gebhart/patrepeval huggingface dataset:
MyDGR: a server for identification and characterization of diversity-generating retroelements (2019)

MyDGR is a web server providing integrated prediction and visualization of Diversity-Generating Retroelements (DGR) systems in query nucleotide sequences. It is built upon an enhanced version of DGRscan, a tool we previously developed for identification of DGR systems. DGR systems are remarkable genetic elements that use error-prone reverse transcriptases to generate vast sequence variants in specific target genes, which have been shown to benefit their hosts (bacteria, archaea or phages). As the first web server for annotation of DGR systems, myDGR is freely available on the web at http://omics.informatics.indiana.edu/myDGR with all major browsers supported. MyDGR accepts query nucleotide sequences in FASTA format, and outputs all the important features of a predicted DGR system, including a reverse transcriptase, a template repeat and one (or more) variable repeats and their alignment featuring A-to-N (N can be C, T or G) substitutions, and VR-containing target gene(s). In addition to providing the results as text files for download, myDGR generates a visual summary of the results for users to explore the predicted DGR systems. Users can also directly access pre-calculated, putative DGR systems identified in currently available reference bacterial genomes and a few other collections of sequences (including human microbiomes).
Orthodontic Treatment Combined with Mandibular Distraction Osteogenesis and Changes in Stomatognathic Function (2008)

We performed an orthodontic treatment combined with mandibular distraction osteogenesis in a 15-year-old patient who wanted a correction of a chin deficiency and a protruding upper lip. The patient had an Angle Class II division 1 malocclusion with mandibular retrusion, a low mandibular plane angle, and scissors bite. First, a quad-helix appliance was applied to the mandibular dentition to correct the scissors bite in the bilateral premolar region. Later, a preadjusted edgewise appliance was applied to the maxillary and mandibular teeth. After 3 days, a mandibular distraction osteogenesis was performed. During and after the distraction, the open bite between the upper and lower dental arches was corrected using up and down elastics. The total treatment time with the edgewise appliance was 14 months. A skeletal Class I apical base relationship, good facial profile, and optimum intercuspation of the teeth were achieved with the treatment. The jaw-movement pattern on the frontal view did not change during gum chewing. However, the maximum gap without pain increased. The electromyographic (EMG) activity of the masseter and anterior temporalis muscles, and maximum occlusal force increased. The present case report suggests that an orthodontic treatment combined with mandibular distraction osteogenesis in a patient with mandibular retrusion in the late growth period might be effective for improving stomatognathic function.
Temporal coherence of laser fields analyzed by heterodyne interferometry (1982)

For partially coherent fields, where the coherence time may be quite large, a new method is described to obtain the coherence function and other statistical properties. Coherence lengths of over 100 m were measured, and it was deduced that microphonic noise is the dominant source of incoherence in laser fields. It is also found experimentally that seemingly uncorrelated fields may have a strong phase relationship.
DECONTAMINATION OF HIGH-LEVEL WASTE USING A CONTINUOUS PRECIPITATION PROCESS (2001)

This study provided a first of a kind demonstration of the decontamination of High Level Radioactive Waste from the Savannah River Site using a continuous precipitation/adsorption process. Testing used a composite sample obtained from a number of waste tanks at the Savannah River Site. Preliminary batch processing experiments determined the efficacy of continuous process to precipitate sodium, potassium and cesium tetraphenylborate. The tetraphenylborate effectively removes cesium from solution. Researchers were also able to use the results of the batch experiments in design and prediction of the operation of the continuous process. This demonstration used two continuous reactors in series. This paper details the results obtained from batch tests with simulant and continuous decontamination of actual High Level Waste from the Savannah River Site.
Recognition of 48 Human Behaviors from Video (2012)

We have developed a system that recognizes 48 human behaviors from video. The essential elements are (i) inference of the actors in the scene, (ii) assessment of event-related properties of actors and between actors, (iii) exploiting the event properties to recognize the behaviors. The performance of our recognizer approaches human performance, yet the performance for unseen variations of the behaviors needs to be improved.
Characteristics of Medical Students' Learning Styles and Their Relationships to GPA (2006)

Purpose: The present study examines the characteristics of medical students' learning styles and their relationships to the GPA.
Interactive light-driven and parallel manipulation of inhomogeneous particles (2002)

A light-driven micromanipulation system with real-time userfeedback control is used to simultaneously trap colloidal suspensions enabling a unique interactive sorting capability and arbitrary patterning of microscopic particles. The technique is based on a straightforward phase-tointensity conversion generating multiple beam patterns for manipulation of particles in the observation plane of a microscope. Encoding of phase patterns in a spatial light modulator, which is directly controlled by a computer, allows for dynamic reconfiguration of the trapping patterns, where independent control of the position, size, shape and intensity of each beam is possible. Efficient sorting of microsphere mixtures of distinct sizes and colors using multiple optical traps is demonstrated.
Breathing life into legacy (2001)

The Internet makes it imperative to unlock legacy data. Three technologies may let companies dust off legacy code and make it work with the Web: Extensible Markup Language, or XML, describes data through the use of tags, eliminating the need to conform to a specific programming infrastructure; Web services let companies wrap software and tailor its distribution, allowing innovative code configurations; and wireless technology offers the ability to get legacy content to mobile workers and clients. Each technology is part of the new arsenal for leveraging existing applications and data, perhaps realizing the elusive goal of anywhere, anytime services.
Basic Concepts of Life According to the Luguru of Eastern Tanzania (1983)

Find information about UTP Journals. University of Toronto Press is Canada’s leading academic publisher and one of the largest university presses in North America, with particular strengths in the social sciences, humanities, and business. The Book Publishing Division is widely recognized in Canada for its strength in history, political science, sociology, Indigenous studies, and cultural studies. Internationally, UTP is a leading publisher of medieval, Renaissance, Italian, Iberian, Slavic, and urban studies, as well as studies in book and print culture.
Insights into the physicochemical properties of coffee oil (2009)

Abstract The lipid fraction of roasted coffee is an interesting ingredient that could be used in a large number of food formulations. Coffee oil has peculiar flavouring as well as nutraceutical characteristics. The feasibility of the use of coffee oil as ingredient greatly depends not only on its chemical characteristics but also on its physical properties. The crystallisation and melting properties of the coffee oil extracted from Arabica roasted coffee powder were determined by using synchrotron X‐ray diffraction coupled with differential scanning calorimetry. The fatty acid composition and the flavour profile were also assessed by using GC and GC‐MS analyses, respectively. The main fatty acids found in coffee oil are linoleic and palmitic acid. Significant amounts of stearic and oleic acid are also present. These chemical characteristics are linked to the phase transition behaviour. The crystallisation of coffee oil occurs at 6.5 ± 0.3 °C, independently of the cooling rate applied (from 0.5 to 10 °C/min). A unique crystalline structure was identified: a double chain length (2L) β' structure (55.29 Å). The sole formation of the β' form indicates that this metastable crystal is the only one that one should expect in foods containing coffee oil stored below 7 °C.
Visualization of drop-on-demand inkjet: Drop formation and deposition (2006)

An apparatus developed for visualizing drop-on-demand (DOD) drop formation and impaction on substrates is described. Using a pulsed laser, a low-speed charge coupled device camera, and signal generators, an imaging system based on flash photography is shown to be able to obtain sharp images with a temporal resolution of 200ns and a spatial resolution of 0.81μm∕pixel. Several steps are taken to minimize the “first drop problem” so that excellent reproducibility is achieved; drop formation is reproducible with a positional variation of 1μm. The visualization system coupled with a motorized stage allows imaging of the impaction of micron-size drops on surfaces. A wave form generator and an amplifier are used to produce the required wave form for a given printhead and ejected liquid. Demonstration of the system for study of DOD micron-size drop formation and impaction on a substrate is presented. The effects of signal wave form on DOD drop formation are demonstrated using a Trident printhead driven by four different signal wave forms. The effect of surface wettability on micron-size drop impaction is shown using hydrophilic and hydrophobic surfaces.
Synthetic Enantiopure Aziridinomitosenes:  Preparation, Reactivity, and DNA Alkylation Studies (2003)

An enantiocontrolled route to aziridinomitosenes had been developed from l-serine methyl ester hydrochloride. The tetracyclic target ring system was assembled by an internal azomethine ylide cycloaddition reaction based on silver ion-assisted intramolecular oxazole alkylation and cyanide-induced ylide generation via a labile oxazoline intermediate (62 to 66). Other key steps include reductive detritylation of 26, methylation of the N-H aziridine 56, oxidation of the sensitive cyclohexenedione 68 to quinone 70, and carbamoylation using Fmoc-NCO. Although the aziridinomitosene tetracycle is sensitive, a range of protecting group manipulations and redox chemistry can be performed if suitable precautions are taken. A study of DNA alkylation by the first C-6,C-7-unsubstituted aziridinomitosene 11a has been carried out, and evidence for DNA cross-link formation involving nucleophilic addition to the quinone subunit is described.
Diversity of group A rotavirus on a UK pig farm (2015)

Group A rotaviruses (GARV) are a significant cause of enteritis in young pigs. The aim of this study was to extend our understanding of the molecular epidemiology of porcine GARV in the UK by investigating the genetic diversity of GARV on a conventional farrow-to-finish farm. Faecal samples were obtained from six batches of pigs in 2009 and 8 batches in 2010, when the pigs were 2, 3 (time point omitted in 2009), 4, 5, 6 and 8 weeks of age. Presence of rotavirus was detected by reverse transcriptase-polymerase chain reaction (RT-PCR) in 89% and 80% of samples from 2009 and 2010, respectively. A combination of multiplex PCRs and sequencing identified four VP7 genotypes (G2, G3, G4 and G5) and three VP4 genotypes (P[6], P[7] and P[32]) present in almost every combination over the 2 years. The predominant genotype combination was G5P[32] in 2009 and G4P[32] in 2010. Conservation among the P[32] sequences between 2009 and 2010 suggests that reassortment may have led to the different genotype combinations. There were significant changes in the predominant VP7 genotype prior to weaning at 4 weeks, and post weaning when pigs were moved to a different building. Phylogenetic analysis indicated that introduction of new viruses onto the farm was limited. Taken together, these findings suggest that genetically diverse GARV strains persist within the farm environment.
Tissue pyridoxal phosphate concentration and pyridoxaminephosphate oxidase activity in riboflavin deficiency in rats and man (1974)

1. Parenteral administration of pyridoxal 5′-phosphate (PALP) to riboflavin-deficient rats increased the non-FAD component of erythrocyte riboflavin. 2. Pyridoxaminephosphate oxidase ( EC 1.4.3.5) activity in the livers of riboflavin-deficient animals was only 15% of that of controls. PALP concentration in blood, liver and brain was not affected. Deficient animals had higher levels of pyridoxine in liver. 3. Human subjects with lesions of the mouth responded to treatment with either riboflavin or pyridoxine. 4. PALP concentration of human blood was not affected by administration of riboflavin but was markedly increased by pyridoxine. 5. Erythrocyte glutathione reductase activity ( EC 1.6.4.2) in humans was increased and in vitro stimulation of the enzyme with FAD was decreased by treatment with riboflavin, but not by treatment with pyridoxine.
An architectural framework for support of quality of service in packet networks (2003)

This article gives an overview of the effort underway in ITU-T SG 13 on an architectural framework for QoS support in packet networks, with a focus on IP. Provisionally named Y.qosar, the framework is to be published as a new ITU-T Recommendation. At the center of the architectural framework is a set of QoS network mechanisms distributed across three logical planes (the control, data, and management planes) to control network performance. Ultimately the network mechanisms are to be used in combination to deliver the satisfactory collective effect of service performance. The article also provides pointers to standards efforts dealing with specific QoS network mechanisms.
Acrylic Cranioplasty Using Miniplate Struts (1996)

All patients achieved excellent cosmetic results with no complications. This technique allows contour of the repair site while the acrylic is curing and provides a more resilient resulting prosthesis.
Solution structures of the inactivation gate particle peptides of rat brain type‐IIA and human heart sodium channels in SDS micelles (2001)

The Ile-Phe-Met (IFM) motif located in the Ill-IV linker of voltage-gated sodium channels has been identified as a major component of the fast inactivation gate. If Gln was substituted for Phe, the role in the gate was disrupted completely. If Ile was replaced by Gln inactivation became slightly incomplete and if the Thr, which is adjacent to the IFM motif (-IFMT-), was replaced by Met, inactivation became much more incomplete than in the I/Q mutation, but not as vigorous as in the F/Q mutation. Previously, we studied the structures of the inactivation gate-related peptide (K1480-K1496 in rat brain type-IIA, MP-3A) and its F1489/Q substituted one (MP-4A) in SDS micelles and found that the conformational change of the IFM hydrophobic cluster due to the F/Q substitution may be a reason for disrupting the gate. In this study, in order to obtain supporting evidence for this view and also to further knowledge of the effect of I/Q and T/M mutations on the structure of the IFM cluster, we studied the structures of 11488Q [MP(rb)-3QFMT] and T1491M [MP(rb)-31FMM] substituted peptides. The fragment peptide K1477-K1493 [MP(hh)-3A] and its T1488M substituted peptide [MP(hh)-3IFMM] in the human heart sodium channel were also studied. It was found that the backbone structures around the IMF motif of MP-3A, MP(hh)-3A and MP(rb)-3QFMT resemble one another in such a manner that the residues Ile(Gln) and Thr are brought so close together that they form a unique type of lid to occlude the pore. In contrast, the residues between Ile and M1491 of MP(rb)-3IFMM or M1488 of MP(hh)-3IFMM were fairly far apart from each other. We conclude that Thr plays an important role in forming a structure of the IFM hydrophobic cluster for inactivation.
Fibronectin Adsorption, Cell Adhesion, and Proliferation on Nanostructured Tantalum Surfaces (2010)

The interaction between dental pulp derived mesenchymal stem cells (DP-MSCs) and three different tantalum nanotopographies with and without a fibronectin coating is examined: sputter-coated tantalum surfaces with low surface roughness <0.2 nm, hut-nanostructured surfaces with a height of 2.9 +/- 0.6 nm and a width of 35 +/- 8 nm, and dome structures with a height of 13 +/- 2 nm and a width of 52 +/- 14 nm. Using ellipsometry, the adsorption and the availability of fibronectin cell-binding domains on the tantalum surfaces were examined, as well as cellular attachment, proliferation, and vinculin focal adhesion spot assembly on the respective surfaces. The results showed the highest fibronectin mass uptake on the hut structures, with a slightly higher availability of cell-binding domains and the most pronounced formation of vinculin focal adhesion spots as compared to the other surfaces. The proliferation of DP-MSCs was found to be significantly higher on dome and hut surfaces coated with fibronectin compared to the uncoated flat tantalum surfaces. Consequently, the results presented in this study indicate that fibronectin-coated nanotopographies with a vertical dimension of less than 5 nm influence cell adhesion. This rather interesting behavior is argued to originate from the more available fibronectin cell-binding domains observed on the hut structures.
Comparison of measured and simulated data in an annular phased array using an inhomogeneous phantom (1992)

Computer simulation is being used to plan patient treatments for deep regional hyperthermia in the Sigma 60 applicator of the BSD-2000 Hyperthermia System. The method used is the finite-difference time-domain (FDTD) method. As with all simulation methods, confirmation of the accuracy via measured data is important. Previously, most such measurements in the Sigma 60 were done with homogeneous phantoms. A new phantom using both muscle and fat equivalent material has been constructed, presenting a more challenging simulation problem to the FDTD method. The description of the phantom and the results of comparisons between simulated and measured data are presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
PTV: Intelligent Personalised TV Guides (2000)

Although today’s world offers us unprecedented access to greater and greater amounts of electronic information, we are faced with significant problems when it comes to finding the right information at the right time – this is the essence of the information overload problem. One of the proposed solutions to this problem is to develop technologies for automatically learning about the implicit and explicit preferences of individual users in order to customise and personalise the search for relevant information. In this paper we describe the development of the PTV system (Personalised Television Listings –
Stress Recognition Using Non-invasive Technology. (2006)

The need to provide computers with the ability to estimate the affective state of their users is a major requirement for the practical implementation of Affective Computing concepts. This research aims at sensing and recognizing typical negative emotional states, especially “stress”, when the user is interacting with the computer. An integrated hardware – software setup has been developed to achieve automatic assessment of the affective status of a computer user. A computer-based “Paced Stroop Test ” is designed to act as a stimulus to elicit emotional stress in the subject.
Configuring Complex Multi-Sensor Test Bed Systems (2003)

Abstract – Test bed systems are important tools for research and development. They are connected to the physical system under test via numerous sensors and actuators. Due to the ever increasing requirements in performance and functionality automated support in the configuration of the test bed’s hardware and software components is desired. This paper presents our approach to evaluate and predict the performance of highly-configurable embedded software and presents a case study for a configuration of the PUMA Open test bed system.
Glycogen Synthase Kinase 3 as an Anticancer Drug Target: Novel Experimental Findings and Trends in the Design of Inhibitors (2012)

Glycogen synthase kinase 3 (GSK-3) is a ubiquitous serine/threonine protein kinase participating in numerous pathways. Very important among them are cancer-related pathways, such as Wnt pathway and nuclear factor κB pathway. The recent findings concerning possible applicability of GSK-3 inhibitors as anticancer agents are summarized in this review, and controversies in the data are highlighted. The most actual concepts of GSK-3 inhibitor design are also thoroughly discussed.
Phenanthridines. III. Syntheses of 9-bromophenanthridine and 7-bromophenanthridine by Pschorr reactions with sulphonamides derived from N-p-bromobenzyl- and N-o-bromobenzyl-o-phenylenediamines, and a new route to N-sulphonylcarbazoles (1964)

9-Bromophenanthridine (Ic) has been prepared by oxidative hydrolysis of 9-bromo-5-p-toluenesulphonyl-j,8-dihydrophenanthridine (IIc), which is one of the products of the copper-catalysed decomposition of diazotized N-p-bromobenzy1.N-p- toluenesulphonyl-o-phenylenediamine (IIIc). 7-Bromophenanthridine (Ie) was similarly synthesized from N-o-bromobenzyl-N-methanesulphonyl-o-phenylenediamine (IIIe) by way of 9-bromo-5-methanesulphonyl-5,6-dihydrophenanthridine (IIe). The decomposition of diazotized o-bromobenzyl-N-p-toluenesulphonyl-o- phenylenediamine (IIId) did not yield the corresponding phenanthridine derivative (IId). By-products formed in the cyclization of (IIIc) include 2-p-bromobenzylamino-4'-methylbiphenyl (Vc), 4-bromo-2'-p-toluenesulphonamidobiphenyl (VIc), and N-p-bromobenzyl-2-amino-5'-methylbiphenyl-2'-sulphonic acid sultam (IVc). The amine (IIId) gave 2-o-bromobenzylamino-4'-methylbiphenyl (Vd), 2-bromo-2'-p-toluenesulphonamidobiphenyl (VId), N-o-bromobenzyl-2-amino-5'-methylbiphenyl- 2'-sulphonic acid sultam (IVd), and AT-p-toluenesulphonylcarbazole (VIIa). The amine (IIIe) gave also 2-bromo-2'-methanesulphonamidobiphenyl (VIe) and N-methanesulphonylcarbazole (VIIb). The relative yields of these products depend inter alia on the amount of sodium nitrite used during the inverse diazotization prior to the addition of copper. Under the influence of cuprous compounds the 2-amino-2'-bromobiphenyls (VId) and (VIe) are converted in high yields to the carbazoles (VIIa) and (VIIb), respectively.