gebhart/patrepeval huggingface dataset:
HCVerso1 and 2: faldaprevir with deleobuvir (BI 207127) and ribavirin for treatment-na&iuml;ve patients with chronic hepatitis C virus genotype-1b infection (2016)

The interferon-free combination of once-daily faldaprevir 120 mg, twice-daily deleobuvir 600 mg, and weight-based ribavirin was evaluated in two Phase III studies (HCVerso1, HCVerso2) in hepatitis C virus genotype-1b-infected, treatment-naïve patients, including those ineligible for peginterferon (HCVerso2). Patients without cirrhosis were randomized to 16 weeks (Arm 1; n=208 HCVerso1, n=213 HCVerso2) or 24 weeks (Arm 2; n=211 in both studies) of faldaprevir + deleobuvir + ribavirin. Patients with compensated cirrhosis received open-label faldaprevir + deleobuvir + ribavirin for 24 weeks (Arm 3; n=51, n=72). Primary endpoints were comparisons of adjusted sustained virologic response (SVR) rates with historical rates: 71% (HCVerso1) and 68% (HCVerso2). Adjusted SVR12 rates were significantly greater than historical controls for Arms 1 and 2 in HCVerso2 (76%, 95% confidence interval [CI] 71-81, <i>P</i>=0.002; 81%, 95% CI 76-86, <i>P</i><0.0001) and Arm 2 in HCVerso1 (81%, 95% CI 77-86, <i>P</i><0.0001), but not for Arm 1 of HCVerso1 (72%, 95% CI 66-77, <i>P</i>=0.3989). Unadjusted SVR12 rates in Arms 1, 2, and 3 were 71.6%, 82.5%, and 72.5%, respectively, in HCVerso1 and 75.6%, 82.0%, and 73.6%, respectively, in HCVerso2. Virologic breakthrough and relapse occurred in 24-week arms in 8%-9% and 1% of patients, respectively, and in 16-week arms in 7%-8% and 9%-11% of patients, respectively. The most common adverse events were nausea (46%-61%) and vomiting (29%-35%). Adverse events resulted in discontinuation of all medications in 6%-8% of patients. In treatment-naïve patients with hepatitis C virus genotype-1b infection, with or without cirrhosis, faldaprevir + deleobuvir + ribavirin treatment for 24 weeks resulted in adjusted SVR12 rates significantly higher than historical controls. Both studies were registered in ClinicalTrials.gov (NCT01732796, NCT01728324).
Design and Synthesis of a Peptide That Binds Specific DNA Sequences through Simultaneous Interaction in the Major and in the Minor Groove (2001)

A bivalent system capable of binding to hybrid DNA sites through simultaneous interaction in the major and the minor groove (see schematic representation) is formed by appropriate linking of the basic region of a b-ZIP protein (GCN4) to a tripyrrole related to the antibiotic distamycin.
Sensory and Motor Peripheral Nerve Function and Incident Mobility Disability (2014)

Poor sensorimotor nerve function independently predicted mobility disability. Future work should investigate modifiable risk factors and interventions such as strength training for preventing disability and improving function in older adults with poor nerve function.
On the architecture, operation, and applications of VMR-WB: the new cdma2000 wideband speech coding standard (2006)

This article is an overview of the architecture and operation of the VMR-WB5 a source- and network-controlled variable-rate multimode codec designed for robust processing of wideband speech. To enable a smooth transition from legacy narrowband voice services, VMR-WB is also capable of processing conventional telephone-bandwidth speech. The VMR-WB codec is interoperable with AMR-WB at certain bit rates, thus eliminating quality degradation and additional delay due to transcoding
Supplementary Figure 1 from Tumor-Specific CD8<sup>+</sup> T Cells Expressing Interleukin-12 Eradicate Established Cancers in Lymphodepleted Hosts (2023)

Supplementary Figure 1 from Tumor-Specific CD8&lt;sup&gt;+&lt;/sup&gt; T Cells Expressing Interleukin-12 Eradicate Established Cancers in Lymphodepleted Hosts
Genome Mining in Sorangium cellulosum So ce56 (2009)

Myxobacteria, especially members of the genus Sorangium, are known for their biotechnological potential as producers of pharmaceutically valuable secondary metabolites. The biosynthesis of several of those myxobacterial compounds includes cytochrome P450 activity. Although class I cytochrome P450 enzymes occur wide-spread in bacteria and rely on ferredoxins and ferredoxin reductases as essential electron mediators, the study of these proteins is often neglected. Therefore, we decided to search in the Sorangium cellulosum So ce56 genome for putative interaction partners of cytochromes P450. In this work we report the investigation of eight myxobacterial ferredoxins and two ferredoxin reductases with respect to their activity in cytochrome P450 systems. Intriguingly, we found not only one, but two ferredoxins whose ability to sustain an endogenous So ce56 cytochrome P450 was demonstrated by CYP260A1-dependent conversion of nootkatone. Moreover, we could demonstrate that the two ferredoxins were able to receive electrons from both ferredoxin reductases. These findings indicate that S. cellulosum can alternate between different electron transport pathways to sustain cytochrome P450 activity.
Ten years' experience treating abdominal aortic aneurysms with stent-grafts. (2004)

Stent-graft therapy for aortic aneurysms is a valuable alternative to open aortic repair, especially in older, sicker patients with large aneurysms. Continued device improvements coupled with an enhanced understanding of the important role of aortic pathology in determining therapeutic success will eventually permit ESGs to be a more durable treatment for aortic aneurysms.
Filtración marginal cuasi tridimensional en coronas de recubrimiento completo: revestimiento de resina frente a tratamiento con hipoclorito sódico (2011)

En este estudio se compararon los efecto de varios tratamientos y tecnicas de superficie sobre la filtracion marginal en coronas de recubrimiento completo utilizando un procedimiento de evaluacion cuasi tridimensional. Las coronas se colaron utilizando una aleacion de oro-plata-paladio a partir de la tecnica de colado a la cera perdida. De forma aleatoria se eligieron 28 molares humanos de reciente extraccion y se distribuyeron en cuatro grupos en funcion del tratamiento de superficie que habian recibido antes de cementar la corona: (1) ausencia de tratamiento previo (control negativo); (2) acondicionador (control positivo); (3) revestimiento con resina y acondicionador, y (4) acido fosforico, hipoclorito sodico y acondicionador. Todos los especimenes se cementaron con cemento de composite. Los indices de filtracion marginal mas bajos se registraron en el grupo 4. Se observo una variacion en la filtracion marginal entre especimenes obtenidos a partir de un mismo diente.
Epigenetic alteration of the Wnt inhibitory factor‐1 promoter occurs early in the carcinogenesis of Barrett's esophagus (2007)

The role of Wnt antagonists in the carcinogenesis of esophageal adenocarcinoma (EAC) remains unclear. We hypothesized that downregulation of the Wnt inhibitory factor-1 (WIF-1) might be involved in the neoplastic progression of Barrett's esophagus (BE). We analyzed the DNA methylation status of the WIF-1 promoter in normal, preneoplastic, and neoplastic samples from BE patients and in EAC cell lines. We investigated the role of WIF-1 on EAC cell growth and the chemosensitization of the cells to cisplatin. We found that silencing of WIF-1 correlated with promoter hypermethylation. EAC tissue samples showed higher levels of WIF-1 methylation compared to the matched normal epithelium. In addition, we found that WIF-1 hypermethylation was more frequent in BE samples from patients with EAC than in BE samples from patients who had not progressed to EAC. Restoration of WIF-1 in cell lines where WIF-1 was methylation-silenced resulted in growth suppression. Restoration of WIF-1 could sensitize the EAC cells to the chemotherapy drug cisplatin. Our results suggest that silencing of WIF-1 through promoter hypermethylation is an early and common event in the carcinogenesis of BE. Restoring functional WIF-1 might be used as a new targeted therapy for the treatment of this malignancy.
Using gold catalysts for upgrading glycerol from biodiesel production: Selective oxidation and synthesis of glycerol carbonate [Abstract] (2010)

The generation of large quantities of glycerol as by-product in the production of biodiesel is one major draw-back in the biodiesel industry. Consequently, there is great interest in finding chemical transformations for glycerol to more valuable chemicals. In this paper we present catalytic routes to upgrade waste glycerol to higher value products via selective oxidation and carbonylation routes. In addition to the current applications of organic carbonates as solvents and in the synthesis of polymers, their potential application as fuel additives has a very large market. With this in mind, we have discovered that glycerol carbonate can successfully be synthesised in high yields via the alcoholisis of urea through the use of gold-based heterogeneous catalysts. The process utilises two cheap and readily available materials in a chemical cycle that overall results in the chemical fixation of CO and a valorisation route for waste glycerine from biodiesel production.
Enforced STAT3 and PU.1 Expression Activates Type I Interferon-Producing Cell and Dendritic Cell Differentiation Programs in Megakaryocyte/Erythrocyte Progenitors. (2005)

Abstract A standing question in early hematopoiesis is whether cytokine signaling is sufficient to induce cell fate decisions. Previously, we have reported that enforced expression of human Flt3 in Flt3 negative megakaryocyte/erythrocyte progenitors (MEPs) rescues their interferon producing cell (IPC) and dendritic cell (DC) developmental potential: Human Flt3-signaling in MEPs leads to up-regulation of IPC, DC, and myelomonocytic development affiliated genes such as, STAT3, PU.1, and G-CSFR/M-CSFR/GM-CSFR, and activates differentiation to these lineages. To test whether single Flt3 downstream activated genes would be sufficient to cause the same effects, we transduced murine STAT3 and PU.1 cDNA into MEPs using retrovirus expression vectors, respectively. Both STAT3- and PU.1-transduced MEPs were capable to differentiate into IPCs and DCs in SCF and TPO supplemented media, and, with even higher efficiency, in SCF, TPO, and Flt3L supplemented cultures. While human Flt3-transduced MEPs maintained megakaryocyte-erythrocyte developmental potential and gained IPC, DC, and myelomonocytic cell potential, STAT3- and PU.1-transduced MEPs lost both megakaryocyte and erythrocyte developmental options, indicating that strong signaling of these transcription factors fully converted MEPs to the IPC, DC, and myelomonocytic lineages. Consistently, GATA-1 expression was down-regulated, and C/EBPα mRNA was up-regulated in STAT3- and PU.1-transduced MEPs. Interestingly, STAT3- and PU.1 over-expression in MEPs led to up-regulation of Flt3 mRNA levels, suggesting a self-sustaining effect of Flt3 signaling-cascade induced Flt3 expression. Thus, enforced expression of STAT3 and PU.1 in MEPs reprogrammed them to differentiate into IPCs, DCs and myelomonocytic cell lineages and inhibit Meg/E-lineage potential. Based on these data, we propose a model where Flt3 positive progenitor cells that locate in Flt3L rich environments will be directed to develop into IPCs and DCs. This process might be enhanced by a self-sustaining mechanism where Flt3 downstream transcription factors as STAT3 and PU.1 in turn maintain Flt3 expression.
Pharmacological inducibility of short-coupled Purkinje ectopy in patients with spontaneous short-coupled ventricular fibrillation (2023)

Abstract Funding Acknowledgements Type of funding sources: None. Introduction In a subset of patients with idiopathic ventricular ﬁbrillation (IVF), the cause is identified as short-coupled premature ventricular complexes (ScPVCs), which mostly originate from Purkinje cells, and are often short-living and undetected. There is no consistent test allowing identification of patients vulnerable to this malignant arrhythmia. We aimed at evaluating sodium channel blocker (NaBl) testing in patients who survived IVF associated with SCPVCs. Methods We retrospectively reviewed data of 112 patients at 3 centers, with the diagnosis of IVF associated with spontaneous and documented scPVCs. No patient from the previous report was included. We analyzed all patients who underwent NaBl tests during evaluation of IVF. An arrhythmogenic NaB test was defined as the occurrence of ≥10 scPVCs and/or ≥ 1 repetitive form (couplet, triplet, run) during the test, without spontaneous scPVC at baseline. We defined scPVCs as an R-on-T pattern PVC. We evaluated the occurrence of scPVC during NaB infusion, the arrhythmia pattern and we compared the characteristics of the arrhythmogenic versus non-arrhythmogenic response groups. Data regarding anti-arrhythmic drug treatment and follow-up were collected at each center. Results In total, 48 patients were included (Table). The NaB tests were performed using ajmaline 1mg/kg/5 or 10min, or flecainide 2mg/kg/10min. Overall, an arrhythmogenic NaB test occurred in 23 of 48 (48%) patients. Isolated ScPVCs were observed in 11 patients, couplet/triplets in 10, and runs in 6. The arrhythmogenic response was reproduced in 5/5 patients who had a second NaB test during scPVC mapping before catheter ablation. There were no signiﬁcant differences between patients with arrhythmogenic or non-arrhythmogenic NaB tests in all baseline clinical variables tested including VF burden (Table). All patients were followed at least 1 year after initial diagnosis and NaB test. Under hydroquinidine (600 or 900mg/day), appropriate defibrillator shocks occurred in 7 of 8 patients with arrhythmogenic NaB test; whereas shocks occurred only in 2 of 11 patients with non-arrhythmogenic NaB test (P=0.02). Conclusion Sodium blockers unravel scPVCs in up to 50% of patients with IVF and may therefore represent a valuable tool to detect a potential cause for sudden cardiac death (SCD) or unexplained syncope. Additionally, the arrhythmogenic response to NaB may be associated with the success of hydroquinidine in preventing IVF recurrence, a finding that suggests the existence of distinct scPVCs phenotypes and that may have important therapeutic implications. Further functional and genetical investigations are warranted to explore the mechanisms underlying this association.
Molecular Dynamics, Free Energy, and SPR Analyses of the Interactions between the SH2 Domain of Grb2 and ErbB Phosphotyrosyl Peptides (2003)

We studied the interactions between the SH2 domain of growth factor receptor binding protein 2 (Grb2) and ErbB receptor-derived phosphotyrosyl peptides using molecular dynamics, free energy calculations, and surface plasmon resonance (SPR) analysis. Binding free energies for nine phosphotyrosyl peptides were calculated using the MM-PBSA continuum solvent method, and excellent qualitative agreement with the SPR experimental data, with a correlation coefficient of 0.92, was obtained. Consistent with previous experimental findings, phosphotyrosyl peptides with the consensus sequence pYXNX showed favorable binding affinity for the Grb2. Unexpectedly, phosphotyrosyl peptides with the consensus sequence pYQQD, which had not shown any specific binding affinity for the Grb2 in earlier studies, also showed favorable binding affinity for the Grb2 in our experimental and computational analyses. Component analysis of the calculated binding free energies revealed that van der Waals interaction between the Grb2 and the phosphotyrosyl peptide was the dominant factor for specificity and binding affinity. These results indicate that current methods of estimating binding free energies are efficient for obtaining important information about protein-protein interactions, which are essential for the transmission of signals in cellular signaling pathways.
Invariant Image Improvement by sRGB colour space sharpening (2005)

Reasoning from image formation, we have shown that there exists a greyscale image – the invariant image – that depends only on the reflectances in the scene. Since illumination dependence is removed, one aspect of the invariant image is that shadows are effectively removed. Moreover, given either a calibration, or clean data with good noise statistics, this invariant is easily found. However, we found that the performance was much poorer on ordinary images that include the typical nonlinear processing in cameras. The contribution of this paper is that we can find a good invariant notwithstanding input image nonlinearities. Our strategy is to follow standard colorimetric procedure and convert image RGBs to the appropriate colour space for our method. We do this by converting first to the linear sRGB colour space and then concatenating conversion to XYZ tristimulus values by a spectral sharpening transform. We handle a suite of images which were intractable to the original method and are now able to find a shadow-free intrinsic reflectance image.
Automated Visual Inspection for Solder Joints of PCB Based on 3-D Image Analysis (1999)

Automated visual solder inspection was studied for different printed circuit boards (PCBs) based on 3-D-image analysis. The optical 3-D scanner accurately detects height of a solder joint from differently focused images of a laser spot. Emitted laser light on the solder joint is detected simultaneously by plural sensors whose focal points are set at different height to realize high-speed height acquisition without secondary-reflection problems caused by the specular surface of the solder joint. An inspection algorithm was designed to recognize a solder joint using detected height and the intensity image so that different shapes of solder fillet do not affect inspection performance. A solder joint is classified based on extracted 3-D features of its fillet shape and 3-D location of the lead from its pad. Inspection parameters are automatically generated with inspection parameter autogeneration using electronic component and PCB design data. Evaluation showed the system gave 100% defect detection and very few false alarms (0.13%) using autogenerated inspection parameters. Results show the technique to be promising in actual production lines for different PCBs.
Approximations for the Nonlinear Self-Channel Interference of Channels With Rectangular Spectra (2013)

The Gaussian noise (GN) model, in which the fiber nonlinearity is modeled as an additive GN process, has been recently shown in the literature to be accurate for uncompensated coherent systems. Nevertheless, it does not have an exact analytical solution requiring analytical approximations to be made. Herein, we propose a new means of approximating the nonlinear self-channel interference (SCI) in the GN model, for the case of ideal Nyquist WDM channels that have rectangular spectra, bandlimited to the Nyquist bandwidth. We begin by introducing the method to estimate the peak power spectral density of the nonlinear interference before applying it to calculating the total SCI noise of a channel. The analytical solution is compared with the previously reported approximation and the exact numerical solution, to quantify the approximation error. The proposed approximation is accurate to within 0.3 dB of the GN model as the symbol rate is varied from 10 to 100 GBd. Finally, we demonstrate that for a superchannel, the total nonlinear interference for the central channel can be approximated to within 0.3 dB for three or more channels.
Development of Computer-Aided Process Planning System for Plate Bending by Line Heating (Report 3)—Relation Between Heating Condition and Deformation (1994)

An effective plate bending process by line heating can be achieved when the heating conditions are properly selected to produce desirable bending or inplane deformations. To make such decisions on he heating condition, the relation between heating conditions and deformations must be clarified. For his purpose, the authors studied the similarity rule which holds for the line heating process and derived wo parameters governing the deformations. Also, they developed new three-dimensional finite-element method codes as versatile tools to replace costly experiments. The validity of these codes is examined through comparison with an experiment, and they are applied to study the general relations between he parameters and the deformations of plates.
Synthetic studies on calyculin a: a convenient asymmetric synthesis of anti-vicinal diols (1994)

anti-Vicinal diols have been prepared with excellent relative and absolute stereocontrol via the reaction of aldehydes with B-{3-[(diisopropylamino)dimethylsilyl]allyl}diisopinocampheylborane in THF and diethyl ether and work-up using potassium fluoride, potassium hydrogen carbonate and hydrogen peroxide in aqueous methanol. Absolute stereoselectivities of reactions were determined by conversion of four product diols into bis[(R)-α-methoxy-α-(trifluoromethyl)phenylacetate] esters. The reactions are relevant to the synthesis of the marine phosphatase inhibitor calyculin A.
Tryptophanol-Derived Oxazolopyrrolidone Lactams as Potential Anticancer Agents against Gastric Adenocarcinoma (2021)

Gastric cancer is one of the deadliest cancers in modern societies, so there is a high level of interest in discovering new drugs for this malignancy. Previously, we demonstrated the ability of tryptophanol-derived polycyclic compounds to activate the tumor suppressor protein p53, a relevant therapeutic target in cancer. In this work, we developed a novel series of enantiomerically pure tryptophanol-derived small molecules to target human gastric adenocarcinoma (AGS) cells. From an initial screening of fourteen compounds in AGS cell line, a hit compound was selected for optimization, leading to two derivatives selective for AGS gastric cells over other types of cancer cells (MDA-MB-231, A-549, DU-145, and MG-63). More importantly, the compounds were non-toxic in normal cells (HEK 293T). Additionally, we show that the growth inhibition of AGS cells induced by these compounds is mediated by apoptosis. Stability studies in human plasma and human liver microsomes indicate that the compounds are stable, and that the major metabolic transformations of these molecules are mono- and di-hydroxylation of the indole ring.
Urologic, lymphedema, pelvic pain and gastrointestinal symptoms increase after radiotherapy in patients with primary uterine tumors: a prospective longitudinal Swedish cohort study (2021)

The urologic, lymphedema, pelvic pain and GI symptoms all increase after RT.
<title>Conceptual FOM design tool</title> (2000)

This paper discusses the research currently in progress to develop the Conceptual Federation Object Model Design Tool. The objective of the Conceptual FOM (C-FOM) Design Tool effort is to provide domain and subject matter experts, such as scenario developers, with automated support for understanding and utilizing available HLA simulation and other simulation assets during HLA Federation development. The C-FOM Design Tool will import Simulation Object Models from HLA reuse repositories, such as the MSSR, to populate the domain space that will contain all the objects and their supported interactions. In addition, the C-FOM tool will support the conversion of non-HLA legacy models into HLA- compliant models by applying proven abstraction techniques against the legacy models. Domain experts will be able to build scenarios based on the domain objects and interactions in both a text and graphical form and export a minimal FOM. The ability for domain and subject matter experts to effectively access HLA and non-HLA assets is critical to the long-term acceptance of the HLA initiative.
The Spinning Problem (2008)

Neighbor discovery in wireless networks with directional antennas is of crucial importance to many applications. In this paper we propose a variation of the classic neighbor discovery problem which we named the Spinning Problem. Here we are given an arbitrary number of devices on a plane. Each anten