gebhart/patrepeval huggingface dataset:
A cluster of atypical Yersinia strains with a distinctive 16S rRNA signature (2006)

Thirty-eight bacterial isolates from raw milk samples in Queensland, Australia were identified as members of the genus Yersinia on the basis of biochemical profile, ability to hybridize with a genus-specific DNA probe, comparative 16S rDNA sequence analysis, and the presence of characteristic 16S rDNA signature nucleotides which occur in all Yersinia spp. Twenty-five of these isolates reacted with typing sera (O:22 or O:58) of Y. enterocolitica; the remainder were non-typable. None of the isolates displayed any of the phenotypic or genetic virulence-associated characteristics of Y. enterocolitica. Comparative 16S rDNA sequence analysis revealed that members of this group appear to represent a new sub-line within the genus Yersinia, most closely related to Y. frederiksenii hybridization group 2 (unnamed genomospecies 2). This findings was confirmed by DNA hybridization studies which indicated that the strains belonged to the unnamed genomospecies, Yersinia frederiksenii genomospecies 2, which is biochemically indistinguishable from Y. frederiksenii (Y. frederiksenii genomospecies 1). A 23-nucleotide 16S rDNA signature stretch which characterised these strains was identified.
Reserpine binding to chromaffin granules suggests the existence of two conformations of the monoamine transporter (1989)

The binding of [3H]reserpine ([3H]RES) to purified bovine chromaffin granule membranes has been studied at low membrane concentration. Saturation isotherms indicated a dissociation equilibrium constant KD of 30 pM and a density of binding sites of 8 pmol/mg of protein at 30 degrees C. The association rate constant was 4.0 X 10(5) M-1 s-1, and the calculated dissociation rate constant was 1.2 X 10(-5) s-1, corresponding to a half-lifetime of about 16 h. Although this dissociation was too low to be measured directly, [3H]RES binding was indeed reversible since it was lost after addition of the detergent Triton X-100. Dihydrotetrabenazine (TBZOH) inhibited [3H]RES binding in a time-dependent manner, EC50 varying from 37 nM after a 1-h incubation to 600 nM after 16 h. On the contrary, [3H]RES binding inhibition by the substrate noradrenaline was time independent. It is proposed that the transporter exists in two different conformations which bind exclusively either tetrabenazine (TBZ) or RES and which are in equilibrium. The effects of detergents were consistent with this two-conformation model. The transporter solubilized by cholate bound [3H]TBZOH, but not [3H]RES. On the other hand, addition of cholate to membrane-bound [3H]RES solubilized the membrane without releasing the ligand from its binding site. It is proposed that the TBZ-binding conformation is obtained by solubilization with cholate and that RES stabilizes the RES-binding conformation, allowing its solubilization by this detergent.
Renal Cell Carcinoma With Tumor Thrombus Extension Into the Proximal Pulmonary Artery (2003)

No AccessJournal of UrologyCLINICAL UROLOGY: Case Reports1 Jun 2003Renal Cell Carcinoma With Tumor Thrombus Extension Into the Proximal Pulmonary Artery JEFFREY A. WIEDER, HILLEL LAKS, DANIELO FREITAS, A. MARMUREANU, and ARIE BELLDEGRUN JEFFREY A. WIEDERJEFFREY A. WIEDER More articles by this author , HILLEL LAKSHILLEL LAKS More articles by this author , DANIELO FREITASDANIELO FREITAS More articles by this author , A. MARMUREANUA. MARMUREANU More articles by this author , and ARIE BELLDEGRUNARIE BELLDEGRUN Financial interest and/or other relationship with Agensys, Chiron and Galil, Inc. More articles by this author View All Author Informationhttps://doi.org/10.1097/01.ju.0000065432.22782.0dAboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Renal Cell Carcinoma With Tumor Thrombus Extension Into the Proximal Pulmonary Artery." The Journal of Urology, 169(6), pp. 2296–2297 References 1 : Long-term followup after surgical treatment for renal cell carcinoma extending into the right atrium. J Urol1996; 155: 448. Link, Google Scholar 2 : The use of liver transplant techniques to aid in the surgical management of urological tumors. J Urol2000; 164: 665. Link, Google Scholar 3 : Surgical management of renal cell carcinoma with inferior vena cava tumor thrombus. Ann Thorac Surg1997; 63: 1592. Google Scholar From the Departments of Urology and Cardiothoracic Surgery, UCLA Medical Center, Los Angeles, California© 2003 by American Urological Association, Inc.FiguresReferencesRelatedDetails Volume 169Issue 6June 2003Page: 2296-2297 Advertisement Copyright & Permissions© 2003 by American Urological Association, Inc.Keywordscarcinoma, renal cellkidney neoplasmsheart bypass, rightthrombectomyMetricsAuthor Information JEFFREY A. WIEDER More articles by this author HILLEL LAKS More articles by this author DANIELO FREITAS More articles by this author A. MARMUREANU More articles by this author ARIE BELLDEGRUN Financial interest and/or other relationship with Agensys, Chiron and Galil, Inc. More articles by this author Expand All Advertisement PDF DownloadLoading ...
Prostate Cancer (2014)

Abstract Chapter 22 covers prostate cancer, and discusses how diet and lifestyle habits can be risk factors for prostate cancer, that medical and surgical treatments for prostate cancer are not without side effects and active surveillance with complementary therapy should be considered for low risk disease, that lifestyle changes including: dietary modifications, incorporation of supplements, introduction of aerobic exercise and meditation, how dietary modifications include choosing lean meat and decreasing saturated fats, increasing soy, cruciferous vegetables, green tea and other anti-inflammatory foods, and that the role of omega-3 fatty acids in prostate cancer is controversial, with recent studies linking high levels of omega-3 with increased risk of prostate cancer.
An Unusual Synthesis of N-Unsubstituted Benzazepinones (2012)

A short route to novel bicyclic N-unprotected benzazepinones is described starting from N-acetoxyanilides involving radical addition and cyclization with concomitant homolytic rupture of the N-O bond.
Training Conversational Agents with Generative Conversational Networks (2021)

Rich, open-domain textual data available on the web resulted in great advancements for language processing. However, while that data may be suitable for language processing tasks, they are mostly non-conversational, lacking many phenomena that appear in human interactions and this is one of the reasons why we still have many unsolved challenges in conversational AI. In this work, we attempt to address this by using Generative Conversational Networks to automatically generate data and train social conversational agents. We evaluate our approach on TopicalChat with automatic metrics and human evaluators, showing that with 10% of seed data it performs close to the baseline that uses 100% of the data.
A Simulation and Modeling Based Reliability Requirements Assessment Methodology (2014)

To minimize the design cost of a complex system and maximize performance, a design team ideally must be able to quantify reliability and mitigate risk at the earliest phases of the design process, where 80% of the cost is committed. This paper demonstrates the capabilities of a new System Reliability Exploration Tool based on the improved simulation capabilities of a system called Fault-Augmented Modelica Extension (FAME). This novel tool combines concepts from FMEA, traditional Reliability Analysis, and Quality Engineering to identify, gain insight, and quantify the impact of component failure modes through time evolution of a system’s lifecycle. We illustrate how to use the FAME System Reliability Exploration Tool through a vehicle design case study.
REGIMES TRANSITOIRES DANS UN SYSTEME VISCOELASTIQUE (1988)

Le présent travail concerne l’étude des régimes transitories d’écoulements dans un tube rigide prolongé par une enceinte viscoélastique. A l’extrémité libre du tube, on applique des pressions variables. Une méthode théorique permet d’obtenir une solution analytique du problème par intégration directe des équations de NAVIER-STOKES; elle met aussi en évidence l’existence de deux paramètres adimensionnels y1 et y2 qui gouvernent parfaitement l’écoulement. La voie expérimentale basée sur la vélocimétrie laser, a permis de valider les assertions théoriques.
Two-dimensional image-based model calibration for OPC applications (2004)

The existing approaches to lithography model generation rely heavily on one-dimensional (1D) Scanning Electron Microscope (SEM) measurements to characterize a two-dimensional (2D) process. Traditional 1-D techniques require measuring an exhaustive test cell matrix containing hundreds of features representing different sizes, shapes, and pitches. Despite the large amount of data collected, there can still be a significant amount of model error present, particularly in 2D structures such as line ends and corners, which do not lend themselves to a well defined CD measurement. This is due to the inadequacy of using a 1D measurement for characterizing 2D features. A new approach to lithography simulation confirms the axiom "a SEM image is worth a thousand CD measurements". Using a set of six or fewer SEM images and fitting a contour-based 2-D simulation to the image during the model derivation, achieves a good 2D predictive capability without sacrificing through pitch predictability. This paper will show the results of using SEM images to tune lithography models on clear and dark field layers and illustrate the accuracy of the models using contour based simulations overlaid with SEM images. This approach to OPC modeling greatly reduces the number of CD measurements required to generate a model and lessens the susceptibility of the model to SEM CD metrology errors, while achieving a very well tuned model. This method works best when the 2-D simulation and calibration are coupled to the algorithms that perform the correction.
Shaping the H-Plane Pattern of a Pyramidal Horn (1989)

The effect of loading the E-plane of a pyramidal horn with a thin metal plate is examined both theoretically and experimentally. A model using aperture field integration extended to include reflections from the walls of the horn and the plate was developed and gave a good fit to experimental data. The far field pattern of such a plate loaded horn can be modified in the H-plane and where necessary sharpened by adjustment of the position and size of the plate. When fitted with a lens the horn can be used to feed efficiently a Gregorian antenna system for high resolution passive millimetric imaging.
Equilibrium and Thermodynamic Studies on the Adsorption of the Dye Rhodamine-B onto Mustard Cake and Activated Carbon (2010)

Mustard cake, obtained from local oil mills, has been characterized and used as an inexpensive and effective adsorbent for the removal of rhodamine-B dye from wastewater. The influence of various factors on the adsorption capacity has been studied by batch experiments. The optimum contact time to reach equilibrium was found to be 6 h. Maximum decolorization took place at pH 2.30. The optimum adsorbent dose was 5 g·L−1 of particle size < 106 μm. The ongoing adsorption validates both the Langmuir and the Freundlich adsorption isotherms at temperatures of (40, 50, and 60) °C. Thermodynamic parameters indicate the feasibility of the process. The desorption profile revealed that a significant portion (80 %) of rhodamine-B could be desorbed by using 50 % ethanol as eluting agent. Desorption studies indicated the possibility of recycling and regeneration of both the adsorbent and the dye.
Wide-field compact catadioptric telescope spanning 07–14 μm wavelengths (2013)

We present a wide-field compact f-1.2, f-1.6 effective illumination catadioptric telescope that spans the wavelengths 0.7-14.0 μm. Such a telescope replaces several telescopes designed for different infrared bands, while having a track length shorter than most single-band telescopes. Incorporated with a suitable multiband focal plane array, many wavelength bands may be imaged simultaneously in the same instrument. We have constructed and tested prototypes of the telescopes and found the performance is near the predicted values.
Spontaneous Modular Femoral Head Dissociation Complicating Total Hip Arthroplasty (2014)

Modular femoral heads have been used successfully for many years in total hip arthroplasty. Few complications have been reported for the modular Morse taper connection between the femoral head and trunnion of the stem in metal-on-polyethylene bearings. Although there has always been some concern over the potential for fretting, corrosion, and generation of particulate debris at the modular junction, this was not considered a significant clinical problem. More recently, concern has increased because fretting and corrosive debris have resulted in rare cases of pain, adverse local tissue reaction, pseudotumor, and osteolysis. Larger femoral heads, which have gained popularity in total hip arthroplasty, are suspected to increase the potential for local and systemic complications of fretting, corrosion, and generation of metal ions because of greater torque at the modular junction. A less common complication is dissociation of the modular femoral heads. Morse taper dissociation has been reported in the literature, mainly in association with a traumatic event, such as closed reduction of a dislocation or fatigue fracture of the femoral neck of a prosthesis. This report describes 3 cases of spontaneous dissociation of the modular prosthetic femoral head from the trunnion of the same tapered titanium stem because of fretting and wear of the Morse taper in a metal-on-polyethylene bearing. Continued clinical and scientific research on Morse taper junctions is warranted to identify and prioritize implant and surgical factors that lead to this and other types of trunnion failure to minimize complications associated with Morse taper junctions as hip implants and surgical techniques continue to evolve.
Computational narrative (2017)

Despite the maturity in solutions for animating expressive virtual characters, innovations realizing the creative intent of story writers have yet to make the same strides. This problem is further exacerbated for interactive narrative content, such as games. The key challenge is to provide an accessible, yet expressive interface for story authoring that enables the rapid prototyping, iteration, and deployment of narrative concepts, while facilitate free-form interaction.
A structural investigation of the liquid crystal phases of 4-(2'-methylbutyl)phenyl 4'-n-octylbiphenyl-4-carboxylate (1984)

The smectic phases of the compound 4-(2'-methylbutyl)phenyl 4'-n-octylbiphenyl-4-carboxylate (2M4P8BC) were studied by means of polarized optical microscopy, miscibility, DSC, and X-ray diffraction techniques. The phase sequence Cr ↔ G ↔ J ↔ I ↔ C ↔ A has been determined, and consequently 2M4P8BC has been shown to be the first example of a pure material exhibiting a J to G phase transition. In the optically pure form, the I* phase is a chiral hexatic phase, whereas the J* and G* phases were found to be nonchiral crystal phases. The C-centred monoclinic lattice parameters have been determined.
The Systematic Refinement for the Phase Change and Conversion Reactions Arising from the Lithiation of Magnetite Nanocrystals (2019)

Abstract Nanostructured materials can exhibit phase change behavior that deviates from the macroscopic phase behavior. This is exemplified by the ambiguity for the equilibrium phases driving the first open‐circuit voltage (OCV) plateau for the lithiation of Fe 3 O 4 nanocrystals. Adding complexity, the relaxed state for Li x Fe 3 O 4 is observed to be a function of electrochemical discharge rate. The phases occurring on the first OCV plateau for the lithiation of Fe 3 O 4 nanocrystals have been investigated with density functional theory (DFT) through the evaluation of stable, or hypothesized metastable, reaction pathways. Hypotheses are evaluated through the systematic combined refinement with X‐ray absorption spectroscopy (XAS), X‐ray diffraction (XRD) measurements, neutron‐diffraction measurements, and the measured OCV on samples lithiated to x = 2.0, 3.0, and 4.0 in Li x Fe 3 O 4 . In contrast to the Li–Fe–O bulk phase thermodynamic pathway, Fe 0 is not observed as a product on the first OCV plateau for 10–45 nm nanocrystals. The phase most consistent with the systematic refinement is LiFe 3 O 4 , showing Li+Fe cation disorder. The observed equilibrium concentration for conversion to Fe 0 occurs at x = 4.0. These definitive phase identifications rely heavily on the systematic combined refinement approach, which is broadly applicable to other nano‐ and mesoscaled systems that have suffered from difficult or crystallite‐size‐dependent phase identification.
BinarizationShop (2010)

Converting a scanned document to a binary format (black and white) is a key step in the digitization process. While many existing binarization algorithms operate robustly for well-kept documents, these algorithms often produce less than satisfactory results when applied to old documents, especially those degraded with stains and other discolorations. For these challenging documents, user assistance can be advantageous in directing the binarization procedure. Many existing algorithms, however, are poorly designed to incorporate user assistance. In this paper, we discuss a software framework, BinarizationShop, that combines a series of binarization approaches that have been tailored to exploit user assistance. This framework provides a practical approach for converting difficult documents to black and white.
Temporal Discrete Cosine Transform for speech emotion recognition (2013)

Temporal Discrete Cosine Transform (TDCT) features have shown good performance in the speaker verification task, and in this paper we utilize them in speech emotion recognition. Tests were conducted on a Serbian emotional speech database, using Neural Networks (NN) as a classifier and Mel-Frequency Cepstral Coefficients (MFFC) as a reference feature set. Even though MFCC is one of the most employed techniques in emotion recognition, our results show that the TDCT features outperform MFCCs (with the first and second derivation) with any number of hidden nodes in the network, hence proving as an excellent starting feature set for recognizing emotions in South Slavic languages.
Revised Atomistic Models of the Crystal Structure of C–S–H with high C/S Ratio (2016)

Abstract The atomic structure of calcium-silicate-hydrate (C 1.67 –S–H x ) has been studied. Atomistic C–S–H models suggested in our previous study have been revised in order to perform a direct comparison of energetic stability of the different structures. An extensive set of periodic structures of C–S–H with variation of water content was created, and then optimized using molecular dynamics with reactive force field ReaxFF and quantum chemical semiempirical method PM6. All models show organization of water molecules inside the structure of C–S–H. The new geometries of C–S–H, reported in this paper, show lower relative energy with respect to the geometries from the original definition of C–S–H models. Model that corresponds to calcium enriched tobermorite structure has the lowest relative energy and the density closest to the experimental values.
The essential oil composition of Pinus mugo Turra from Serbia (2004)

Abstract The chemical composition of the essential oil of the needles and twigs of dwarf pine ( Pinus mugo Turra) growing wild in Serbia was investigated. The oil was analysed by GC/MS and the major constituents found were δ ‐3‐carene (23.9%), α ‐pinene (17.9%), β ‐pinene (7.8%) and β ‐phellandrene (7.2%). Copyright © 2004 John Wiley &amp; Sons, Ltd.
Broadcast Channels With Cooperating Decoders (2006)

We consider the problem of communicating over the general discrete memoryless broadcast channel (DMBC) with partially cooperating receivers. In our setup, receivers are able to exchange messages over noiseless conference links of finite capacities, prior to decoding the messages sent from the transmitter. In this paper, we formulate the general problem of broadcast with cooperation. We first find the capacity region for the case where the BC is physically degraded. Then, we give achievability results for the general broadcast channel, for both the two independent messages case and the single common message case
Cleavage of a model peptide at its glycine residue by alkaline mercuric oxycyanide (2009)

Treatment of peptides with excess HgO in the presence of alkaline cyanide leads to cleavage of the peptides at glycine residues. The reaction appears to involve both C- and N-mercuration with subsequent release of 2mol mercury per mol of glycine. An intermediate glyoxylic acid residue in Schiff base linkage is postulated. Treatment of the heptapeptide Phe-Ala-Lys-Gly-Leu-Asp-Val with alkaline HgO and KCN for 6 h at 25° resulted in greater than 90% cleavage, and the resultant reaction products were separated by reverse phase chromatography and identified by amino acid analysis. N-terminal products were approximately equimolar Phe-Ala-Lys, Phe-Ala-Lys-Gly, and Phe-Ala-Lys-amide. C-terminal products were predominantly Leu-Asp-Val (63%), plus Gly-Leu-Asp-Val (9%), and oxalyl-Leu-Asp-Val (8%). This method may be useful for cleavage of peptides or proteins containing glycine residues.
Tubulin Polymerization-promoting Protein (TPPP/p25α) Promotes Unconventional Secretion of α-Synuclein through Exophagy by Impairing Autophagosome-Lysosome Fusion (2013)

Aggregation of α-synuclein can be promoted by the tubulin polymerization-promoting protein/p25α, which we have used here as a tool to study the role of autophagy in the clearance of α-synuclein. In NGF-differentiated PC12 catecholaminergic nerve cells, we show that de novo expressed p25α co-localizes with α-synuclein and causes its aggregation and distribution into autophagosomes. However, p25α also lowered the mobility of autophagosomes and hindered the final maturation of autophagosomes by preventing their fusion with lysosomes for the final degradation of α-synuclein. Instead, p25α caused a 4-fold increase in the basal level of α-synuclein secreted into the medium. Secretion was strictly dependent on autophagy and could be up-regulated (trehalose and Rab1A) or down-regulated (3-methyladenine and ATG5 shRNA) by enhancers or inhibitors of autophagy or by modulating minus-end-directed (HDAC6 shRNA) or plus-end-directed (Rab8) trafficking of autophagosomes along microtubules. Finally, we show in the absence of tubulin polymerization-promoting protein/p25α that α-synuclein release was modulated by dominant mutants of Rab27A, known to regulate exocytosis of late endosomal (and amphisomal) elements, and that both lysosomal fusion block and secretion of α-synuclein could be replicated by knockdown of the p25α target, HDAC6, the predominant cytosolic deacetylase in neurons. Our data indicate that unconventional secretion of α-synuclein can be mediated through exophagy and that factors, which increase the pool of autophagosomes/amphisomes (e.g. lysosomal disturbance) or alter the polarity of vesicular transport of autophagosomes on microtubules, can result in an increased release of α-synuclein monomer and aggregates to the surroundings.