gebhart/patrepeval huggingface dataset:
Structure and Function: Heat Shock Proteins and Adaptive Immunity (2007)

Heat shock proteins (HSPs) have been implicated in the stimulation and generation of both innate and adaptive immunity. The ability of HSPs to bind antigenic peptides and deliver them to APCs is the basis of the generation of peptide-specific T lymphocyte responses both in vitro and in vivo. The different HSP families are genetically and biochemically unrelated, and the structural basis of peptide binding and the dynamic models of ligand interaction are known only for some of the HSPs. We examine the contribution of HSP structure to its immunological functions and the potential "immunological repertoire" of HSPs as well as the use of biophysical techniques to quantify HSP-peptide interactions and optimize vaccine design. Although biochemical evidence for HSP-mediated endogenous processing of Ag has now emerged, the issue of whether HSP-peptide complexes act as physiological sources of Ag in cross-presentation is controversial. We assess the contribution of biochemical studies in this field.
[Fluorescence characterization of leachate organic matter in 717 resin adsorption process]. (2010)

Synchronous fluorescence spectroscopy and 3-dimensional excitation emission matrices spectra (3DEEM) were used to study the composition variation of dissolved organic matter (DOM) in landfill leachate in the adsorption process with 717 resin. The synchronous fluorescence spectra showed fluorescence intensities of longer wavelength went down greatly while those of shorter wavelength went up in the first 10 min, then there were little changes. 3DEEM results indicated that there were two fulvic-like fluorescence peaks, whose intensities decreased dramatically, the peak intensities ratio (I(UV)/I(Vis)) also decreased, and the blue shifts of emission wavelengths took place obviously with the time rising. It was indicated that the adsorption rate of DOM by 717 resin was fast, and the main adsorbed DOM had higher molecular weight and higher degree of complexity, which was potential to facilitate subsequent bio-treatment.
La cohésion diélectrique des gaz rares (1929)

La notion de cohésion diélectrique d'un gaz rare. Mesures de Bouty, en champ constant, avec He, Ne, Ar. Les auteurs ont déterminé les cohésions diélectriques en champ alternatif : He, Ne, Ar, Kr, Xe. La néon à la cohésion diélectrique la plus faible. Dans la série Ne, Ar, Cr, Xe, la cohésion diélectrique croît avec le nombre atomique. Discussion sur le mécanisme de la décharge disruptive dans les gaz rares.
Absolute and relative risk prediction in patients candidate to isolated aortic valve replacement: should we change our mind? (2009)

EuroSCORE appears to be an invalid model in absolute and relative risk prediction for isolated AVR. On this basis, its use in selecting candidates to PAVI should be carefully weighted. Correct stratification and sufficient calibration of absolute risk estimate of high-risk patients are, therefore, mandatory in the aim of assigning those patients who show risk factors really responsible for the worst surgical outcome to new techniques. The goal should be reached by exploring the weight of each independent predictor of death in each single institution involved in PAVI procedures, evaluating local surgical results in terms of absolute risk and analysing those variables significantly affecting relative risk.
A phase II study of gefitinib in patients with metastatic melanoma (2011)

Gefitinib is an inhibitor of the epidermal growth factor receptor, which is frequently expressed on both choroidal and nonchoroidal melanoma cells. We evaluated the clinical efficacy of gefitinib in patients with metastatic melanoma. Patients with stage IV or unresectable stage III melanoma and Zubrod performance status of less than or equal to 2 were eligible. Previous systemic treatment for metastatic disease was required. The dose of oral gefitinib was 250 mg administered daily, and tumor response was evaluated every 6 weeks. Forty-six patients with nonchoroidal melanoma and six with choroidal melanoma were treated, and 48 were evaluable for response. The median age was 62.5 years. Forty-one patients (79%) had stage M1c disease. There were no drug-related grade 4 or 5 adverse events, and fatigue was the only grade 3 adverse event that occurred in more than 5% of patients. Two patients (4%) had partial responses and 13 patients (27%) had disease stabilization. The two responders had a median duration of response of 10.9 months. The median overall progression-free survival was 1.4 months and the median overall survival was 9.7 months. Among the patients with sufficient tissues obtained before and 6 weeks after starting gefitinib administration, there were no notable trends in the changes of the tumoral expression of p-ERK1/2, p-AKT, PAK1, and serum levels of vascular endothelial growth factor or IL-8 with treatment. We concluded that gefitinib was well tolerated but had minimal clinical efficacy as a single-agent therapy for unselected patients with metastatic melanoma.
EXCRETION OF ACEBUTOLOL AND ITS MAJOR METABOLITE DIACETOLOL INTO INFANT BLOOD CIRCULATION AND THE BREAST MILK (2003)

Acebutolol (AC) is a chiral β-adrenergic blocking drug, which is useful clinically as the racemate in treating hypertension and is metabolized to an equipotent chiral metabolite, diacetolol (DC). In this paper we report a case of a 32 year old woman who was receiving AC during her pregnancy and lactating time for management of hypertension. The maternal plasma level and breast milk as well as cord blood collected to see whether the drug is transferred to the fetus through the mother stereoselectively. A stereospecific high-performance liquid chromatographic (HPLC) assay was used to measure the enantiomeric concentrations of AC and DC. AC and DC enantiomers are stereoselectively excreted into the milk, although the concentrations of DC enantiomers were higher than those of AC. AC concentrations were very low in both cord artery and vein samples four hours after taking the drug however, the stereoselective concentrations of metabolite, DC, was found in these samples. In conclusion, AC and DC enantiomers are excreted in human breast milk in concentrations much higher than that in maternal plasma. Furthermore, DC was found in the infant’s plasma indicating that accumulation of metabolite did occur in this infant.
Vaccinia Virus A30L Protein Is Required for Association of Viral Membranes with Dense Viroplasm To Form Immature Virions (2001)

The previously uncharacterized A30L gene of vaccinia virus has orthologs in all vertebrate poxviruses but no recognizable nonpoxvirus homologs or functional motifs. We determined that the A30L gene was regulated by a late promoter and encoded a protein of approximately 9 kDa. Immunoelectron microscopy of infected cells indicated that the A30L protein was associated with viroplasm enclosed by crescent and immature virion membranes. The A30L protein was also present in mature virions and was partially released by treatment with a nonionic detergent and reducing agent, consistent with a location in the matrix between the core and envelope. To determine the role of the A30L protein, we constructed a stringent conditional lethal mutant with an inducible A30L gene. In the absence of inducer, synthesis of viral early and late proteins occurred but the proteolytic processing of certain core proteins was inhibited, suggesting an assembly block. Inhibition of virus maturation was confirmed by electron microscopy. Under nonpermissive conditions, we observed aberrant large, dense, granular masses of viroplasm with clearly defined margins; viral crescent membranes that appeared normal except for their location at a distance from viroplasm; empty immature virions; and an absence of mature virions. The data indicated that the A30L protein is needed for vaccinia virus morphogenesis, specifically the association of the dense viroplasm with viral membranes.
Structural Basis and Specificity of Acetylated Transcription Factor GATA1 Recognition by BET Family Bromodomain Protein Brd3 (2011)

Recent data demonstrate that small synthetic compounds specifically targeting bromodomain proteins can modulate the expression of cancer-related or inflammatory genes. Although these studies have focused on the ability of bromodomains to recognize acetylated histones, it is increasingly becoming clear that histone-like modifications exist on other important proteins, such as transcription factors. However, our understanding of the molecular mechanisms through which these modifications modulate protein function is far from complete. The transcription factor GATA1 can be acetylated at lysine residues adjacent to the zinc finger domains, and this acetylation is essential for the normal chromatin occupancy of GATA1. We have recently identified the bromodomain-containing protein Brd3 as a cofactor that interacts with acetylated GATA1 and shown that this interaction is essential for the targeting of GATA1 to chromatin. Here we describe the structural basis for this interaction. Our data reveal for the first time the molecular details of an interaction between a transcription factor bearing multiple acetylation modifications and its cognate recognition module. We also show that this interaction can be inhibited by an acetyllysine mimic, highlighting the importance of further increasing the specificity of compounds that target bromodomain and extraterminal (BET) bromodomains in order to fully realize their therapeutic potential.
RESONANT TUNNELING IN SEMICONDUCTOR HETEROSTRUCTURES (1987)

This paper reviews some of the recent advances in resonant tunneling in GaAlAs-GaAs-GaAlAs heterostructures. The emphasis is on new physical mechanisms that enlarge the simple picture of one-dimensional, single-band, tunneling in semiconductors. I discuss the effect of a strong magnetic field and of hydrostatic pressure on resonant tunneling, and then I consider X-state resonant tunneling in addition to tunneling via states derived from a Ɖ-point potential profile. The limitations of our current understanding of these processes are pointed out.
How Bacteria are Affected by Toxic Metal Release (2016)

Metals and microbes are found everywhere on our planet; the ubiquity of each has led to their interactions over millennia, and has contributed to their reliance on each other to some degree. Some metals are essential to life, fulfilling chemical roles unattainable by organic molecules alone, while others are nonessential and have no known physiological role. All metals, however, are toxic in excessive concentrations, and can be found in the environment in excess due to anthropogenic activities. Over evolutionary history, microbes have accrued genetic adaptations to mediate the toxic effects of metal ion exposure; even so, no single strategy has been found to provide resistance to all toxic metals. This is likely a reflection of the physicochemical diversity of metal ions, as many metals ions can cause oxidative stress that can deplete cellular antioxidant reserves, which if overwhelmed can result in cellular damage or death. Other toxic mechanisms include replacement of metal co-factors in biomolecules, as well as mutagenic effects, microbial membrane damage, and/or affecting nutrient assimilation. Diversity is necessary for a healthy ecosystem, and these toxic effects of metal exposure can reduce microbial biodiversity in an environment.
Growth, evolution, and structural change in open source software (2002)

Our recent work has addressed how and why software systems evolve over time, with a particular emphasis on software architecture and open source software systems [2, 3, 6]. In this position paper, we present a short summary of two recent projects.First, we have performed a case study on the evolution of the Linux kernel [3], as well as some other open source software (OSS) systems. We have found that several OSS systems appear not to obey some of "Lehman's laws" of software evolution [5, 7], and that Linux in particular is continuing to grow at a geometric rate. Currently, we are working on a detailed study of the evolution of one of the subsystems of the Linux kernel: the SCSI drivers subsystem. We have found that cloning, which is usually considered to be an indicator of lazy development and poor process, is quite common and is even considered to be a useful practice.Second, we are developing a tool called Beagle to aid software maintainers in understanding how large systems have changed over time. Beagle integrates data from various static analysis and metrics tools and provides a query engine as well as navigable visualizations. Of particular note, Beagle aims to provide help in modelling long term evolution of systems that have undergone architectural and structural change.
727. Chemical constitution and amœbicidal action. Part V. Stereochemistry of emetine (1959)

A. Brossi, A. Cohen, J. M. Osbond, P. Plattner, O. Schnider and J. C. Wickens, J. Chem. Soc., 1959, 3630 DOI: 10.1039/JR9590003630
Collision avoidance based on line-of-sight angle (2015)

This paper addresses the problem of collision avoidance for fixed-wing unmanned aerial vehicles. The angular velocity of the aircraft is adjusted in order to avert a possible collision with cooperative or uncooperative obstacles. The novelty of this work is that the control law uses only the line-of-sight angle as feedback, which can be obtained from an inertial measurement unit and a gimbaled camera mounted onboard the vehicle. This work aims at providing a solution to the collision avoidance problem for small low-cost unmanned aerial platforms, which are not equipped with sensors capable of measuring data such as position and velocity of the obstacle. This problem of practical relevance is faced from a theoretical standpoint. A Lyapunov based analysis is outlined, which provides safety guarantees under a given set of assumptions that the obstacle must satisfy. Simulation results are presented to validate the theoretical findings.
Empowering Synthesis of Complex Natural Products (2019)

Synthesis of natural products remains a daring task. Their richly diverse and intricate structures often encompass a large degree of unsaturation, contain fused and/or bridged rings, or possess numerous stereogenic centers. Thus, their preparation requires significant synthetic overhead, detracting from their overall practicality as well as hampering the ability of medicinal chemists to synthesize derivatives for pharmaceutical optimization and structure-activity relationship studies. The purpose of this Minireview is to showcase recent examples of efficient total syntheses. Emphasis was not given to the evaluation of ideality or economies (quality), but rather to the practicality (quality with quantity).
Analyse statique modulaire des langages à objet. (2004)

We presented a framework for the modular analysis of object-oriented languages. We defined a liberal and generic trace semantics for class-bases object-oriented languages and we proved it sound and complete w.r.t. a trace semantics for object-oriented programs. We derived systematically the equations characterizing class invariants as an abstraction of the class concrete semantics. We dealt with the three main features of object-oriented languages: – inheritance, by considering the analysis of subclasses without accessing the parent's class source; – polymorphism, by studying an effective notion of behavioral subtyping; – encapsulation, by abstracting the interactions between an object and its context using regular expressions. The framework is very flexible and in particular we can distinguish three orthogonal axes for the analysis: – abstract domain: a class can be analyzed using either a generic abstract domain (Chapters 6 and 5) or a symbolic relational domain (Chapter 7) to obtain a more efficient analysis; – inheritance: a subclass can be analyzed either directly, by expanding the subclass relation, or indirectly, by using the parent's invariant (Chapters 8 and 9); – context: a class can be analyzed either aside from the instantiation context, so to obtain a result valid for all the contexts, or using an approximation of the context itself (Chapter 10). The future work will include the implementation and the study of the practical aspects of our results. In particular the interest will be the exploration of the orthogonal axes of the analysis. Furthermore, we plan to extend the results in order to cope with aspect-oriented languages [38], with concurrency and with temporal properties of objects.
Adsorption and Decomposition of Metal Carbonyls Loaded in Y-Type Zeolite (1977)

Mo(CO)6, Re2(CO)10, Ru3(CO)12, adsorbed on HY zeolite, were located by crystal structure analysis and their bonding with the framework has been investigated by IR spectroscopy. Initially, they occupy positions near the supercage center (Re) or near the supercage aperture (Mo, Ru). On partial decomposition Mo and Re complexes are displaced and bonded to the framework.
Fission-Track Age (400,000 yr) of the Rockland Tephra, Based on Inclusion of Zirco Grains Lacking Fossil Fission Tracks (1991)

Abstract A zircon fission-track age of about 400,000 yr B.P. has been determined for the Rockland tephra, a widespread pyroclastic layer in northern California and western Nevada. New ages of zircon separates from both proximal and distal exposures of this layer range from 370,000 to 460,000 yr; ages of the best material provide a narrower range, from 370,000 yr for unwelded ash-flow tuff to 420,000 yr for distal air-fall ash that appears to be uncontaminated by clastic detritus or xenocrysts. Detrital or xenocrystic grains in the ash-flow tuff may have been annealed during emplacement and cooling of the tuff. Detrital and xenocrystic zircons are identified on the basis of their physical characteristics and distinctly older ages. Independent stratigraphic and magnetostratigraphic data constrain the age of the Rockland tephra between 300,000 and 600,000 yr, a range that is compatible with the fission-track age. Zircon grains containing no spontaneous (fossil) tracks are regarded as part of the normal population of comagmatic grains because maximum ages calculated for these grains form a population that mimics the distribution of ages of individual zircon grains that contain fossil tracks; modal ages of both groups fall between 250,000 and 500,000 yr. Induced fission tracks from grains that lack fossil tracks are included in the age calculations, resulting in significantly younger and more coherent dates than would result if these tracks had been omitted, especially those of the finer-grained distal samples.
Surface characteristics of the entomopathogenic fungus Beauveria (Cordyceps) bassiana (2007)

Marked differences in surface characteristics were observed among three types of single-cell propagules produced by the entomopathogenic fungus Beauveria bassiana. Atomic force microscopy (AFM) revealed the presence of bundles or fascicles in aerial conidia absent from in vitro blastospores and submerged conidia. Contact angle measurements using polar and apolar test liquids placed on cell layers were used to calculate surface tension values and the free energies of interaction of the cell types with surfaces. These analyses indicated that the cell surfaces of aerial conidia were hydrophobic, whereas those of blastospores and submerged conidia were hydrophilic. Zeta potential determinations of the electrostatic charge distribution across the surface of the cells varied from +22 to -30 mV for 16-day aerial conidia at pH values ranging from 3 to 9, while the net surface charge ranged from +10 to -13 mV for submerged conidia, with much less variation observed for blastospores, +4 to -4 mV, over the same pH range. Measurements of hydrophobicity using microbial adhesion to hydrocarbons (MATH) indicated that the surfaces of aerial conidia were hydrophobic, and those of blastospores hydrophilic, whereas submerged conidia displayed cell surface characteristics on the borderline between hydrophobic and hydrophilic. Insect pathology assays using tobacco budworm (Heliothis virescens) larvae revealed some variation in virulence among aerial conidia, in vitro blastospores and submerged conidia, using both topical application and haemocoel injection of the fungal cells.
Prenatally undernourished rats show increased preference for wheel running<i>v.</i>lever pressing for food in a choice task (2008)

Maternal nutrition during pregnancy has a significant influence in establishing patterns of metabolism and postnatal behaviours in offspring, and therefore shapes their risk of developing disorders in later life. Although it is well established that a mismatch between food consumption and energy expenditure leads to obesity and metabolic dysregulation, little research has investigated the biological origin of such behaviour. We conducted the present experiments to investigate effects of early-life nutrition on preference between wheel running and lever pressing for food during adult life. To address this issue we employed a well-established experimental approach in the rat which has shown that offspring of mothers undernourished during pregnancy develop obesity and metabolic disorders when kept under standard laboratory conditions. Using this experimental approach, two studies were conducted where offspring of ad libitum-fed dams and dams undernourished throughout pregnancy were given the choice between wheel running and pressing a response lever for food. Across subsequent conditions, the rate at which the response lever provided food was varied from 0.22 to 6.0 (study 1) and 0.19 to 3.0 (study 2) pellets per min. Compared with the control group, offspring from dams undernourished during pregnancy showed a consistently greater preference for running over lever pressing for food throughout both experiments of the study. The results of the present study provide experimental evidence that a mother's nutrition during pregnancy can result in a long-term shift in her offspring's lifestyle choices that are relevant to obesity prevention. Such a shift, if endorsed, will have substantial and wide-ranging health consequences throughout the lifespan.
The <i>raf</i> Oncogene Is Associated with a Radiation-Resistant Human Laryngeal Cancer (1987)

In order to identify the genetic factors associated with the radiation-resistant human laryngeal carcinoma cell line (SQ-20B), tumor cell DNA was transfected into NIH/3T3 cells. A high incidence (six out of six) of raf sequences was found in transfected NIH/3T3 clones and the tumorigenic potential of SQ-20B DNA could be linked to genomic fragments that represent most of the kinase domain of human c-raf-1. An apparently unaltered 3.5-kilobase pair (kb) human c-raf transcript was identified in SQ-20B cells but was not observed in the transfected NIH/3T3 cell clones. Two new transcripts (4.2 kb and 2.6 kb) were found in tumorigenic clones; the large transcript was missing in a very poorly tumorigenic clone. Cytogenetic analysis indicated that the normal autosomes of chromosome 3 were absent in SQ-20B karyotypes and had formed apparently stable marker chromosomes. Unlike the recipient NIH/3T3 cell line, 30 percent of the transformed clone-1 metaphases had minute and double-minute chromosomes representative of amplified DNA sequences. The frequency of the c-raf-1 identification by NIH/3T3 transfection of SQ-20B DNA suggests the presence of some genetic abnormality within this locus.