV cavity in CMR images and validate it compared to the conventional gold-standard (GS) manual tracing.
GaAs/AlGaAs Superlattice Characterization By Variable Angle Spectroscopic Ellipsometry (1988)

Variable angle of incidence spectroscopic ellipsometry (VASE) was used to determine the thickness, alloy composition, and growth quality of multilayer samples. These samples contained a single quantum well grown on a GaAs/AlGaAs superlattice. The superlattice layers were modeled as a bulk Al GaAs layer of unknown composition and thickness. A data fitting procedure allowed the variation of five layer thicknesses and two alloy compositions in a regression analysis. Extremely good data fits of the ellipsometric parameters * and A were realized in the 1.55 to 3.54 eV spectral range. Computer generations of the ellipsometric parameters were performed, and were compared with experimental results. The e-hh(1), e-lh (1), and e-hh(2) exciton transitions were observed in the VASE data measured at room temperature. VASE has thus provided a nondestructive and highly effective technique for characterizing intricate multilayered structures.
Mochica ceramic studies by 3D XRay and Terahertz imaging (2014)

The evolution of cultural and technical processes of ancient South American societies can be better understood thanks to the study of ceramic productions of Pre-Columbian civilizations. Time domain THz spectroscopy and 3D imaging are used for non-destructive analyses of modern pottery which was made using ancient and traditional technology. Our study demonstrates that the internal structure of this Mochica type pottery can be revealed with the help of X-Ray images used as references.
Self-organized nanostructures in the Ti–Al–N system (2003)

The phenomenon of age hardening could be evidenced in thin film applications. A model system, Ti1−xAlxN was chosen as such coatings are known for their excellent wear resistance enabling improved machining processes like high-speed and dry cutting. Here, we show unambiguously that metastable Ti1−xAlxN coatings initially undergo spinodal decomposition into coherent cubic-phase nanometer-size domains, causing an increase in hardness at elevated temperatures. These intermediate metastable domains transform into their stable phases TiN and AlN during further thermal treatment. Activation energies for the processes indicate defect-assisted segregation of Ti and Al. The findings are corroborated by ab initio calculations. A long-standing discussion on the thermal stability of this important class of ceramics is thus resolved.
Haploidentical Transplantation for Peripheral T-Cell Lymphomas: A Single-Institution Experience (2016)

Peripheral T-cell lymphomas (PTCLs) are a heterogeneous group of disorders with 5-year overall survival (OS) of 30-35% with upfront chemotherapy for most subtypes. Allogeneic hematopoietic stem cell transplant (HSCT) with less morbid reduced intensity conditioning (RIC) is used for relapsed/refractory disease or select patients in first complete remission (CR) (OS 35-50%). There has been little experience with haploidentical (HI) HSCT in PTCLs, particularly with myeloablative (MA) conditioning. In the 2-step approach to HI HSCT developed at our institution, a large fixed dose of T cells (2 x 108) is administered after conditioning with total body irradiation (Step 1), followed 2 days later bycyclophosphamide (CY) for T cell tolerization. In Step 2, a CD34-selected stem cell product is infused 1 day after completing CY. We describe our experience using HI HSCT for PTCLs, chiefly via the 2-step MA approach. A retrospective review was performed on all patients with biopsy-proven PTCLs who underwent HI HSCT from 2009-15 at Thomas Jefferson University. The study was approved by the IRB. Of 8 patients studied, diagnoses included ALK-negative ALCL, angioimmunoblastic T cell lymphoma (AITL), hepatosplenic T cell lymphoma (HSTL), enteropathy associated T cell lymphoma (EATL), mycosis fungoides/sezarysyndrome (MF/SS), T cell prolymphocytic leukemia (PLL) and T-large granular lymphocytic leukemia (LGL) (Table 1). Patients had a median age of 55 years, Karnofsky Performance Score 70-100% and at least two prior lines of therapy (50% in CR, 50% with relapsed/refractory disease). 7 patients underwent MA HI HSCT via the Jefferson 2-step protocol while 1 underwent a 1-step RIC HI HSCT with post-transplant CY. Median neutrophil engraftment was at 11.5 days. 2 patients died at days +6 (septic shock) and +10 (veno-occlusive disease) post-HSCT. OS was 75% (6/8) with a median follow-up of 57 months (range 0.7 – 70). No relapses have been seen among the 6 surviving patients. Of these, 33% had Grade II acute graft versus host disease (AGVHD) (skin, gut). No Grade III-IV AGVHD and one case of chronic GVHD was seen. Primary engraftment failure was seen in one patient, who was subsequently rescued with an autologous transplant, and is currently doing well. Encouraging outcomes in terms of OS and relapse were observed in this cohort of patients with PTCLs, undergoing chiefly MA HI HSCT by the Jefferson 2-step protocol. Minimal acute/chronic GVHD and infections were seen. HI HSCT may be an important treatment modality for patients with aggressive T-cell lymphomas, including relapsed/refractory disease.Table 1S NoAgeDiagnosisDisease statusOS (months)Relapse status161T-LGLR58.6NED256AITLR70.3NED343EATLR0.3 (Died)*426HSTLCR56.3NED546MF/SSR0.2 (Died)*654ALK-ALCLCR66.8(autologous rescue)NED763ALK-ALCLCR9.4NED866T-PLLCR0.7NEDR=relapsed/refractory; NED=no evidence of disease Open table in a new tab R=relapsed/refractory; NED=no evidence of disease
11.12-Soil quality monitoring report-SRFSI Project-ACIAR-CIMMYT (2020)

Assistance received from DAE, BARI, and RDRS in Bangladesh; ICAR, BAU, UBKV, DoA-WB, Shakhi and JEEViKA in India, NARC and DoA in Nepal and community-based organizations (CBOs) in the region are thankfully acknowledged. The support received from CSIRO, Curtin University, University of Queensland, the University of New England in Australia; iDE Nepal; IRRI, IWMI, and IFPRI are greatly appreciated. We thank the farmers, service providers, machinery dealers of EGPs for their co-operation and inputs in implementing on-farm trials. A tremendous progress has been made in achieving milestones/outputs set in the proposal. This level of achievements would not have been possible without collaborators and other stakeholders dedicated supports. Thanks, are also due to Australian Centre for International Agricultural Research (ACIAR) and the Department of Foreign Affair and Trade (DFAT) for the support of CASI technology development and delivery in the EGPs. This research synthesis report is an output from a collaborative regional multi-partnership project managed by CIMMYT with the ACIAR and DFAT funding for the benefit of developing countries (CSE/2011/077). The views expressed are not necessarily those of these institutions or organizations.
Isolation of Photosystem I Complexes from Octyl Glucoside/Sodium Dodecyl Sulfate Solubilized Spinach Thylakoids (1985)

We have used the nonionic detergent octyl-beta-d-glucopyranoside in combination with sodium dodecyl sulfate to isolate two novel Photosystem I (PSI) complexes from spinach (Spinacea oleracea L.) thylakoid membranes. These complexes have been characterized as to their spectral properties, content of PSI reaction center chlorophyll P(700), and protein composition. PSI-B, purified from solubilized membranes by sucrose density gradient centrifugation, is a putative native PSI complex. PSI-B contains four polypeptides between 21 and 25 kilodaltons in addition to the components of the PSI antenna complex (LHCI); three of these polypeptides have not previously been associated with PSI. A second complex, CPI(*), is purified from octyl glucoside/sodium dodecyl sulfate solubilized thylakoids by two cycles of preparative gel electrophoresis under mildly denaturing conditions. Electrophoresis under these conditions releases a discrete set of polypeptides from PSI producing a complex composed only of the PSI reaction center and the LHCI antenna.In addition, the PSI reaction center complex CPI isolated from preparative gels and PSI-B were reconstituted into lecithin liposomes for structural analysis using freeze-fracture electron microscopy. The results suggest that the native PSI complex produces 12- to 13-nanometer particles, while the PSI reaction center, depleted of LHCI and peripheral proteins, produces particles with an average diameter of 10 nanometers.
Naphthalenone and Phthalide Metabolites from Lachnum papyraceum (1997)

A new naphthalenone derivative (2a) and a phthalide (6a), as well as a methyl ester (6b), were isolated from submerged cultures of Lachnum papyraceum, together with known naphthalenone, phthalide, and chromanol derivatives. The structures of the new compounds, of which 2a possesses weak antimicrobial and phytotoxic activities and weak cytotoxicity, were determined by spectroscopic methods.
A New Method to Improve the Quality of Embolic Ultrasound Signal Detection (2020)

Emboli detection and denoising have been the focus of attention from many years. Emboli can be occurred because of the air bubbles, concentrated fat particles or blood clotted in a vessel. The detection of this issue can be possible by employing Doppler ultrasonic transducers. However, this method would be very sensitive to peripheral noise. In this paper for emboli denoising, CEEMDAN as one of the newest and effective methods is introduced. Then, an algorithm for emboli detection based on Bayesian estimation is proposed. The results are compared with a recent method, showing that the proposed method yields an SNR that this improved by 45% and an accuracy rate of 94%.
Multicolor time‐resolved Förster resonance energy transfer microscopy reveals the impact of GPCR oligomerization on internalization processes (2015)

Identifying the interacting partners and the dynamics of the molecular networks constitutes the key point in understanding cellular processes. Different methods often based on energy transfer strategies have been developed to examine the molecular dynamics of protein complexes. However, these methods suffer a couple of drawbacks: a single complex can be studied at a time, and its localization and tracking cannot generally be investigated. Here, we report a multicolor time-resolved Förster resonance energy transfer microscopy method that allows the identification of up to 3 different complexes simultaneously, their localization in cells, and their tracking after activation. Using this technique, we studied GPCR oligomerization and internalization in human embryonic kidney 293 cells. We definitively show that receptors can internalize as oligomers and that receptor coexpression deeply impacts oligomer internalization processes.
Dissecting the molecular basis of high viscosity of monospecific and bispecific IgG antibodies (2019)

Some antibodies exhibit elevated viscosity at high concentrations, making them poorly suited for therapeutic applications requiring administration by injection such as subcutaneous or ocular delivery. Here we studied an anti-IL-13/IL-17 bispecific IgG<sub>4</sub> antibody, which has anomalously high viscosity compared to its parent monospecific antibodies. The viscosity of the bispecific IgG<sub>4</sub> in solution was decreased by only ~30% in the presence of NaCl, suggesting electrostatic interactions are insufficient to fully explain the drivers of viscosity. Intriguingly, addition of arginine-HCl reduced the viscosity of the bispecific IgG<sub>4</sub> by ~50% to its parent IgG level. These data suggest that beyond electrostatics, additional types of interactions such as cation-π and/or π-π may contribute to high viscosity more significantly than previously understood. Molecular dynamics simulations of antibody fragments in the mixed solution of free arginine and explicit water were conducted to identify hotspots involved in self-interactions. Exposed surface aromatic amino acids displayed an increased number of contacts with arginine. Mutagenesis of the majority of aromatic residues pinpointed by molecular dynamics simulations effectively decreased the solution's viscosity when tested experimentally. This mutational method to reduce the viscosity of a bispecific antibody was extended to a monospecific anti-GCGR IgG<sub>1</sub> antibody with elevated viscosity. In all cases, point mutants were readily identified that both reduced viscosity and retained antigen-binding affinity. These studies demonstrate a new approach to mitigate high viscosity of some antibodies by mutagenesis of surface-exposed aromatic residues on complementarity-determining regions that may facilitate some clinical applications.
Plasma Enhanced Atomic Layer Deposition of Al<sub>2</sub>O<sub>3</sub>/SiO<sub>2</sub> MIM Capacitors (2015)

Metal-insulator-insulator-metal (MIIM) capacitors with bilayers of Al <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> and SiO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> are deposited at 200 °C via plasma enhanced atomic layer deposition. Employing the cancelling effect between the positive quadratic voltage coefficient of capacitance (αVCC) of Al <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> and the negative αVCC of SiO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> , devices are made that simultaneously meet the International Technology Roadmap for Semiconductors 2020 projections for capacitance density, leakage current density, and voltage nonlinearity. Optimized bilayer Al <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> /SiO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> MIIM capacitors exhibit a capacitance density of 10.1 fF/μm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> , a leakage current density of 6.8 nA/cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> at 1 V, and a minimized αVCC of -20 ppm/V <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> .
Online cue-based discrimination of left / right hand movement imagination (2010)

Brain Computer Interface (BCI) is a system in which people can interact with electronic devices without using any body movement but only the brain activity itself. In this system, the brain signals obtained from the scalp surface are analysed from the EEG records. Aiming the discrimination of left and right hand movement imaginations (2 classes), an online cue-based BCI system has been developed in this study. In the offline analysis, feature extraction is performed by using Distinctive-Sensitive Learning Vector Quantization and Time-Frequency Analysis methods and training model is created from these features. This model is used in online classification and the result is given as a feedback. Using these methods, the cross-validation accuracy of the offline system is found to be 87% which yields an online prediction accuracy of 97% on a single subject.
Poly(urea ester): A family of biodegradable polymers with high melting temperatures (2016)

Poly(urea ester)s are a class of polymers developed to bridge the gap between aliphatic and aromatic polyesters in which high melting temperature and biodegradability are in a contradiction. These new class of biodegradable polymers melt at higher temperature, and they can be simply prepared by condensation of urea, amino alcohols and dimethyl esters. Additional Supporting Information may be found in the online version of this article. Supporting Information Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
9-Vinylanthracene Based Fluorogens: Synthesis, Structure-Property Relationships and Applications (2017)

Fluorescent dyes with aggregation-induced emission (AIE) properties exhibit intensified emission upon aggregation. They are promising candidates to study biomolecules and cellular changes in aqueous environments when aggregation formation occurs. Here, we report a group of 9-position functionalized anthracene derivatives that were conveniently synthesized by the palladium-catalyzed Heck reaction. Using fluorometric analyses, these dyes were confirmed to show AIE behavior upon forming aggregates at high concentrations, in viscous solvents, and when poorly solubilized. Their photophysical properties were then further correlated with their structural features, using density functional theory (DFT) calculation. Finally, we demonstrated their potential applications in monitoring pH changes, quantifying globular proteins, as well as cell imaging with confocal microscopy.
Structure-function characterization and engineering of polysaccharides and antibodies with therapeutic activity (2012)

Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Biological Engineering, 2012.
Supplementary Figure S4 from Androgen Receptor Signaling Regulates DNA Repair in Prostate Cancers (2023)

&lt;p&gt;Supplementary Figure S4 - PDF file 793K, Immunoblot of LNCaP demonstrating LIG4 knockdown&lt;/p&gt;
The effects of porcine somatotropin (pST) dosage and dietary lysine level on growth performance and carcass characteristics of finishing swine (1988)

One hundred and forty-four finishing pigs (initial weight 126 lb) were utilized to determine the effects of PST dosage (4 or 8 mg PST' head^-1day^-1 ) and dietary lysine level (.8, 1,0, 1.2, or 1.4%) on growth performance and carcass characteristics. Pigs were injected daily in the extensor muscle of the neck with either 4 or 8 mg PST and fed a pelleted corn-soybean meal-sesame meal diet containing .8% lysine. Additional lysine levels of 1.0, 1.2, and 1.4% were provided by L-lysine HCl. Control pigs (placebo injection) received the .8% lysine diet. All diets were formulated to contain at least 220% of NRC (1979) recommendations for other amino acids, vitamins and minerals. There were no PST x lysine interactions for any observed traits (P>,1 0), so only main effects are reported. Increasing level of dietary lysine resulted in linear improvements in average daily gain (ADG) and feed conversion (F/G) in PST treated pigs. Adjusted backfat thickness (ABF) was lowered (linear P<.05), whereas longissimus muscle area (LMA) was increased (linear P<.05) with increasing lysine level. Pigs injected with 8 mg PST had similar ADG compared to 4 mg PST-treated pigs, and both were greater than controls (linear and quadratic P < .05%). Increasing PST dosage improved F/G (linear and quadratic P < .05), LMA and reduced ABF (linear P < .05). Urea concentrations determined in plasma on day 28 decreased (linear and Quadratic P<.05) with increasing lysine level, whereas free fatty acids and insulin tended to increase (P<.10). Porcine somatotropin dosage decreased urea concentrations while glucose, insulin and free fatty acid concentrations increased (linear and quadratic P < .05) in plasma. Trimmed ham and loin weights were increased slightly (P >.10) by increasing dietary lysine level and were also increased (linear P < .10) by PST dosage.; Swine Day, Manhattan, KS, November 17, 1988
Stem/Progenitor Cell Mobilization for Tissue Regeneration (2008)

Introduction In this study we explored the possibility of utilizing host stem or progenitor cells for tissue regeneration in vivo. We investigated whether these cells could be mobilized into target specific sites for regenerative medicine applications. Materials and Methods Polyglycolide polymers were implanted subcutaneously in mice to recruit host cells. The scaffolds were retrieved at 1, 2, 3 and 4 weeks after implantation for analyses. Cells contained within the retrieved scaffolds were cultured and differentiated into osteogenic, endothelial, myogenic, and adipogenic cell lineages using the respective cell differentiation conditions. Results and Discussion The retrieved implants showed a progressive increase in neovascularization and host cell infiltration with time. Tissue infiltrates within the scaffolds showed the evidence of collagen deposition after 2 weeks of implantation and continued to increase over time. The culture of infiltrated cells showed the expression of stem cell markers and these cells were able to differentiate into various cell lineages. Conclusions This study demonstrates that stem or progenitor cells can be mobilized and recruited into target specific sites. These findings suggest that host stem cells may be maneuvered to achieve tissue regeneration in vivo using a target specific scaffold system.
SRAM methodology for yield and power efficiency (2008)

We present a novel power-aware yield enhancement design methodology and reconfiguration scheme for deep submicron SRAM designs. We show that with the continued trend of raising array supply to counter process variations, it is more effective to use a per-element selectable virtual power-supply scenario as opposed to single array supply with traditional redundancy schemes. The element can be a bank, a sub-array, or an independent row/column, and the element's virtual supply value is determined based on fail bitmaps. The technique can also be used in conjunction with traditional redundancy schemes to further improve the efficiency. The supply and redundancy assignments can be obtained by relying on memory reconfiguration algorithms. For this, we propose a greedy yet accurate algorithm that runs in O(nlogn) as opposed to average case O(n2) traditional algorithms. The methodology leads to significant power savings ranging from 20% to 50% for 65nm technology. We expect the savings to increase in future technologies as leakage powers dominate. To the best of our knowledge, this is the first time such a methodology is applied to SRAM designs.