gebhart/patrepeval huggingface dataset:
Urotropin azelate: a rather unwilling co-crystal (2003)

Urotropin (U) and azelaic acid (AA) form 1:1 co-crystals (UA) that give rise to a rather complex diffraction pattern, the main features of which are diffuse rods and bands in addition to the Bragg reflections. UA is characterized by solvent inclusions, parasite phases, and high vacancy and dislocation densities. These defects compounded with the pronounced tendency of U to escape from the crystal edifice lead to at least seven exotic phase transitions (many of which barely manifest themselves in a differential scanning calorimetry trace). These involve different incommensurate phases and a peritectoid reaction in the recrystallization regime (T(h) > 0.6). The system may be understood as an OD (order-disorder) structure based on a layer with layer group P(c)c2 and cell a(o) approximately 4.7, b approximately 26.1 and c approximately 14.4 A. At 338 K the layer stacking is random, but with decreasing temperature the build-up of an orthorhombic MDO (maximal degree of order) structure with cell a(1) = 2a(o), b(1) = b, c(1) = c and space group Pcc2 is begun (at approximately 301 K). The superposition structure of the OD system at T = 286 (1) K with space group Bmmb and cell â = 2a(o), b = b and ĉ = c/2 owes its cohesion to van der Waals interactions between the AA chains and to three types of hydrogen bonds of varied strength between U-U and U-AA. Before reaching completion, this MDO structure is transformed, at 282 K, into a monoclinic one with cell a(m) = -a(o) + c/4, b(m) = b, c(m) = -2(a(o) + c/2), space group P2(1)/c, spontaneous deformation approximately 2 degrees, and ferroelastic domains. This transformation is achieved in two steps: first a furtive triggering transition, which is not yet fully understood, and second an improper ferroelastic transition. At approximately 233 K, the system reaches its ground state (cell a(M) = a(m), b(M) = b, c(M) = c(m) and space group P2(1)/c) via an irreversible transition. The phase transitions below 338 K are described by a model based on the interaction of two thermally activated slip systems. The OD structure is described in terms of a three-dimensional Monte Carlo model that involves first- and second-neighbour interactions along the a axis and first-neighbour interactions along the b and c axes. This model includes random shifts of the chains along their axes and satisfactorily accounts for most features that are seen in the observed diffraction pattern.
Using phase retrieval to measure the intensity and phase of ultrashort pulses: frequency-resolved optical gating (1993)

We recently introduced a new technique, frequency-resolved optical gating (FROG), for directly determining the full intensity I(t) and phase φ(t) of a single femtosecond pulse. By using almost any instantaneous nonlinear-optical interaction of two replicas of the ultrashort pulse to be measured, FROG involves measuring the spectrum of the signal pulse as a function of the delay between the replicas. The resulting trace of intensity versus frequency and delay yields an intuitive display of the pulse that is similar to the pulse spectrogram, except that the gate is a function of the pulse to be measured. The problem of inverting the FROG trace to obtain the pulse intensity and phase can also be considered a complex two-dimensional phase-retrieval problem. As a result, the FROG trace yields, in principle, an essentially unique pulse intensity and phase. We show that this is also the case in practice. We present an iterative-Fourier-transform algorithm for inverting the FROG trace. The algorithm is unusual in its use of a novel constraint: the mathematical form of the signal field. Without the use of a support constraint, the algorithm performs quite well in practice, even for pulses with serious phase distortions and for experimental data with noise, although it occasionally stagnates when pulses with large intensity fluctuations are used.
Facile enzymatic preparation of monoacylated sugars in pyridine (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFacile enzymatic preparation of monoacylated sugars in pyridineMichel. Therisod and Alexander M. KlibanovCite this: J. Am. Chem. Soc. 1986, 108, 18, 5638–5640Publication Date (Print):September 1, 1986Publication History Published online1 May 2002Published inissue 1 September 1986https://pubs.acs.org/doi/10.1021/ja00278a053https://doi.org/10.1021/ja00278a053research-articleACS PublicationsRequest reuse permissionsArticle Views1026Altmetric-Citations349LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Immediate-early RNA 2.9 and early RNA 2.6 of bovine herpesvirus 1 are 3' coterminal and encode a putative zinc finger transactivator protein (1992)

Bovine herpesvirus 1 (BHV-1) contains three major immediate-early (IE) genes involved in regulation of the productive cycle of replication. Two spliced IE RNAs, IER4.2 (4.2 kb) and IER2.9 (2.9 kb), are under the control of a single promoter; IER1.7 (1.7 kb) is transcribed from a different promoter in the opposite direction. Examining the kinetics of transcription, we found that the IER4.2/2.9 promoter was turned off at the end of the IE period. An alternative promoter became active, directing synthesis of an unspliced early RNA, ER2.6 (2.6 kb), which was colinear with the second exon of IER2.9 except for its 5' end in the intron about 10 bases upstream of the splice site. Sequence analysis revealed a single open reading frame common to IER2.9 and ER2.6 with a coding potential of 676 amino acids. The putative protein, named p135, contained a cysteine-rich zinc finger domain near the N terminus with homology to ICP0 of herpes simplex virus type 1, to protein 61 of varicella-zoster virus, to early protein 0 of pseudorabies virus, and to other viral and cellular proteins. The remaining parts of p135 exhibited only limited homology, mainly with pseudorabies virus protein 0, but the entire sequence was highly conserved between two strains of BHV-1 (K22 and Jura). The latency-related antisense transcript covered a large portion of ER2.6 excluding the zinc finger coding region. In transient expression assays, p135 activated a variety of promoters, including that for ER2.6, but repressed the IER1.7 promoter. Thus, p135 combines functional characteristics of ICP0, a strong transactivator, and of protein 61, a repressor. BHV-1 seems to have evolved a subtle mechanism to ensure the continued synthesis of p135 while turning off IER4.2, which encodes p180, the herpes simplex virus type 1 ICP4 homolog.
<title>Imaging characteristics of plastic scintillating fiber screens for mammography</title> (1996)

A scanning slot digital mammography system using a plastic scintillating fiber screen (SFS) is currently being developed. To improve the x-ray interaction efficiency and absorption efficiency of an SFS, high Z elements can be added into the scintillating fiber core. In this paper, we investigate theoretically the zero spatial frequency detective quantum efficiency, DQE(0), and modulation transfer function, MTF(f), of three 2 cm thick SFSs made of polystyrene, polystyrene loaded with 5% by weight of lead, and polystyrene loaded with 10% by weight of tin scintillating fibers. X-ray interaction efficiency, scintillating light intensity distributions and line spread functions were generated using Monte Carlo simulation. DQE(0) and MTF(f) were computed for x-ray energies ranging from 15 to 50 keg. Loading high Z elements into the SFS markedly increased the DQE(0). For x-ray energies used for mammography, DQE(0) values of both high Z element loaded SFSs are about a factor of three higher than the DQE(0) of an Min-R screen. At mammographic x-ray energies, MTF(f) values of all three SFSs are greater than 50% at 25 lp/mm spatial frequency, and were found to be dominated by the 20 micrometer individual scintillating fiber diameter used. The results show that both high DQE(0) and spatial resolution can be achieved with the high Z element loaded SFSs, which make these SFS attractive for use in a scanning slot detector for digital mammography.
High levels of allele loss at the FHIT and ATM genes in non-comedo ductal carcinoma in situ and grade I tubular invasive breast cancers. (1996)

Fifty-four grade 1 tubular breast cancers and nine non-comedo ductal carcinoma in situ samples have been analyzed for loss of heterozygosity using a series of microsatellite markers. Markers mapping to regions of the genome for which loss of heterozygosity has been documented previously in higher-grade breast cancers were selected for this analysis. Even within this group of good prognostic early breast cancers, genetic events are very common. The highest levels of loss were observed for D3S1300, which maps within an intron of the recently identified FHIT gene. High levels of loss were also observed within the ATM gene. These findings indicate that allele loss at FHIT and ATM may be an important early event in the development of sporadic breast cancer.
Relighting with 4D incident light fields (2003)

We present an image-based technique to relight real objects illuminated by a 4D incident light field, representing the illumination of an environment. By exploiting the richness in angular and spatial variation of the light field, objects can be relit with a high degree of realism.We record photographs of an object, illuminated from various positions and directions, using a projector mounted on a gantry as a moving light source. The resulting basis images are used to create a subset of the full reflectance field of the object. Using this reflectance field, we can create an image of the object, relit with any incident light field and observed from a flxed camera position.To maintain acceptable recording times and reduce the amount of data, we propose an efficient data acquisition method.Since the object can be relit with a 4D incident light field, illumination effects encoded in the light field, such as shafts of shadow or spot light effects, can be realized.
Learning to Represent Programs with Graphs (2017)

Learning tasks on source code (i.e., formal languages) have been considered recently, but most work has tried to transfer natural language methods and does not capitalize on the unique opportunities offered by code's known syntax. For example, long-range dependencies induced by using the same variable or function in distant locations are often not considered. We propose to use graphs to represent both the syntactic and semantic structure of code and use graph-based deep learning methods to learn to reason over program structures. In this work, we present how to construct graphs from source code and how to scale Gated Graph Neural Networks training to such large graphs. We evaluate our method on two tasks: VarNaming, in which a network attempts to predict the name of a variable given its usage, and VarMisuse, in which the network learns to reason about selecting the correct variable that should be used at a given program location. Our comparison to methods that use less structured program representations shows the advantages of modeling known structure, and suggests that our models learn to infer meaningful names and to solve the VarMisuse task in many cases. Additionally, our testing showed that VarMisuse identifies a number of bugs in mature open-source projects.
Statistical bandwidth sharing (2001)

In this paper we study the statistics of the realized throughput of elastic document transfers, accounting for the way network bandwidth is shared dynamically between the randomly varying number of concurrent flows. We first discuss the way TCP realizes statistical bandwidth sharing, illustrating essential properties by means of packet level simulations. Mathematical flow level models based on the theory of stochastic networks are then proposed to explain the observed behavior. A notable result is that first order performance (e.g., mean throughput) is insensitive with respect both to the flow size distribution and the flow arrival process, as long as "sessions" arrive according to a Poisson process. Perceived performance is shown to depend most significantly on whether demand at flow level is less than or greater than available capacity. The models provide a key to understanding the effectiveness of techniques for congestion management and service differentiation.
Identification of an interleukin (IL)-25–dependent cell population that provides IL-4, IL-5, and IL-13 at the onset of helminth expulsion (2006)

Type 2 immunity, which involves coordinated regulation of innate and adaptive immune responses, can protect against helminth parasite infection, but may lead to allergy and asthma after inappropriate activation. We demonstrate that il25(-/-) mice display inefficient Nippostrongylus brasiliensis expulsion and delayed cytokine production by T helper 2 cells. We further establish a key role for interleukin (IL)-25 in regulating a novel population of IL-4-, IL-5-, IL-13-producing non-B/non-T (NBNT), c-kit+, FcepsilonR1- cells during helminth infection. A deficit in this population in il25(-/-) mice correlates with inefficient N. brasiliensis expulsion. In contrast, administration of recombinant IL-25 in vivo induces the appearance of NBNT, c-kit+, FcepsilonR1- cells and leads to rapid worm expulsion that is T and B cell independent, but type 2 cytokine dependent. We demonstrate that these IL-25-regulated cells appear rapidly in the draining lymph nodes, implicating them as a source of type 2 cytokines during initiation of worm expulsion.
Kinetics of neutrophil production in normal and neutropenic animals during the response to filgrastim (r-metHu G-CSF) or filgrastim SD/01 (PEG-r-metHu G-CSF). (2001)

Filgrastim G-CSF has a short, biologically active half-life, and its effective use depends on repeated inoculations. A major aim, therefore, has been to develop a once-per-chemotherapy cycle formulation. To this end, a polyethylene glycolylated form of Filgrastim, known as SD/01, has been developed. In this study, we compared the cellular kinetics of granulocyte production in mice stimulated with SD/01 and granulocyte colony-stimulating factor (G-CSF). Mice were injected with a single dose of SD/01 (1 mg/kg) or G-CSF (125 microg/kg) twice per day for 4 days. Mice rendered leukopenic with a single injection of cyclophosphamide (200 mg/kg) and temozolomide (90 mg/kg) were similarly treated at their 3-day neutrophil nadir. Tritiated thymidine was injected for autoradiographic labeling studies. Bone marrow labeling indices and the release of labeled neutrophils and monocytes into the peripheral blood were assessed. Granulocytopoiesis was stimulated similarly by both SD/01 and G-CSF in both normal and neutropenic animals, with counts rising to >20 x 10(9) polymorphonuclear neutrophils/l in both cases. Bone marrow thymidine labeling indices were increased, indicating a greater proportion of cells in DNA synthesis and an elevated proliferative activity. Compared with the normally slow release of neutrophils into the peripheral blood, labeled neutrophils (and monocytes) were rapidly released, increasing to peak levels at approximately 24 h. The peripheral half-life of neutrophils was not significantly different from normal, and the mitotic amplification factors for increase in granulocytopoiesis, accounted for by 3-3.9 extra cell divisions, were comparable for both factors. We conclude that neutrophil kinetics are stimulated in the same way and to the same extent by both SD/01 and G-CSF.
Shoal: smart allocation and replication of memory for parallel programs (2015)

Modern NUMA multi-core machines exhibit complex latency and throughput characteristics, making it hard to allocate memory optimally for a given program's access patterns. However, sub-optimal allocation can significantly impact performance of parallel programs.

We present an array abstraction that allows data placement to be automatically inferred from program analysis, and implement the abstraction in Shoal, a runtime library for parallel programs on NUMA machines. In Shoal, arrays can be automatically replicated, distributed, or partitioned across NUMA domains based on annotating memory allocation statements to indicate access patterns. We further show how such annotations can be automatically provided by compilers for high-level domainspecific languages (for example, the Green-Marl graph language). Finally, we show how Shoal can exploit additional hardware such as programmable DMA copy engines to further improve parallel program performance.

We demonstrate significant performance benefits from automatically selecting a good array implementation based on memory access patterns and machine characteristics. We present two case-studies: (i) Green-Marl, a graph analytics workload using automatically annotated code based on information extracted from the high-level program and (ii) a manually-annotated version of the PARSEC Streamcluster benchmark.
Mobile learning as a mobile business application (2006)

The predominant mode of electronic learning today is 'online' (web-based). This type of learning relies on student access to personal computers – both on and off campus. Mobile technologies offer other educational alternatives. This article defines mobile learning (mLearning) as a new paradigm of flexible learning and describes scenarios for blended learning, which integrates the mobile and the online learning environments. A research model for the study of mLearning adoption is proposed, and hypotheses are derived that allow the study of mLearning adoption from a pedagogical and from a business perspective and can be applied to a variety of learning scenarios.
Automated Two-Degree-of-Freedom Model Predictive Control Tuning (2015)

This work considers the automated tuning of a two-degree-of-freedom model predictive controller (MPC) for single-input, single-output industrial processes with model uncertainties. The objective of the tuning algorithm is to automatically determine the MPC tuning parameters such that (1) the robust stability can be guaranteed, (2) the worst-case overshoot is controlled, (3) the oscillations in process outputs are attenuated, and (4) the worst-case settling time is minimized. A rigorous robust stability analysis is first conducted based on the connection between parametric uncertainties and unstructured uncertainties, and a tight robust stability condition is derived. As the specification on process output variation is not easily made by the end users, two alternative methods are proposed to automatically determine the tolerable total variation, which lead to two automatic tuning algorithms that achieve the tuning objectives. The proposed results are tested and verified through examples extracted from industrial processes in the pulp and paper industry, and comparisons are made with other existing results.
Complex regional pain syndrome type I: incidence and prevalence in Olmsted county, a population-based study (2003)

The objective of this study is to undertake a population based study on the incidence, prevalence, natural history, and response to treatment of complex regional pain syndrome (CRPS). All Mayo Clinic and Olmsted Medical Group medical records with codes for reflex sympathetic dystrophy (RSD), CRPS, and compatible diagnoses in the period 1989-1999 were reviewed as part of the Rochester Epidemiology Project. We used IASP criteria for CRPS. The study population was in the Olmsted County, Minnesota (1990 population, 106,470). The main outcome measures were CRPS I incidence, prevalence, and outcome. Seventy-four cases of CRPS I were identified, resulting in an incidence rate of 5.46 per 100,000 person years at risk, and a period prevalence of 20.57 per 100,000. Female:male ratio was 4:1, with a median age of 46 years at onset. Upper limb was affected twice as commonly as lower limb. All cases reported an antecedent event and fracture was the most common trigger (46%). Excellent concordance was found between symptoms and signs and vasomotor symptoms were the most commonly present. Three phase bone scan and autonomic testing diagnosed the condition in >80% of cases. Seventy-four percent of patients underwent resolution, often spontaneously. CRPS I is of low prevalence, more commonly affects women than men, the upper more than the lower extremity, and three out of four cases undergo resolution. These results suggest that invasive treatment of CRPS may not be warranted in the majority of cases.
Adaptation in Natural and Artificial Systems (1992)

Genetic algorithms are playing an increasingly important role in studies of complex adaptive systems, ranging from adaptive agents in economic theory to the use of machine learning techniques in the design of complex devices such as aircraft turbines and integrated circuits. Adaptation in Natural and Artificial Systems is the book that initiated this field of study, presenting the theoretical foundations and exploring applications. In its most familiar form, adaptation is a biological process, whereby organisms evolve by rearranging genetic material to survive in environments confronting them. In this now classic work, Holland presents a mathematical model that allows for the nonlinearity of such complex interactions. He demonstrates the model's universality by applying it to economics, physiological psychology, game theory, and artificial intelligence and then outlines the way in which this approach modifies the traditional views of mathematical genetics. Initially applying his concepts to simply defined artificial systems with limited numbers of parameters, Holland goes on to explore their use in the study of a wide range of complex, naturally occuring processes, concentrating on systems having multiple factors that interact in nonlinear ways. Along the way he accounts for major effects of coadaptation and coevolution: the emergence of building blocks, or schemata, that are recombined and passed on to succeeding generations to provide, innovations and improvements. Bradford Books imprint
Maturation of oral feeding skills in preterm infants (2007)

Components of sucking, swallowing, respiration and their coordinated activity matured at different times and rates. Differences in functional stability of particular outcomes confirm that maturation levels depend on infants' gestational rather than PMA.