gebhart/patrepeval huggingface dataset:
Patient HSP70‐hom TG haplotype is associated with decreased transplant‐related mortality and improved survival after sibling HLA‐matched hematopoietic stem cell transplantation (2009)

Heat shock protein 70-hom (HSP70-hom) plays an important role in protein folding and immune responses. Therefore, HSP70-hom gene polymorphisms may act as important factors in predicting the prognosis of patients receiving allogeneic hematopoietic stem cell transplantation (HSCT). To evaluate the role of HSP70-hom gene polymorphisms in the prognosis of patients receiving sibling human leukocyte antigen (HLA)-matched allogeneic HSCT, the HSP70-hom polymorphisms, T2437C and G2763A, were genotyped in 147 patients receiving sibling HLA-matched allogeneic HSCT. Individual diplotypes were estimated from genotype data of the two HSP70-hom polymorphisms using the expectation maximization algorithm. Patients with the 2763GG or GA genotype showed longer overall survival compared with those with the 2763AA genotype, and patients with a TG haplotype (TG/TA, TG/TG or TG/CG) also showed longer overall survival compared with those with a non-TG haplotype (TA/TA or TA/CG) (both G2763A genotype and diplotype, p<0.01). Moreover, the 2437TT genotype was found to be protective for treatment-related death compared with the 2437TC genotype, and a TG haplotype was found to be very protective for treatment-related death compared with a non-TG haplotype (T2437C genotype, p=0.04; and diplotype, p=0.02). Therefore, our results suggest that HSP70-hom polymorphisms play an important role in the prognosis of patients receiving sibling HLA-matched allogeneic HSCT.
Supplementary Methods and Materials from The Multi-kinase Inhibitor Debio 0617B Reduces Maintenance and Self-renewal of Primary Human AML CD34<sup>+</sup> Stem/Progenitor Cells (2023)

&lt;p&gt;Supplementary methods and materials shows supplemental procedures.&lt;/p&gt;
PAPER 005: ADVANCED BONE REGENERATION USING AN INJECTABLE CASO4/CAPO4-TCP COMPOSITE COMPARED TO AUTOGENOUS BONE GRAFT IN A CANINE MODEL (2010)

Purpose: To test a CaSO4/CaPO4-TCP composite bone graft substitute in a crtically sized bone defect. Method: Twenty dogs had a contained medullary defect created in the proximal humerus. In ten dogs, the defect was treated with CaSO4/CaPO4-TCP composite graft (PRO-DENSE ™ , Wright Medical) and studied for 13 weeks (N=5) and 26 weeks (N=5). In the other ten dogs, the defect was treated with autograft and followed for 13 weeks. An additional ten unoperated humeri were used to establish the properties of normal canine bone. The area fraction, ultimate compressive stress and modulus of elasticity of bone in the experimental and normal humeri were quantified using histomorphometric and mechanical methods and analyzed using the Mann-Whitney test. Results: At 13 weeks, the area fraction, compressive stress and modulus of elasticity of new bone in the defects was several-fold greater (p ≤ 0.005) using CaSO4/CaPO4-TCP composite graft compared to defects treated with autograft. The area fraction and compressive stress of new bone using CaSO4/CaPO4-TCP composite graft were also several fold greater (p≤.009) compared to normal bone, but there was no difference in the modulus of elasticity. Although the compressive stress was still greater (p=0.047) at 26 weeks for defects treated with the composite graft compared to normal bone, the regenerated bone had remodeled to a normal cancellous architecture, incorporating minute fragments of residual graft. Conclusion: CaSO4/CaPO4-TCP composite graft produced a several-fold greater amount and strength of bone than autogenous graft bone at 13 weeks. There was no modulus mismatch between the regenerated and native cancellous bone. The composite graft holds promise for non-load bearing applications where dense, strong bone formation at earlier time points would be advantageous, potentially resulting in quicker return to activity.
Numerical Recreation of the Draupner Wave in Crossing Wave Systems Using Smoothed Particle Hydrodynamics (2020)

Abstract Freak waves, abnormally large waves, that occur in the open-ocean can cause significant damage to offshore structures and vessels. In this paper, we attempt to numerically reproduce the experiments of McAllister et al., (2019, J. Fluid Mech. [1]), to investigate the potential properties of the Draupner freak wave [2] in more detail. We use a Smoothed Particle Hydrodynamics (SPH) method to solve the full-3D Navier-Stokes equations. This Lagrangian method is able to recreate wave breaking, and has the potential to fully reproduce these experiments with the aim of providing further insight into properties of the waves created such as their kinematics and geometry. We compare time histories of water surface elevation produced numerically using four different particle sizes with experimentally-obtained data. We find good agreement in the time domain, with r2 (coefficient of determination) values between experimental and numerical data of over 0.94 the error in maximum wave height was less than 5 % for the finest particle size (over 100 million particles). We also numerically reproduce wave breaking observed in the experiments, where jet formation and breaking phenomena are qualitatively similar in appearance.
SU-GG-T-470: Impact of Daily Patient Setup Variation on Proton Beams Passing through the Couch Edge (2010)

Purpose: Proton treatments are sensitive to radiological pathlength in the beam path. The goal is to assess the amount of dose variation caused by the changes of couch edge in the beam during daily treatment. Method and Materials: Daily couch positions were obtained from the R&V system to compute lateral setup variations. Couch positions were simulated by shifting the isocenter and the patient's CT images above the couch-top for two standard-deviations (2SD). One and two-field passive scatter proton plans were designed to cover 95% of ICTV to 74Gy in the reference planning CT. The single beam plan was always chosen to bisect the couch edge. Two-field plans were designed by adding a second beam not intersecting with the couch. Doses were re-calculated in the shifted CT images for 10 patients. Results: The one standard-deviation of couch lateral variation for 11 patients in 388 daily setups was 0.53cm. We found that lateral couch variations increased for light-weighted patients (Spearman's correlation=0.76, p=0.007). For single-beam plans, dose decreased for all organs-at-risk when patient setup caused the couch to move into the beam. The reverse effect was true when couch moved out of the beam. The largest change in DVH at any dose level was −1.31% and −0.64% for the ipsilateral and total lungs when the couch moves into the field, and 1.53% and 1.88% when the couch moves out of the field. Compared to the corresponding single-beam plan, dosimetric uncertainty was reduced to 1.16% and −2.7% with a 2-beam plan. Conclusion: The overall dosimetric impact is limited if a single beam is allowed to shoot through the couch edge, although attention should be given to light-weight patients whose position on couch tends to be more uncertain. Selection of a good beam angle for planning is perhaps more important than the couch-induced dosimetric uncertainties.
Insulin-like growth factors and cancer: no role in screening. Evidence from the BUPA study and meta-analysis of prospective epidemiological studies (2006)

Insulin-like growth factor-1 (IGF-1), insulin-like growth factor-2 (IGF-2), and insulin-like growth factor binding protein-3 (IGFBP-3) were measured in frozen serum samples from 1051 men with cancer and 3142 controls in a nested case-control study from the British United Provident Association (BUPA) study cohort and associations with 14 cancers were examined, including prostate, colorectal, and lung. A meta-analysis of studies on these three cancer sites was also conducted. In the meta-analysis the odds ratio between the highest quartile IGF-1 group and the lowest quartile group was 1.31 (95% confidence interval (CI): 1.03-1.67) for prostate, 1.37 (1.05-1.78) for colorectal and 1.02 (0.80-1.31) for lung cancer, and for IGF-2 it was 0.72 (0.36-1.44) for prostate and 1.95 (1.26-3.00) for colorectal cancer. Results from the BUPA study were consistent with the estimates from the other studies. There were no statistically significant associations with IGFBP-3 and any of the cancer sites considered. Our results suggest that IGF-1, IGF-2, and IGFBP-3 measurements have no value in cancer screening, although IGF-1 and IGF-2 may be of aetiological significance in relation to colorectal and prostate cancer.
Supplementary Table 2 from Vaccination with Dendritic Cell/Tumor Fusions following Autologous Stem Cell Transplant Induces Immunologic and Clinical Responses in Multiple Myeloma Patients (2023)

&lt;p&gt;PDF file - 522K, Percentage of CD8+T cells recognizing MUC1 tetramer in HLA 2.1+ patients.&lt;/p&gt;
Supplementary Figure 1 from Hyaluronan Inhibits Postchemotherapy Tumor Regrowth in a Colon Carcinoma Xenograft Model (2023)

Supplementary Figure 1 from Hyaluronan Inhibits Postchemotherapy Tumor Regrowth in a Colon Carcinoma Xenograft Model
Effects of simmer current on flash-lamp impedance and their combined influence on the output of the Ho,Cr,Tm:YAG laser (1995)

The increase in slope efficiency and the reduction of the laser threshold of a flash-lamp-pumped Ho,Cr,Tm:YAG laser that are due to increased flash-lamp efficiency when the current of the dc simmer is increased are described. Investigations of the electrical characteristics of the flash lamp as a function of the simmer current prove that the flash-lamp impedance decreases to a constant value when the dc simmer current is increased. As a consequence an increase of the peak current through the flash lamp is observed, which improves the flash-lamp efficiency.
Covid-19 and Disparities in Nutrition and Obesity (2020)

Covid-19 and Disparities in Nutrition and Obesity Though the factors underlying racial and ethnic disparities in Covid-19 in the United States are multifaceted and complex, long-standing disparitie...
DYNAMICS OF ADSORPTIVE REACTOR WITH A BIMOLECULAR REACTION (1999)

Abstract A theoretical analysis is used to gain insight in the dynamics of an adsorptive fixed-bed reactor where an irreversible bimolecular reaction of the type A + B→P takes place. One of the reactants is assumed to be preferentially adsorbed with a favorable isotherm, while the other is adsorbed with a linear isotherm. The reaction follows an arbitrary kinetics where the rate is dependent on the concentrations of A and B. An analytic solution based on the method of characteristics is obtained for the case of local adsorption equilibrium. The dynamic behavior is affected by an intimate coupling of reaction kinetics and adsorption and breakthrough of the favorably adsorbed species is delayed by the occurrence of the reaction. The theoretical analysis is compared to experimental results obtained for an immobilized-enzyme reactor system for the esterification of propionic acid and isoamyl alcohol in hexane. The local adsorption equilibrium solution obtained for this system is in qualitative agreement with the experimental results. Quantitative agreement is obtained taking into account numerically the finite rate of adsorption and axial dispersion.
Inequalities for the Number of Walks in Trees and General Graphs and a Generalization of a Theorem of Erdös and Simonovits (2011)

We investigate the growth of the number w&lt;sub&gt;k&lt;/sub&gt; of walks of length k in undirected graphs as well as related inequalities. We provide an insight into the relations between certain combinatorial properties of graphs and (spectral) algebraical characterizations in terms of eigenvalues and eigenvectors of the adjacency matrix. \nWe show that the inequality w&lt;sub&gt;2a&lt;/sub&gt;w&lt;sub&gt;2(a+b+c)&lt;/sub&gt;&amp;ge;w&lt;sub&gt;2a+c&lt;/sub&gt;w&lt;sub&gt;2(a+b)+c&lt;/sub&gt; is valid for all graphs, which is a generalization of the inequality w&lt;sub&gt;2a&lt;/sub&gt;w&lt;sub&gt;2b&lt;/sub&gt;&amp;ge;w&lt;sub&gt;a+b&lt;/sub&gt;&lt;sup&gt;2&lt;/sup&gt; published by Dress and Gutman. We also show a similar sandwich theorem for the number of closed walks starting at a given vertex. Further, we prove that w&lt;sub&gt;2l+pk&lt;/sub&gt;w&lt;sub&gt;2l&lt;/sub&gt;&lt;sup&gt;k-1&lt;/sup&gt;&amp;ge;w&lt;sub&gt;2l+p&lt;/sub&gt;&lt;sup&gt;k&lt;/sup&gt; for all k,l,p&amp;isin;N, which is another generalization of the inequality by Dress and Gutman and at the same time also a generalization of an inequality published by Erd&amp;ouml;s and Simonovits. Both results can be translated directly into the corresponding forms using the higher order densities instead of the number of walks.\nFurthermore, we provide two families of lower bounds for the spectral radius of the adjacency matrix (in terms of the number of closed walks starting at a specified vertex) that generalize a bound published by Nosal. We also show monotonicity, i.e., the method yields better bounds with increasing walk lengths.\nIn the last part of the paper, we investigate several special cases w.r.t. the graph class as well as regarding the inequality. We show, that there are connected bipartite graphs as well as unconnected cycle-free graphs that violate the inequality w&lt;sub&gt;3&lt;/sub&gt;&amp;ge;dw&lt;sub&gt;2&lt;/sub&gt;. In contrast, we show that surprisingly this inequality is always satisfied for trees and we show how to construct worst-case instances (w.r.t. the difference of both sides of the inequality) for a given degree sequence. We also provide a proof for the inequality w&lt;sub&gt;5&lt;/sub&gt;&amp;ge;dw&lt;sub&gt;4&lt;/sub&gt; for trees and conclude with a corresponding conjecture for longer walks.
Induction of APOBEC3 family proteins, a defensive maneuver underlying interferon-induced anti–HIV-1 activity (2006)

Apolipoprotein B mRNA-editing enzyme-catalytic polypeptide-like 3G (APOBEC3G), a cytidine deaminase, is a recently recognized innate intracellular protein with lethal activity against human immunodeficiency virus (HIV). Packaged into progeny virions, APOBEC3G enzymatic activity leads to HIV DNA degradation. As a counterattack, HIV virion infectivity factor (Vif) targets APOBEC3G for proteasomal proteolysis to exclude it from budding virions. Based on the ability of APOBEC3G to antagonize HIV infection, considerable interest hinges on elucidating its mechanism(s) of regulation. In this study, we provide the first evidence that an innate, endogenous host defense factor has the potential to promote APOBEC3G and rebuke the virus-mediated attempt to control its cellular host. We identify interferon (IFN)-alpha as a potent inducer of APOBEC3G to override HIV Vif neutralization of APOBEC3 proteins that pose a threat to efficient macrophage HIV replication. Our data provide a new dimension by which IFN-alpha mediates its antiviral activity and suggest a means to render the host nonpermissive for viral replication.
Indicadores y dimensiones que definen la actitud del consumidor hacia el uso del comercio electrónico (2007)

El objetivo de este trabajo es identificar los indicadores y dimensiones que definen la actitud del consumidor hacia Internet como canal o medio para realizar las compras. Para ello y, después de recoger en una escala los indicadores publicados en la literatura, y mediante ecuaciones estructurales, los resultados indican que, por un lado, existen factores característicos del comercio electrónico que lo diferencian del comercio tradicional porque aportan un mayor valor añadido al consumidor y que denominamos factores motivadores a la compra. Por otro lado, teniendo en cuenta que el consumidor percibe mayor riesgo en sus compras en Internet que por los canales tradicionales, existen factores inhibidores que frenan el uso del comercio electrónico, ya que no sólo no aportan valor añadido al canal sino que podrían anular el efecto positivo de los factores motivadores y que denominamos factores desmotivadores a la compra. The objective of this work is to define both the indicators and the dimensions that measure the attitude of the consumer towards the use of the Internet as a channel of purchasing, as well as their meaning. After gathering all the indicators presented in literature, by structural equations, it's obtained as a result in one hand, that there are characteristic factors of the ecommerce, which we denominated encouraging factors, that differentiates it from the traditional market because they contribute a greater added value to consumers. On the other hand, considering the consumer perceives a bigger risk buying on the Internet than in the traditional markets, exist inhibiting factors that restrain the use of the ecommerce since they would not only don’t add an added value to the channel but they could also annul the positive effect of the encouraging factors. It's what we call discouraging factors.
Is ADC(3) as Accurate as CC3 for Valence and Rydberg Transition Energies? (2019)

The search for new ab initio models rapidly delivering accurate excited state energies and properties is one of the most active research lines of theoretical chemistry. Along with these methodological developments, the performances of known methods are constantly reassessed thanks to the emergence of new benchmark values. In this Letter, we show that, in contrast to previous claims, the third-order algebraic diagrammatic construction, ADC(3), does not yield transition energies of the same quality as the third-order coupled cluster method, CC3. There is indeed a significant difference in terms of accuracy between the two approaches, as we clearly and unambiguously demonstrate here thanks to extensive comparisons with several hundreds high-quality vertical transition energies obtained with FCI, CCSDTQ, and CCSDT. Direct comparisons with experimental 0-0 energies of small- and medium-size organic molecules support the same conclusion, which holds for both valence and Rydberg transitions, as well as singlet and triplet states. In regards of these results, we introduce a composite method that we named ADC(2.5) which consists in averaging the ADC(2) and ADC(3) excitation energies. Although ADC(2.5) does not match the CC3 accuracy, it significantly improves the ADC(3) results, especially for vertical energies. We hope that the present contribution will stimulate further developments and, in particular, improvements of the ADC-type methods which have the indisputable advantage of being computationally lighter than their equivalent-order CC variants.
Elucidating the Pseudomonas aeruginosa Fatty Acid Degradation Pathway: Identification of Additional Fatty Acyl-CoA Synthetase Homologues (2013)

The fatty acid (FA) degradation pathway of Pseudomonas aeruginosa, an opportunistic pathogen, was recently shown to be involved in nutrient acquisition during BALB/c mouse lung infection model. The source of FA in the lung is believed to be phosphatidylcholine, the major component of lung surfactant. Previous research indicated that P. aeruginosa has more than two fatty acyl-CoA synthetase genes (fadD; PA3299 and PA3300), which are responsible for activation of FAs using ATP and coenzyme A. Through a bioinformatics approach, 11 candidate genes were identified by their homology to the Escherichia coli FadD in the present study. Four new homologues of fadD (PA1617, PA2893, PA3860, and PA3924) were functionally confirmed by their ability to complement the E. coli fadD mutant on FA-containing media. Growth phenotypes of 17 combinatorial fadD mutants on different FAs, as sole carbon sources, indicated that the four new fadD homologues are involved in FA degradation, bringing the total number of P. aeruginosa fadD genes to six. Of the four new homologues, fadD4 (PA1617) contributed the most to the degradation of different chain length FAs. Growth patterns of various fadD mutants on plant-based perfumery substances, citronellic and geranic acids, as sole carbon and energy sources indicated that fadD4 is also involved in the degradation of these plant-derived compounds. A decrease in fitness of the sextuple fadD mutant, relative to the ΔfadD1D2 mutant, was only observed during BALB/c mouse lung infection at 24 h.
Dual-channel programmable precise time-delay pulse signal generator for synchronous DC-DC converter applications (2015)

A precise two-channel programmable time-delay pulse signal generator for synchronous DC-DC converter applications is presented. The developed system is required to generate high-side (HS) and low-side (LS) signal in frequency range from 1 MHz to 15 MHz and duty cycle values from 5% to 50%. While both generated signals have the same switching frequency, the pulse width and time-delay of each signal is adjusted independently of the other signal. The most notable characteristic of the developed generator is the ability to adjust dead-times between the generated signals as precise as possible in order to use the signal generator for testing the semiconductor devices for synchronous DC-DC converter applications. The developed signal generator has the ability to set the pulse width and time-delay with the precision of 250 ps. The system is designed to transmit generated signals using either the BNC or optical fiber cable. The functionality of the system is verified by measurements performed under various operating conditions.
Comparative Efficiency of Energy Transfer from CdSe–ZnS Quantum Dots or Nanorods to Organic Dye Molecules (2011)

Fluorescence resonance energy transfer (FRET) in conjugates of CdSe-ZnS semiconductor nanocrystals of different shapes (FRET donors) and an Alexa Fluor organic dye (FRET acceptors) is examined. The dye molecules are chemically conjugated with quantum dots (QDs) or nanorods (NRs) in dimethyl sulfoxide colloidal solutions, and FRET efficiency in the purified conjugates is measured. The FRET from NR to a single dye molecule is less efficient than that of the QD-dye conjugates and this effect is explained in terms of distance-limited energy-transfer rate in the case of a point-like acceptor and extended donor dipoles. However, the larger surface area of NRs allows for many more dye acceptors to be bound, and the total FRET efficiency in NR-dye conjugates approaches those of QD-dye conjugates.
High spectral purity millimetre-wave modulated opticalsignal generation using fibre grating lasers (1998)

Millimetre-wave optical signal generation by heterodyning two fibre grating lasers is demonstrated. The resulting beat signal has an extremely narrow linewidth (&lt; 50 kHz), is continuously tunable (0 – 40 GHz) and exhibits negligible chirp under direct 2.6 Gbit/s modulation.
Chasing the Tail in Monocular 3D Human Reconstruction with Prototype Memory (2020)

Deep neural networks have achieved great progress in single-image 3D human reconstruction. However, existing methods still fall short in predicting rare poses. The reason is that most of the current models perform regression based on a single human prototype, which is similar to common poses while far from the rare poses. In this work, we 1) identify and analyze this learning obstacle and 2) propose a prototype memory-augmented network, PM-Net, that effectively improves performances of predicting rare poses. The core of our framework is a memory module that learns and stores a set of 3D human prototypes capturing local distributions for either common poses or rare poses. With this formulation, the regression starts from a better initialization, which is relatively easier to converge. Extensive experiments on several widely employed datasets demonstrate the proposed framework's effectiveness compared to other state-of-the-art methods. Notably, our approach significantly improves the models' performances on rare poses while generating comparable results on other samples.