gebhart/patrepeval huggingface dataset:
Embryonic (PSA) N‐CAM reveals chains of migrationg neuroblasts between the lateral ventricle and the olfactory bulb of adult mice (1995)

In the brain of adult mice, cell division persists in the subventricular zone (SVZ) of the lateral ventricles. These SVZ cells migrate rostrally 3-5 mm to the olfactory bulb, where they differentiate into neurons. We have investigated the distribution of PSA-N-CAM in the adult mouse forebrain. Immunoreactivity for PSA-N-CAM precisely reveals the migratory pathway of SVZ cells. This pathway of PSA-N-CAM positive cells starts in the lateral wall of the lateral ventricle, where immunopositive cells form weblike patterns. The PSA-N-CAM positive pathway extends rostrally between the corpus callosum and the striatum into the anterior ventral telencephalon, and then into the core of the olfactory bulb. Experiments in which [3H]-thymidine was injected systemically indicated that the majority of the dividing cells on the SVZ of the lateral ventricle and along the migratory pathway are positive to PSA-N-CAM or closely associated with PSA-N-CAM. Microinjection of [3H]-thymidine into the SVZ of the lateral ventricle to label a small patch of dividing SVZ cells shows that neuroblasts that migrated away from the injection site are positive or are closely associated with other cells that are positive for PSA-N-CAM. Migrating cells are tethered together, forming long chains of immunopositive cells. The migratory pathway is formed by 30-40 of these immunopositive chains. Radially oriented individual PSA-N-CAM positive cells were observed in the olfactory bulb. These cells seem to have broken away from chains of immunopositive cells in the core of the olfactory bulb and to be migrating to more superficial layers. Little is known about the mechanisms of tangential migration during development and in adulthood. The cell-cell arrangement revealed by PSA-N-CAM staining suggests new models for this form of neuronal migration. PSA-N-CAM localization along the migratory pathway to the olfactory bulb suggests that in the adult brain this molecule plays a role in migration of neuronal precursors.
Design of a Modular Tetrameric Scaffold for the Synthesis of Membrane-Localized d-Peptide Inhibitors of HIV-1 Entry (2012)

The highly conserved HIV-1 gp41 "pocket" region is a promising target for inhibiting viral entry. PIE12-trimer is a protease-resistant trimeric d-peptide inhibitor that binds to this pocket and potently blocks HIV entry. PIE12-trimer also possesses a reserve of binding energy that provides it with a strong genetic barrier to resistance ("resistance capacitor"). Here, we report the design of a modular scaffold employing PEGs of discrete lengths for the efficient optimization and synthesis of PIE12-trimer. This scaffold also allows us to conjugate PIE12-trimer to several membrane-localizing cargoes, resulting in dramatically improved potency and retention of PIE12-trimer's ability to absorb the impact of resistance mutations. This scaffold design strategy should be of broad utility for the rapid prototyping of multimeric peptide inhibitors attached to potency- or pharmacokinetics-enhancing groups.
Multi-State Load Models for Distribution System Analysis (2011)

Recent work in the field of distribution system analysis has shown that the traditional method of peak load analysis is not adequate for the evaluation of emerging distribution system technologies. Voltage optimization, demand response, electric vehicle charging, and energy storage are examples of technologies with characteristics having daily, seasonal, and/or annual variations. In addition to the seasonal variations, emerging technologies such as demand response and plug-in electric vehicle charging have the potential to receive control signals that affects their energy consumption. To support time-series analysis over different time frames and to incorporate potential control signal inputs, detailed end-use load models that accurately represent loads under various conditions, and not just during the peak load period, are necessary. This paper will build on previous end-use load modeling work and outline the methods of general multi-state load models for distribution system analysis.
Simple Method to Produce Janus Colloidal Particles in Large Quantity (2006)

A simple, generalizable, inexpensive method is demonstrated to synthesize Janus colloidal particles in large quantity. At the liquid-liquid interface of emulsified molten wax and water, untreated particles adsorb and are frozen in place when the wax solidifies. The exposed surfaces of the immobilized particles are modified chemically. Finally, wax is dissolved, and the inner surfaces are modified chemically. Gram-sized quantities or more of Janus particles can be synthesized by taking this approach.
Iron Phosphinimide and Phosphinimine Complexes:  Catalyst Precursors for Ethylene Polymerization (2002)

Reaction of Li[NPt-Bu3] with FeCl2 affords [Cl3Fe2(μ-NPt-Bu3)2] 1 in 71% yield. This mixed valent Fe(III)−Fe(II) undergoes reversibly one-electron oxidation to generate [Cl3Fe2(μ-NPt-Bu3)2]+. Chemical oxidation with [Cp2Fe]PF6 yields [Cl2Fe(μ-NPt-Bu3)]2 2. The reaction of Li[NPt-Bu3] with FeBr3 affords [Br4Fe2(μ-NPt-Bu3)2] 3, while the reaction of FeCl3 with Me3SiNPCy3 gives [Cl2Fe(μ-NPCy3)]2 4. Hydrolysis of 3 yields the species [(t-Bu3PNH)Br2Fe]2(μ-O) 5. These species have also been evaluated as catalysts for the polymerization of ethylene and copolymerization of ethylene/octene. These species were found to be single-site catalysts even under rather demanding conditions (50−160 °C, 100−300 psig ethylene), although the activities are generally low. Compound 5 affords polymer similar to that produced by 3, suggesting that MAO dehydrates 5 generating a catalyst similar to that derived from 3. Compounds 1, 2, 4, and 5 have been crystallographically characterized.
Theoretical analysis of the heat convection coefficient in large vessels and the significance for thermal ablative therapies (2003)

Ablative therapies such as radio-frequency (RF) ablation are increasingly used for treatment of tumours in liver and other organs. Often large vessels limit the extent of the thermal lesion, and cancer cells close to the vessel survive resulting in local tumour recurrence. Accurate estimates of the heat convection coefficient h for large vessels will help improve ablation techniques, and are required for estimation of thermal lesion dimensions in simulations. Previous estimates of h did not consider that only part of the vessel is heated, and assumed uniform temperature distribution at the vessel wall. An analytical relationship between the heat convection coefficient, blood velocity and temperature is formulated. The heat convection coefficient evaluated will assist both simulations and design of proper protocols for in vivo measurements. The mathematical model developed in this work describes the exchange of heat between a solid surface and a moving fluid and it is based on energy and motion equations for Navier-Stokes fluids. A particular case of a laminar blood flow in the portal vein is studied when a portion of its surface is heated. The results show that heating a larger portion of the vessels reduces convective heat loss, which may result in more effective ablation strategies.
Inhibition of Rat Liver Microsomal Desaturases by Curcumin and Related Compounds (1996)

Curcumin (1,7-bis(4-hydroxy-3-methoxyphenyl)-1,6-heptadiene-3,5-dione) inhibited noncompetitively rat liver microsomal delta 5 desaturase (Ki = 36 microM) and delta 6 desaturase (Ki = 28 microM). Although curcumin has a symmetrical structure with a methylene group as the center, only half the structure is essential for the desaturase inhibition. The structure necessary for the inhibition is similar to that of alkyl gallate (H. Kawashima et al., Biochim. Biophys. Acta, in press), i.e., a 3-hydroxy group of the aromatic ring is essential for the inhibition and a free carboxyl group at the end opposite to the aromatic ring interferes with the inhibitory effect. The following structural features of curcumin are necessary for the desaturase inhibition: (i) the aromatic ring conjugated with the double bond between the 1 and 2 (or 6 and 7) positions; (ii) both 4-hydroxy and 3-methoxy groups (for both desaturase inhibitions); and (iii) only a 4-hydroxy group (for delta 6 desaturase inhibition).
The molecular biology of the pentafunctional AROM protein (1993)

Conference Article| February 01 1993 The molecular biology of the pentafunctional AROM protein Alastair R. Hawkins; Alastair R. Hawkins 1Department of Biochemistry and Genetics, The Medical School, The University, Newcastle upon Tyne NE2 4HH, U.K. Search for other works by this author on: This Site PubMed Google Scholar Jonathan D. Moore; Jonathan D. Moore 1Department of Biochemistry and Genetics, The Medical School, The University, Newcastle upon Tyne NE2 4HH, U.K. Search for other works by this author on: This Site PubMed Google Scholar Heather K. Lamb Heather K. Lamb 1Department of Biochemistry and Genetics, The Medical School, The University, Newcastle upon Tyne NE2 4HH, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1993) 21 (1): 181–186. https://doi.org/10.1042/bst0210181 Article history Received: August 27 1992 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation Alastair R. Hawkins, Jonathan D. Moore, Heather K. Lamb; The molecular biology of the pentafunctional AROM protein. Biochem Soc Trans 1 February 1993; 21 (1): 181–186. doi: https://doi.org/10.1042/bst0210181 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: DHS, dehydroshikimate, DHQ, 3-dehydroquinate, EPSP, 5-enolpyruvyl 3-phosphate, PCA, protocatechuic acid, qut, quinic acid-utilization gene cluster This content is only available as a PDF. © 1993 Biochemical Society1993 Article PDF first page preview Close Modal You do not currently have access to this content.
Sulfasalazine‐induced cystine starvation: Potential use for prostate cancer therapy (2006)

SASP-induced cystine/cysteine starvation leading to glutathione depletion may be useful for therapy of prostate cancers dependent on extracellular cystine.
Characterization of the Glycosyltransferase Enzyme from theEscherichia coli K5 Capsule Gene Cluster and Identification and Characterization of the Glucuronyl Active Site (1998)

Bacterial capsular polysaccharides play an important role in virulence and survival. The Escherichia coli K5 capsule consists of a repeat structure of -4)GlcA-beta(1,4)-GlcNAc alpha(1-, identical to N-acetylheparosan. A 60-kDa protein, KfiC, has been identified as a bifunctional glycosyltransferase, responsible for the alternating alpha and beta addition of each UDP-sugar to the nonreducing end of the polysaccharide chain. Using hydrophobic cluster analysis, a conserved secondary structure motif characteristic of beta-glycosyltransferases was identified along with two highly conserved aspartic acid residues at positions 301 and 352 within the KfiC protein. Site-directed mutagenesis was used to identify catalytically active amino acids within domain A of the KfiC protein. The conserved aspartic acid residues at 301 and 352 were shown to be critical for the beta addition of UDP-GlcA (uridine diphosphoglucuronic acid) to defined nonreducing end oligosaccharide acceptors, suggesting that these conserved aspartic acid residues are catalytically important for beta-glycosyltransferase activity. A deleted derivative of the kfiC gene was generated, which encoded for a truncated KfiC (kfiC') protein. This protein lacked 139 amino acids at the C terminus. This enzyme had no UDP-GlcA transferase activity but still retained UDP-GlcNAc transferase activity, indicating that two separate active sites are present within the KfiC protein.
Self-configuring network traffic generation (2004)

The ability to generate repeatable, realistic network traffic is critical in both simulation and testbed environments. Traffic generation capabilities to date have been limited to either simple sequenced packet streams typically aimed at throughput testing, or to application-specific tools focused on, for example, recreating representative HTTP requests. In this paper we describe Harpoon, a new application-independent tool for generating representative packet traffic at the <i>IP flow level</i>. Harpoon generates TCP and UDP packet flows that have the same byte, packet, temporal and spatial characteristics as measured at routers in live environments. Harpoon is distinguished from other tools that generate statistically representative traffic in that it can <i>self-configure</i> by automatically extracting parameters from standard Netflow logs or packet traces. We provide details on Harpoon's architecture and implementation, and validate its capabilities in controlled laboratory experiments using configurations derived from flow and packet traces gathered in live environments. We then demonstrate Harpoon's capabilities in a router benchmarking experiment that compares Harpoon with commonly used throughput test methods. Our results show that the router subsystem load generated by Harpoon is significantly different, suggesting that this kind of test can provide important insights into how routers might behave under actual operating conditions.
Interlaboratory Comparison of Fetal Male DNA Detection from Common Maternal Plasma Samples by Real-Time PCR (2004)

All centers were able to consistently amplify frozen and shipped DNA. The PCR procedure used here is reliable and reproducible. Centers that extracted and amplified more DNA per milliliter of maternal plasma had superior sensitivities of Y chromosome sequence detection. The specificity of the assay was more consistent among centers. A robust and thoroughly optimized protocol for the extraction of DNA from maternal plasma is needed to make testing of fetal DNA in maternal plasma a clinically relevant analytical tool.
Variation-Based Distance and Similarity Modeling: A Case Study in World Englishes (2019)

Inspired by work in comparative sociolinguistics and quantitative dialectometry, we sketch a corpus-based method (Variation-Based Distance & Similarity Modeling-VADIS for short) to rigorously quantify the similarity between varieties and dialects as a function of the correspondence of the ways in which language users choose between different ways of saying the same thing. To showcase the potential of the method, we present a case study that investigates three syntactic alternations in some nine international varieties of English. Key findings include that (a) probabilistic grammars are remarkably similar and stable across the varieties under study; (b) in many cases we see a cluster of "native" (a.k.a. Inner Circle) varieties, such as British English, whereas "non-native" (a.k.a. Outer Circle) varieties, such as Indian English, are a more heterogeneous group; and (c) coherence across alternations is less than perfect.
Metal-insulator-metal RF bypass capacitor using niobium oxide (Nb/sub 2/O/sub 5/) with HfO/sub 2//Al/sub 2/O/sub 3/ barriers (2005)

A high capacitance density (C/sub density/) metal-insulator-metal (MIM) capacitor with niobium pentoxide (Nb <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">5</sub> ) whose k value is higher than 40, is developed for integrated RF bypass or decoupling capacitor application. Nb <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">5</sub> MIM with HfO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> /Al <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> barriers delivers a high C/sub density/ of >17 fF/μm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> with excellent RF properties, while maintaining comparable leakage current and reliability properties with other high-k dielectrics. The capacitance from the dielectric is shown to be stable up to 20 GHz, and resonant frequency of 4.2 GHz and Q of 50 (at 1 GHz) is demonstrated when the capacitor is integrated using Cu-BEOL process.
High-density lipoprotein heterogeneity and function in reverse cholesterol transport (2010)

The antiatherogenic quality of HDL is defined by the functionality of HDL subspecies. In the case of RCT, the rate of cholesterol movement through the pathway is critical and the contributions of particular types of HDL particles to this process are becoming better defined.
Effects of hydrogen implantation damage on the performance of InP/InGaAs/InP p-i-n photodiodes transferred on silicon (2009)

Functioning InP/InGaAs/InP p-i-n photodiodes were integrated onto a Si substrate using hydrogen-induced layer transfer process (ion cut) combined with selective chemical etching. This device transfer process minimizes the hydrogen implantation-induced damage and simultaneously improves the transferred surface flatness for device processing. After transfer, the dark current under the reverse bias increased by ∼1.5 times over that of the as-grown photodiodes at −1.5 V, while the photoinduced current was comparable to that of the as-grown sample. These results were discussed in terms of interactions between minority carriers and the remaining implantation-induced damage.
Selection of ventricular‐like cardiomyocytes from ES cells in vitro (2000)

Ischemic disorders of the heart can cause an irreversible loss of cardiomyocytes resulting in a substantial decrease of cardiac output. The therapy of choice is heart transplantation, a technique that is hampered by the low number of donor organs. In the present study, we describe the specific labeling, rapid but gentle purification and characterization of cardiomyocytes derived from mouse pluripotent embryonic stem (ES) cells. To isolate the subpopulation of ventricular-like cardiomyocytes, ES cells were stable transfected with the enhanced green fluorescent protein (EGFP) under transcriptional control of the ventricular-specific 2.1 kb myosin light chain-2v (MLC-2v) promoter and the 0.5 kb enhancer element of the cytomegalovirus (CMV(enh).). First fluorescent cells were detected at day 6 + 8 of differentiation within EBs. Four weeks after initiation of differentiation 25% of the cardiomyocyte population displayed fluorescence. Immunohistochemistry revealed the exclusive cardiomyogenic nature of EGFP-positive cells. This was further corroborated by electrophysiological studies where preferentially ventricular phenotypes, but no pacemaker-like cardiomyocytes, were detected among the EGFP-positive population. The enzymatic digestion of EBs, followed by Percoll gradient centrifugation and fluorescence-activated cell sorting, resulted in a 97% pure population of cardiomyocytes. Based on this study, ventricular-like cardiomyocytes can be generated in vitro from EBs and labeled using CMV(enh)./MLC-2v-driven marker genes facilitating an efficient purification. This method may become an important tool for future cell replacement therapy of ischemic cardiomyopathy especially after the proof of somatic differentiation of human ES cells in vitro.
Investigating Spontaneous Facial Action Recognition through AAM Representations of the Face (2007)

In this paper we have explored a number of representations of the face, derived from AAMs, for the purpose of facial action recognition. We have demonstrated that a number of representations derived from the AAM are highly useful for the task of facial action recognition. A number of outcomes came from our experiments, â€¢ Employing a concatenated similarity normalized shape and shape normalized (canonical) appearance (S-PTS+C-APP) is superior to either similarity normalized shape (S-PTS) or similarity normalized appearance (S-APP). This result also validates the employment of AAM type representations in facial action unit recognition. Comparable verification performance to [Bartlett et al., 2004] can be achieved using â€¢ appearance and shape features stemming from a AAM representation. â€¢ Shape features have a large role to play in facial action unit recognition. Based on our initial experiments the ability to successfully register the shape of the face can be highly beneficial in terms of AU recognition performance. A major problem with the â€œspontaneousâ€ action unit recognition component of this chapter stems from the marked amount of head movement in subjects. Additional work still needs to be done, with model based representations of the face, in obtaining adequate 3D depth information from the face. We believe further improvement in this aspect of model based representations of the face, could play large dividends towards the lofty goal of automatic ubiquitous facial action recognition.
metapath2vec (2017)

We study the problem of representation learning in heterogeneous networks. Its unique challenges come from the existence of multiple types of nodes and links, which limit the feasibility of the conventional network embedding techniques. We develop two scalable representation learning models, namely metapath2vec and metapath2vec++. The metapath2vec model formalizes meta-path-based random walks to construct the heterogeneous neighborhood of a node and then leverages a heterogeneous skip-gram model to perform node embeddings. The metapath2vec++ model further enables the simultaneous modeling of structural and semantic correlations in heterogeneous networks. Extensive experiments show that metapath2vec and metapath2vec++ are able to not only outperform state-of-the-art embedding models in various heterogeneous network mining tasks, such as node classification, clustering, and similarity search, but also discern the structural and semantic correlations between diverse network objects.
Decreased Plasma Retinol, α-Tocopherol, and Zinc Concentration During the Periparturient Period: Effect of Milk Fever (1990)

Retinol (vitamin A), alpha-tocopherol (vitamin E), and Zn are micronutrients essential for health and performance. We determined the effects of parturition, lactation, and periparturient Ca status on plasma retinol, alpha-tocopherol, and Zn in 18 Jersey cows during the 2 wk before and after parturition. Six cows developed clinical milk fever. Prepartum plasma concentrations of retinol, alpha-tocopherol, and Zn decreased progressively in all animals. A nadir was reached at 1 d postpartum when concentrations declined to 38, 47, and 67%, respectively, of prepartal baseline concentrations. Plasma Zn returned to baseline concentrations within 3 d of calving, and plasma alpha-tocopherol returned toward baseline about 10 d after calving. Plasma retinol remained below baseline concentrations throughout the first 2 wk of lactation. The decline in plasma Zn observed at calving was more severe in cows with milk fever (parturient paresis) than in cows without milk fever. The decrease in plasma retinol and alpha-tocopherol observed at parturition was similar in cows with or without milk fever. These data document an acute decline in plasma retinol, alpha-tocopherol, and Zn in the immediate periparturient period and indicate that the decline in plasma Zn is more severe in cows with milk fever.