gebhart/patrepeval huggingface dataset:
Abstract IA06: Targeting the mutanome for individualized cancer immunotherapy (2016)

Abstract Mutations are regarded as ideal targets for cancer immunotherapy. As neo-epitopes with strict lack of expression in any healthy tissue, they are expected to be safe. The systematic use of mutations for vaccine approaches, however, is hampered by the uniqueness of the repertoire of mutations (the mutanome) in every patient's tumor. We have recently proposed a personalized immunotherapy approach targeting the spectrum of individual mutations. Preclinically we could show in three independent murine tumor models that a considerable fraction of non-synonymous cancer mutations is immunogenic and that unexpectedly the immunogenic mutanome is pre-dominantly recognized by CD4+ T cells (the CD4+ immunome). Vaccination with such CD4+ immunogenic mutations confers strong antitumor activity. Encouraged by these findings we set up a process comprising mutation detection by exome sequencing, selection of vaccine targets by solely bioinformatical prioritization of mutated epitopes predicted to be abundantly expressed and good MHC class II binders and rapid production of synthetic mRNA vaccines encoding multiple of these mutated epitopes. We show that vaccination with such poly-neo-epitopic mRNA vaccines induces potent tumor control and complete rejection of established aggressively growing tumors in mice. End of 2013 this approach has been translated from bench to bedside when a first in human clinical study started demonstrating the clinical feasibility of the approach (NCT02035956). This tailored immunotherapy approach may be regarded as a universally applicable blueprint for comprehensive exploitation of the huge neo-epitope target repertoire of cancers enabling the treatment of patients by targeting every patient's tumor with individual just in time produced vaccines. Citation Format: Ugur Sahin. Targeting the mutanome for individualized cancer immunotherapy. [abstract]. In: Proceedings of the CRI-CIMT-EATI-AACR Inaugural International Cancer Immunotherapy Conference: Translating Science into Survival; September 16-19, 2015; New York, NY. Philadelphia (PA): AACR; Cancer Immunol Res 2016;4(1 Suppl):Abstract nr IA06.
A simple function for the description of near-exponential decays: The stretched or compressed hyperbola (2009)

The modeling of systems that exhibit near-exponential decay is most commonly done using a sum of exponentials or a stretched exponential. We note some drawbacks of these representations and present an alternative model, the stretched or compressed hyperbola, first described by E. Becquerel in the 1860s. This representation might be more helpful for interpolation, extrapolation, and classification of decays and requires only one additional parameter compared to simple exponential decay.
Proximity and Cooperativity Effects in Binuclear d0 Olefin Polymerization Catalysis. Theoretical Analysis of Structure and Reaction Mechanism (2009)

This contribution focuses on the distinctive center-to-center cooperative catalytic properties exhibited by bimetallic "constrained geometry catalysts" (CGCs), and analyzes metal-metal proximity effects on ethylene polymerization processes mediated by (mu-CH(2)-3,3'){(eta(5)-indenyl)[1-H(2)Si((t)BuN)](ZrMe(2))}(2) (Zr(2))-derived catalysts using density functional theory. Precatalyst geometries are first discussed, and then ion-pair formation/heterolytic dissociation processes involving the binuclear bis(borane) cocatalyst 1,4-(C(6)F(5))(2)BC(6)F(4)B(C(6)F(5))(2) (BN(2)), are analyzed and compared with those in the parent mononuclear analogue. It is found that, on proceeding from the mononuclear to binuclear catalyst system, ion-pair dissociation energies increase due to the stronger catalyst center-counterdianion interactions. Moreover, in the binuclear case, the interaction energies are markedly sensitive to geometrical matching between the binuclear bis(borane) and the precatalyst Zr-methyl positions. Binuclear catalytic effects between the metal centers are then explored, with the specific contribution from the proximity of the second metal center. Possible agostic interactions of alpha-alkenes pi-coordinated to one Zr center with the second Zr center of the binuclear catalyst are scrutinized for the case of 1-octene. It is argued that these agostic interactions are at least partly responsible for the unusual enchainment properties of the bimetallic catalysts. In particular, the greater polyethylene product branch densities found experimentally for the bimetallic catalysts can be correlated with an intramolecular reinsertion process, assisted by agostic interactions. Moreover, these same agostic interactions involving a chain growing at one metal site with the second metal site of the binuclear catalyst modify the environment to increase propagation/termination rate ratios, in turn favoring increased product molecular weight (M(n)). These effects are observed experimentally at closer Zr...Zr proximities in olefin polymerizations mediated by binuclear CGC catalysts.
Analisi delle prestazioni di un metodo pdi localizzazione guasti su reti di distribuzione dell’energia (2007)

L’ampia ricerca su metodi di localizzazione guasti in sistemi di potenza ha portato a un elevato numero di lavori in cui sono presentate tecniche inquadrabili in tre tipologie: a) misure di impedenza equivalente a frequenza industriale; b) analisi dei disturbi applicando tecniche di “pattern recognition” o la teoria delle onde viaggianti; c) sistemi esperti che impiegano reti neurali. In un precedente lavoro gli autori hanno proposto un sistema di misura distribuito per la localizzazione di sorgenti di eventi transitori dovuti a guasti o a fulminazione. Il metodo è stato ottimizzato per estenderne il campo di applicazione e se ne è verificato, per mezzo di simulazioni, il corretto funzionamento in condizioni operative realistiche della rete di distribuzione, variando sistematicamente anche i parametri di guasto.
Room-temperature amplitude-squeezed light from an injection-locked quantum-well laser with a time-varying drive current (1995)

We demonstrate the conversion of a time-varying (50-400-MHz) electrical current into an optical power with fidelity 0.8 dB (1.35 dB after correction for detection efficiency) beyond the standard quantum limit by drive-current modulation of an injection-locked quantum-well laser.
IL-4 driven transcription factor FoxQ1 is expressed by monocytes in atopic dermatitis and stimulates monocyte migration (2017)

Monocytes are actively recruited at sites of chronic inflammation. However, molecular factors involved in this process are not fully elucidated. Here, we show that cytokine IL-4 which is implicated in the development of chronic inflammatory disease atopic dermatitis (AD) induces expression of transcription factor FoxQ1 in human monocytes and macrophages. FoxQ1 mRNA levels were elevated in monocytes of AD patients compared to healthy donors. Overexpression of FoxQ1 in RAW 264.7 monocytic cells facilitated their migration towards MCP-1 and was associated with decreased expression of migration-regulating genes (claudin 11 and plexin C1). Furthermore, FoxQ1 overexpression in RAW cells accelerated TNFα secretion after LPS challenge. Overall, our results indicate that FoxQ1 stimulates monocyte motility, increases pro-inflammatory potential, and directs monocyte migration towards MCP-1 that is crucial for monocyte influx into inflammatory sites. This mechanism could contribute to the pathogenesis of chronic inflammatory disorders such as AD.
Sliding of HIV-1 reverse transcriptase over DNA creates a transient P pocket – Targeting P-pocket by fragment screening (2021)

Abstract HIV-1 reverse transcriptase (RT) slides over an RNA/DNA or dsDNA substrate while copying the viral RNA to a proviral DNA. We report a crystal structure of RT/dsDNA complex in which RT overstepped the primer 3’-end of a dsDNA substrate and created a transient P-pocket at the priming site. We performed a high-throughput screening of 300 drug-like fragments by X-ray crystallography and identified binding of two to P-pocket, which is composed of structural elements from polymerase active site, primer grip, and template-primer that are resilient to drugresistance mutations. Analogs of a fragment were synthesized of which two showed noticeable RT inhibition. An engineered RT/DNA aptamer complex trapped the transient P-pocket in solution. Structures of the RT/DNA complex were determined with a fragment and a synthesized analog bound at P-pocket by single-particle cryo-EM. Identification of P-pocket and the devised structurebased platform provide an opportunity for designing new types of polymerase inhibitors.
Separation and Compression Characteristics of Hydrogen by Use of Proton Exchange Membrane (2007)

Fuel cells (FC) produce electricity by reacting hydrogen and oxygen electrochemically by use of the membrane electrode assembly (MEA). Similarly, hydrogen pressure difference between anode and cathode can produce electricity according to the principle of “concentration cell”. We can pump up or separate hydrogen from the low H, partial pressure anode to the high H, partial pressure cathode as a reverse reaction, when we supply electricity to MEA. In particular, the depleted hydrogen exhausted from FC can be recovered by the hydrogen separation pump (HSP), or the low pressure hydrogen can be pumped up to high pressure hydrogen by the hydrogen compression pump (HCP). In this paper, we have preliminarily tested the HSP and HCP operation characteristics, and good performances of HSP and HCP were shown. The tested performances were analyzed by our hydrogen pump simulation model. The calculated results of current distributions agreed well with the measured results.
Catalysis of direct methanol electro-oxidation in buffered electrolytes. Annual technical progress report, July 15, 1984-July 14, 1985 (1985)

The development of a methanol-air fuel cell is studied. A detailed evaluation of concentrated aqueous K/sub 2/CO/sub 3/ solutions as the electrolyte is performed. The work presented here involves the electro-oxidation of methanol in the electrolye with various potential electrocatalysts.
A Study of Network Optimization Models for High-Performance Networks (2023)

An important feature of a bandwidth optimization system is the adequate provision of internet services with high data rates and wide coverage. Low bandwidth causes poor internet speed, network downtime, constant network traffic congestion and network unavailability during peak and off-peak periods, to mention a few. Existing research on bandwidth optimization focused on bandwidth allocation in creating different channels and traffic isolation to Guarantee good Quality of Service (QoS). Despite several optimization techniques and bandwidth allocation algorithms of existing researchers, there is still reduced connectivity by which internet users are grossly affected in spite of increased energy cost of network devices and other infrastructure. One of the serious issues of optimization techniques is that of the problem of mixed-integer linear programming. Therefore, this article gives a brief overview of a list of bandwidth optimization models deployed through previous researchers, stating the optimal algorithms that work with each of the models while formulating a new bandwidth optimization model that solves the problem of mixed-integer linear programming technique that was the approach adopted from existing works necessary for wireless networks.
Glo1 inhibitors for neuropsychiatric and anti-epileptic drug development (2014)

Many current pharmacological treatments for neuropsychiatric disorders, such as anxiety and depression, are limited by a delayed onset of therapeutic effect, adverse side effects, abuse potential or lack of efficacy in many patients. These off-target effects highlight the need to identify novel mechanisms and targets for treatment. Recently, modulation of Glo1 (glyoxalase I) activity was shown to regulate anxiety-like behaviour and seizure-susceptibility in mice. These effects are likely to be mediated through the regulation of MG (methylglyoxal) by Glo1, as MG acts as a competitive partial agonist at GABA(A) (γ-aminobutyric acid A) receptors. Thus modulation of MG by Glo1 represents a novel target for treatment. In the present article, we evaluate the therapeutic potential of indirectly modulating MG concentrations through Glo1 inhibitors for the treatment of neuropsychiatric disorders.
MEMS variable-capacitor phase shifters part I: Loaded-line phase shifter (2003)

This article describes the design and characterization of a continuously variable loaded-line phase shifter using micro-electro-mechanical system (MEMS) variable capacitors as phase shifting components. The design and characterization of micro-electro-mechanical system (MEMS) variable capacitors for operation at 26.5 GHz is described. A lumped-element model is obtained from measurements and physical consideration. Experimental results show a capacitance-tuning ratio of 3.7:1. The capacitor's characterization results are used for designing the phase shifter. A phase shift of 40.5° at 26.5 GHz for a loaded-line type has been measured. There is good agreement between simulated and measured results. A companion article (Part II) describes the application of these variable capacitors to the design of reflection-type phase shifters. © 2003 Wiley Periodicals, Inc. Int J RF and Microwave CAE 13: 321–337, 2003.
Mice lacking α1,3-fucosyltransferase IX demonstrate disappearance of Lewis x structure in brain and increased anxiety-like behaviors (2006)

The 3-fucosyl-N-acetyllactosamine [Lewis x (Le(x)), CD15, SSEA-1] carbohydrate structure is expressed on several glycolipids, glycoproteins, and proteoglycans of the nervous system and has been implicated in cell-cell recognition, neurite outgrowth, and neuronal migration during development. To characterize the functional role of Le(x) carbohydrate structure in vivo, we have generated mutant mice that lack alpha1,3-fucosyltransferase IX (Fut9(-/-)). Fut9(-/-) mice were unable to synthesize the Le(x) structure carried on glycoproteins and glycolipids in embryonic and adult brain. However, no obvious pathological differences between wild-type and Fut9(-/-) mice were found in brain. In behavioral tests, Fut9(-/-) mice exhibited increased anxiety-like responses in dark-light preference and in elevated plus maze tests. Immunohistochemical analysis showed that the number of calbindin-positive neurons was decreased in the basolateral amygdala in Fut9(-/-) mice. These observations indicated that the carbohydrates synthesized by Fut9 play critical roles in functional regulations of interneurons in the amygdalar subdivisions and suggested a role for the Le(x) structure in some aspects of emotional behavior in mice.
Aqueous “polysulfide-ene” polymerization for sulfur-rich nanoparticles and their use in heavy metal ion remediation (2018)

Thiol-functionalized polymer nanoparticles demonstrated well-defined mercury ion uptake kinetics, along with a very high mercury ion capture capacity.
Estradiol and Progesterone Regulation of Immunoglobulin A and G and Secretory Component in Cervicovaginal Secretions of the Rat1 (1985)

The present study examined the influence of hormones on the levels of immunoglobulins A (IgA) and G (IgG) and secretory component (SC) in cervicovaginal secretions of ovariectomized rats. Administration of estradiol to ovariectomized rats resulted in a significant decline in cervicovaginal content of IgA, IgG and SC. This response was dose dependent and was not prevented by administration of dexamethasone, a potent synthetic glucocorticoid, with estradiol. Treatment of ovariectomized rats with progesterone also lowered the levels of IgA and SC in cervicovaginal secretions. In contrast, dexamethasone had no apparent vaginal effect. The action of estradiol on cervicovaginal IgA, IgG and SC appears to be independent of uterine influence. This conclusion is based upon our observation that estrogen treatment of rats with ligations at their uterocervical junction still have decreased cervicovaginal IgA and SC levels. In parallel with this inhibitory effect, estradiol administration stimulated the accumulation of IgA and SC in uterine secretions. These findings indicate that the sex hormones play a role in regulating IgA, IgG and SC content in cervicovaginal secretions. In addition, it suggests that hormonal balance in females may influence the immune response of the reproductive tract to infectious disease.
A comparative study of input devices for digital slide navigation (2015)

This paper describes work presented at the Nordic Symposium on Digital Pathology 2014, Linköping, Sweden. Quick and seamless integration between input devices and the navigation of digital slides remains a key barrier for many pathologists to "go digital." To better understand this integration, three different input device implementations were compared in terms of time to diagnose, perceived workload and users' preferences. Six pathologists reviewed in total nine cases with a computer mouse, a 6 degrees-of-freedom (6DOF) navigator and a touchpad. The participants perceived significantly less workload (P < 0.05) with the computer mouse and the 6DOF navigator, than with the touchpad, while no effect of the input device used on the time to diagnose was observed. Five out of six pathologists preferred the 6DOF navigator, while the touchpad was the least preferred device. While digital slide navigation is often designed to mimic microscope interaction, the results of this study demonstrate that in order to minimize workload there is reason to let the digital interaction move beyond the familiar microscope tradition.
Adsorption of Phenol from Both Acidic and Basic Industrial Waste via Newly Synthesized Metal Organic Framework Hybrid Smart Adsorbents (2023)

Newly prepared pH-responsive metal organic frameworks (MOFs) having a specific surface area of 1400 m2/g could be exploited in the total removal of pollutants from wastewaters in this work. Smart core–shell structures of COP-150@ZIF-8 and NPC@ZIF-8 were successfully synthesized in large scales through internal extended growth under polyvinylpyrrolidone (PVP) regulation and used in phenol removal from aqueous media. The essential factors on the removal, namely pH, initial concentration of phenol, contact time, adsorbent dosage, and temperature, were studied and optimized. The experimental data were investigated by different kinetic and isotherm models, in which the removal of phenol by these smart sorbents is correlated with the Freundlich isotherm model and was found to follow the pseudo-second-order kinetic model. Excellent adsorption capacity of 1670 mg·g–1 and high efficiency were achieved in phenol removal (mixing time of only 20 min) that suggest the application of smart NPC@ZIF-8 core–shell in water filtration. Also, the optimal concentration of smart NPC@ZIF-8 and smart COP@ZIF-8 core–shell adsorbents was obtained as 300 and 250 mg·L–1, respectively. On the other hand, more than 94% removal of phenol was observed at pH = 3 for both smart nanosorbents (mere use of 0.1 g adsorbent). The results of thermodynamics confirm that the process of adsorption is exothermic and spontaneous. Moreover, having simulated the atomistic investigation of phenol removal via molecular dynamics, it was concluded that the different designed adsorbents in this work have a high capacity to remove phenol, specifically NPC@ZIF-8.
CONGESTIVE HEART FAILURE FROM INTRACRANIAL ARTERIOVENOUS FISTULA IN INFANCY (1972)

The clinical recognition of an intracranial arteriovenous fistula in a newborn infant depends on finding good peripheral pulses, a hyperdynamic cardiac impulse, cardiomegaly, and a cranial bruit. Dilated scalp veins and visible vascular malformations over the head will point toward the diagnosis. Cardiac catheterization can be diagnostic through recognition of a wide pulse pressure in combination with high oxygen saturations in the jugular veins and the right heart chambers. Cerebral angiography provides required anatomic detail. Surgical clipping of the feeding arteries may be helpful and even curative.
Sealed joint structure for electrochemical device (2007)

Several members make up a joint in a high-temperature electrochemical device, wherein the various members perform different functions. The joint is useful for joining multiple cells (generally tubular modules) of an electrochemical device to produce a multi-cell segment-in-series stack for a solid oxide fuel cell, for instance. The joint includes sections that bond the joining members to each other; one or more seal sections that provide gas-tightness, and sections providing electrical connection and/or electrical insulation between the various joining members. A suitable joint configuration for an electrochemical device has a metal joint housing, a first porous electrode, a second porous electrode, separated from the first porous electrode by a solid electrolyte, and an insulating member disposed between the metal joint housing and the electrolyte and second electrode. One or more brazes structurally and electrically connects the first electrode to the metal joint housing and forms a gas tight seal between the first electrode and the second electrode.
On substituents, steering, and stacking to control properties of the organic solid state (2004)

A graphical abstract is available for this content
AC Ground Fault Location for DC-AC systems based on a Grounding Resistor Voltage Analysis (2020)

The use of power converters is crucial in electric drives. However, the fault location is difficult to carry out. In this paper a new location method for ground faults in the AC side of a DC-AC converters is presented. This method is based on a grounding resistor voltage waveform analysis. This resistor is installed between the midpoint of the DC bus of the power converter and ground. Then, a histogram with the measured instant values are built. Two characteristic voltage values are calculated: the value with more repetitions and a value with more amplitude. With them, the calculation of a global fault coefficient is done and the location of the fault is determined. To corroborate this method, numerous simulations have been carried out obtaining positive results.
Bi-directional DPSK transmission of 16/spl times/10 Gb/s DWDM channels over 80 km SMF-28 using semiconductor optical amplifiers (2005)

The use of SOAs as in-line amplifiers in WDM systems leads to crosstalk as a result of cross-gain modulation. Constant intensity modulation format such as differential phase-shift-keying is in principle immune to XGM-induced crosstalk in SOAs. We report the reduction of crosstalk in a bi-directional system and successfully realize 16/spl times/10 Gb/s DWDM signals transmission over 80 km SMF-28 using DPSK modulation format for the first time.
Microcrystalline silicon solar cells with photonic crystals (2014)

We investigate the enhancement of optical absorption in thin-film microcrystalline silicon solar cell by creating multiple resonant modes based on photonic crystal band-edge effect. Experimentally, 1.3 times increase of photo-current is observed, and theoretically it is shown that ultimately more than 9.6% conversion efficiency could be possible even with only “500nm” microcrystalline silicon with indirect electronic gap.