gebhart/patrepeval huggingface dataset:
A Molecular Cytogenetic Map of Sorghum Chromosome <i>1</i>: Fluorescence <i>in Situ</i> Hybridization Analysis With Mapped Bacterial Artificial Chromosomes (2002)

We used structural genomic resources for Sorghum bicolor (L.) Moench to target and develop multiple molecular cytogenetic probes that would provide extensive coverage for a specific chromosome of sorghum. Bacterial artificial chromosome (BAC) clones containing molecular markers mapped across sorghum linkage group A were labeled as probes for fluorescence in situ hybridization (FISH). Signals from single-, dual-, and multiprobe BAC-FISH to spreads of mitotic chromosomes and pachytene bivalents were associated with the largest sorghum chromosome, which bears the nucleolus organizing region (NOR). The order of individual BAC-FISH loci along the chromosome was fully concordant to that of marker loci along the linkage map. In addition, the order of several tightly linked molecular markers was clarified by FISH analysis. The FISH results indicate that markers from the linkage map positions 0.0-81.8 cM reside in the short arm of chromosome 1 whereas markers from 81.8-242.9 cM are located in the long arm of chromosome 1. The centromere and NOR were located in a large heterochromatic region that spans approximately 60% of chromosome 1. In contrast, this region represents only 0.7% of the total genetic map distance of this chromosome. Variation in recombination frequency among euchromatic chromosomal regions also was apparent. The integrated data underscore the value of cytological data, because minor errors and uncertainties in linkage maps can involve huge physical regions. The successful development of multiprobe FISH cocktails suggests that it is feasible to develop chromosome-specific "paints" from genomic resources rather than flow sorting or microdissection and that when applied to pachytene chromatin, such cocktails provide an especially powerful framework for mapping. Such a molecular cytogenetic infrastructure would be inherently cross-linked with other genomic tools and thereby establish a cytogenomics system with extensive utility in development and application of genomic resources, cloning, transgene localization, development of plant "chromonomics," germplasm introgression, and marker-assisted breeding. In combination with previously reported work, the results indicate that a sorghum cytogenomics system would be partially applicable to other gramineous genera.
UV Sunscreens of Microbial Origin: Mycosporines and Mycosporine- like Aminoacids (2015)

Exposure to ultraviolet radiation (UVR) is harmful to living organisms, causing damage to macromolecules such as DNA, RNA, proteins and lipids. Depending on the wavelength, the injury could be direct or indirect through reactive oxygen intermediates, so it is desirable to find compounds that can reduce both. Many organic chemicals used in commercial sunscreen possess estrogenic activity in vivo. In this report we analyzed recent patents related to UV sunscreens of microbial origin, in particular mycosporines (MYC) and mycosporine-like aminoacids (MAA). Both are promising natural alternatives for both direct (UV-absorption) and indirect (antioxidant) protection, given they show strong photostability and absence of cytotoxicity. It becomes clear that although the search for natural photoprotective molecules is relatively recent, efforts have been invested mainly in marine environments, remaining still many potential photoprotective molecules to find in other type of habitats. Furthermore, unicellular microorganisms have several advantages for the production of metabolites of interest, since they improve the production costs due to its simplicity of culture and easy genetic manipulation. The knowledge of the biosynthesis pathway of MYC and MAA is essential to improve rationally their expression levels. Currently, only the MAA pathway in bacteria has been reported, remaining the MYC pathway unclear. Future perspectives include the heterologous expression of MYC and/or MAA in industrially friendly microorganisms (bacteria and yeast) in order to co-produce different UV-protective molecules and thus cover a broader UV spectrum and simplify the production process.
QoS and contention-aware multi-resource reservation (2002)

Presents a QoS and contention-aware multi-resource reservation algorithm to provide end-to-end QoS guarantees for distributed and component-based services. We study a reservation-enabled environment, where each type of resource can be reserved. However, the goals of: (1) achieving the best end-to-end QoS for each client, and (2) increasing the overall success rate of resource reservations for different service requests, are in conflict with each other. Our algorithm provides a solution to alleviate this conflict. For each service request, the algorithm computes an end-to-end multi-resource reservation plan which (1) achieves the highest level of end-to-end QoS under the constraint of current resource availability, and (2) tends to incur low bottleneck resource contention among all feasible reservation plans for this service request. Our initial simulation results show the excellent performance of this algorithm.
Aluminum tri-isopropoxide as an alternative precursor for atomic layer deposition of aluminum oxide thin films (2019)

Due to the safety challenges associated with the use of trimethylaluminum as a metal precursor for the deposition of alumina, different chemicals have been investigated over the years to replace it. The authors have investigated the use of aluminum tri-isopropoxide (TIPA) as an alternative alkoxide precursor for the safe and cost-effective deposition of alumina. In this work, TIPA is used as a stable Al source for atomic layer deposition (ALD) of Al2O3 when different oxidizing agents including water, oxygen plasma, water plasma, and ozone are employed. The authors have explored the deposition of Al2O3 using TIPA in ALD systems operating in vacuum and atmospheric pressure conditions. For thermal and plasma processes in vacuum ALD, a growth rate of 1.1–2 Å/cycle achieved over a range of 140–300 °C is shown. Film density, roughness, and composition have been tested using various characterization techniques confirming comparable film properties to the thermal ALD of trimethylaluminum and water. The thermal water process at atmospheric pressure ALD (AP-ALD) resulted in a growth rate of up to 1.1 Å/cycle with residual carbon below the XPS detection limit. AP-ALD on nanoparticles shows different growth modes on TiO2 versus SiO2 nanoparticle surfaces confirmed by transmission electron microscopy analysis. Using TIPA as an ALD precursor would open up the possibility for a safer and cost-effective process for deposition of Al2O3 in various applications.
Crowd-driven mid-scale layout design (2016)

We propose a novel approach for designing mid-scale layouts by optimizing with respect to human crowd properties. Given an input layout domain such as the boundary of a shopping mall, our approach synthesizes the paths and sites by optimizing three metrics that measure crowd flow properties: mobility, accessibility, and coziness. While these metrics are straightforward to evaluate by a full agent-based crowd simulation, optimizing a layout usually requires hundreds of evaluations, which would require a long time to compute even using the latest crowd simulation techniques. To overcome this challenge, we propose a novel data-driven approach where nonlinear regressors are trained to capture the relationship between the agent-based metrics, and the geometrical and topological features of a layout. We demonstrate that by using the trained regressors, our approach can synthesize crowd-aware layouts and improve existing layouts with better crowd flow properties.
Zwitterionic Chitosan Derivative, a New Biocompatible Pharmaceutical Excipient, Prevents Endotoxin-Mediated Cytokine Release (2012)

Chitosan is a cationic polymer of natural origin and has been widely explored as a pharmaceutical excipient for a broad range of biomedical applications. While generally considered safe and biocompatible, chitosan has the ability to induce inflammatory reactions, which varies with the physical and chemical properties. We hypothesized that the previously reported zwitterionic chitosan (ZWC) derivative had relatively low pro-inflammatory potential because of the aqueous solubility and reduced amine content. To test this, we compared various chitosans with different aqueous solubilities or primary amine contents with respect to the intraperitoneal (i.p.) biocompatibility and the propensity to induce pro-inflammatory cytokine production from macrophages. ZWC was relatively well tolerated in ICR mice after i.p. administration and had no pro-inflammatory effect on naïve macrophages. Comparison with other chitosans indicates that these properties are mainly due to the aqueous solubility at neutral pH and relatively low molecular weight of ZWC. Interestingly, ZWC had a unique ability to suppress cytokine/chemokine production in macrophages challenged with lipopolysaccharide (LPS). This effect is likely due to the strong affinity of ZWC to LPS, which inactivates the pro-inflammatory function of LPS, and appears to be related to the reduced amine content. Our finding warrants further investigation of ZWC as a functional biomaterial.
Capacitive Interdigital Sensors for Flexible Enclosures and Wearables (2020)

Recent applications related to flexible deployable enclosures for surgery and health care and to wearables may make use of capacitive sensors for monitoring the inflation state of the enclosure, the movements of the human body, and the detection of movements induced by respiration and heart activity (ballistocardiography). We propose the use of flexible, interdigital capacitive sensors in portable enclosures for medical applications, analyze the principles of operation of several versions of such sensors, and provide a theoretical foundation to their design and use, including limitations and errors. The paper also contributes to the analytic description of operation of flexible interdigital sensors, a topic not fully examined previously in the literature.
Name that tune (2011)

In this paper we argue that Musicons, short samples from pieces of music are a useful way to present private but memorable reminder messages. We investigated accuracy, memorability and response times for short, medium, and long Musicons. User performance on the Musicons was also compared to short spoken reminders. The study consisted of two sessions a week apart. Quantitative measures were augmented with qualitative questions about associations and memories. Overall, participants achieved a high level of accuracy (89%) on the Musicons. Recognition was stable at 90% or better across sessions for users who were able to construct meaningful links between Musicons and the associated tasks. Optimal response times were achieved for medium-length 0.5 sec. Musicons. We conclude that Musicons are a viable option for alarms and notifications that combine the high learnability of Auditory Icons with the more private nature of Earcons.
Fiction and Social Knowledge: Towards a Strong Program in the Sociology of Literature (2020)

Following the strong program in cultural sociology, I propose a strong program in the sociology of liter-ature, which treats literary pieces rightly as relatively autonomous cultural entities and “independent var-iables”. To outline the epistemological foundations of the new research program, I compare how social knowledge comes into existence through the sociological text and the text of literary fiction. I discuss the representation of social reality in interpretive research, with Isaac Reed’s book Interpretation and Social Knowledge as a starting point. To claim literary autonomy, I outline some of the aspects which social the-ory shares with literary fiction. I am mainly interested in how social theory and literary fiction mediate social knowledge to their readers via the aesthetic experience. I identify two main categories of social knowledge mediated by literature: existential understanding and Zeitgeist. Discussing the sociological treatment of several novels, I look at how these two categories intertwine and support each other to create colorful, sensitive, but also robust and deep social knowledge, which condenses aesthetic, existential, and non-discursive aspects of social experience together with the “big picture” of whole societies. I argue that only by overcoming the often-assumed inferiority of literature in sociological research can sociology real-ize its full potential in understanding the meanings of social life.
AVCR 1360-2 High Specific Output-Variable Compression Ratio Diesel Engine (1976)

<div class="htmlview paragraph">This paper addresses the development of the Teledyne Continental Motors' (TCM) AVCR 1360-2 variable compression ratio (VCR) diesel engine. This is the culmination of fifteen years of VCR piston and high specific output research. The unique configuration and resulting performance of this 335 BMEP engine are presented.</div> <div class="htmlview paragraph">The special features of the engine design which were refined during the AVCR 1360-2 development phase are discussed. Those features accentuated are the VCR piston system, the X-pump fuel injection system and the high pressure ratio induction system.</div> <div class="htmlview paragraph">Programs for development of satisfactory steady state and transient performance and the design modifications necessary to reduce the peak transient smoke burst to acceptable levels are described.</div>
Discovery of a <i>para</i>-Acetoxy-benzyl Ester Prodrug of a Hydroxamate-Based Glutamate Carboxypeptidase II Inhibitor as Oral Therapy for Neuropathic Pain (2017)

4-Carboxy-α-[3-(hydroxyamino)-3-oxopropyl]-benzenepropanoic acid 1 is a potent hydroxamate-based inhibitor of glutamate carboxypeptidase II. In an attempt to improve its poor oral pharmacokinetics, we synthesized a series of prodrugs by masking its hydrophilic hydroxamate group. Prodrugs were evaluated for oral availability in mice and showed varying degree of plasma exposure to 1. Of these, para-acetoxybenzyl-based, 4-(5-(((4-acetoxybenzyl)oxy)amino)-2-carboxy-5-oxopentyl)benzoic acid, 12, provided 5-fold higher plasma levels of 1 compared to oral administration of 1 itself. Subsequently, para-acetoxybenzyl-based prodrugs with additional ester promoiety(ies) on carboxylate(s) were examined for their ability to deliver 1 to plasma. Isopropyloxycarbonyloxymethyl (POC) ester 30 was the only prodrug that achieved substantial plasma levels of 1. In vitro metabolite identification studies confirmed stability of the ethyl ester of benzoate while the POC group was rapidly hydrolyzed. At oral daily dose-equivalent of 3 mg/kg, 12 exhibited analgesic efficacy comparable to dose of 10 mg/kg of 1 in the rat chronic constrictive injury model of neuropathic pain.
Error Analysing for Adjusting Probe of Three Coordinate Measuring Machine (2004)

Probe adjusting is the most basic preparing work for three coordinate measuring machine, and its precision would directly affect measuring precision of three coordinate measuring machine. The source and eliminating method of the error of the adjusting are discussed.
A divergent pseudoglandular configuration of cutaneous plasmacytoma in dogs (2017)

Cutaneous and mucocutaneous plasmacytoma (PCT) is a common neoplasm of dogs. Tumors can be single or multiple and occur predominantly in the oral cavity, lip, ears, digits, and trunk. Although these tumors typically offer no diagnostic challenge for the pathologist, subsets of PCTs with atypical morphologic configurations may make differentiation from other neoplasms difficult. We describe 6 cases of canine cutaneous and mucocutaneous PCT with pseudoglandular arrangement of neoplastic cells. The mean age of affected dogs was 11.3 y, and multiple breeds and sites were affected. Histologically, neoplastic cells were arranged in sheets, packets, and pseudoglandular structures containing central accumulations of blood or eosinophilic material admixed with neoplastic cells and hemosiderin-laden macrophages. Given the presence of pseudoglandular structures resembling neoplastic acini, epithelial neoplasia was occasionally included in the differential diagnosis. Neoplastic cells were strongly immunopositive for multiple myeloma oncogene 1 ( MUM-1) and immunonegative for pancytokeratin AE1/AE3. Canine cutaneous and mucocutaneous PCTs with pseudoglandular morphology may resemble epithelial neoplasia and raise questions about tumor histogenesis.
High-pulse-energy mid-infrared laser source based on optical parametric amplification in ZnGeP_2 (2008)

Nonlinear optical conversion of 1.064 microm pulses from a Q-switched Nd:YAG laser to the mid-infrared is demonstrated. The experimental setup is based on a two-stage master-oscillator/power-amplifier (MOPA) design with a KTiOPO(4) based MOPA in the first stage and a KTiOAsO(4)/ZnGeP(2) based MOPA in the second stage. The setup can be tuned to provide output at 8 microm or in the 3-5 microm wavelength region. We obtain more than 8 mJ at 8 microm, and up to 33 mJ at 3-5 microm. The measured beam quality factors are in the range M(2) =2-4 for both wavelength regions.
The heads and the tails of malaria and VWF (2016)

In this issue of Blood, O'Regan et al have extended our understanding of von Willebrand factor (VWF) in the pathogenesis of malaria. According to the World Health Organization (http://www.who.int/gho/malaria/en/), malaria affects 3.2 billion people in 97 countries with 198 million cases having occurred in 2013, and of those, 584 000 died. Ninety percent of those deaths in 2013 were children under the age of 5. The most devastating form of the disease is cerebral malaria, which occurs most frequently in young children. Although blood coagulation changes such as disseminated intravascular coagulation have been recognized since the 1970s, recent studies have focused on markers of these hemostatic changes as being most prevalent in cerebral malaria caused by Plasmodium falciparum. Cerebral malaria is more lethal in children than adults. Exchange transfusion has been used as an aggressive adjunct therapy for this condition.
Bit-Flipping Scheme Using <i>K</i>-Means Algorithm for Bit-Patterned Media Recording (2022)

As the need for storing significant amounts of data has increased, an increased areal density (AD) of hard disk drives is required. Bit-patterned media recording (BPMR) with the ability to increase AD is regarded as one of the future magnetic storage systems. Reducing the distance between islands storing 1 bit can provide high AD, but it creates problems of intersymbol and intertrack interferences. In this study, we propose a bit-flipping scheme using the <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$K$ </tex-math></inline-formula> -means algorithm for the BPMR system. In the proposed scheme, the <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$K$ </tex-math></inline-formula> -means algorithm, which is an iterative clustering method for identifying similar samples and assigning them to clusters, is used to assign the samples that consist of the main and neighboring data to clusters. The predicted index from <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$K$ </tex-math></inline-formula> -means is utilized to compare and flip the sign of the main data when the sign is different. The proposed scheme flips the sign of data that is predicted to be an error and improves the performance using the neighboring information.
Flux qubit interaction with rapid single-flux quantum logic circuits: Control and readout (2017)

We present the results of an analytical study and numerical simulation of the dynamics of a superconducting three-Josephson-junction (3JJ) flux qubit magnetically coupled with rapid single-flux quantum (RSFQ) logic circuit, which demonstrate the fundamental possibility of implementing the simplest logic operations at picosecond times, as well as rapid non-destructive readout. It is shown that when solving optimization problems, the qubit dynamics can be conveniently interpreted as a precession of the magnetic moment vector around the direction of the magnetic field. In this case, the role of magnetic field components is played by combinations of the Hamiltonian matrix elements, and the role of the magnetic moment is played by the Bloch vector. Features of the 3JJ qubit model are discussed during the analysis of how the qubit is affected by exposure to a short control pulse, as are the similarities between the Bloch and Landau-Lifshitz-Gilbert equations. An analysis of solutions to the Bloch equations made it possible to develop recommendations for the use of readout RSFQ circuits in implementing an optimal interface between the classical and quantum parts of the computer system, as well as to justify the use of single-quantum logic in order to control superconducting quantum circuits on a chip.
Binding Sites for Acylated Trehalose Analogs of Glycolipid Ligands on an Extended Carbohydrate Recognition Domain of the Macrophage Receptor Mincle (2016)

The macrophage receptor mincle binds to trehalose dimycolate on the surface of Mycobacterium tuberculosis Signaling initiated by this interaction leads to cytokine production, which underlies the ability of mycobacteria to evade the immune system and also to function as adjuvants. In previous work the mechanism for binding of the sugar headgroup of trehalose dimycolate to mincle has been elucidated, but the basis for enhanced binding to glycolipid ligands, in which hydrophobic substituents are attached to the 6-hydroxyl groups, has been the subject of speculation. In the work reported here, the interaction of trehalose derivatives with bovine mincle has been probed with a series of synthetic mimics of trehalose dimycolate in binding assays, in structural studies by x-ray crystallography, and by site-directed mutagenesis. Binding studies reveal that, rather than reflecting specific structural preference, the apparent affinity of mincle for ligands with hydrophobic substituents correlates with their overall size. Structural and mutagenesis analysis provides evidence for interaction of the hydrophobic substituents with multiple different portions of the surface of mincle and confirms the presence of three Ca<sup>2+</sup>-binding sites. The structure of an extended portion of the extracellular domain of mincle, beyond the minimal C-type carbohydrate recognition domain, also constrains the way the binding domains may interact on the surface of macrophages.
A new stylus for touchscreen devices (2011)

This paper introduces a new stylus for touchscreen devices that provides clicking, dragging, blocking, and a texture sense to improve usability. The new stylus uses an electromagnetic force generated between the built-in electromagnet of a touch pen and the magnetizable panel on the back side of the touchscreen. The variation of electromagnetic force guarantees a precise manipulation of GUI on the touchscreen device.
The effect of dosing regimen on the pharmacokinetics of risedronate (1999)

The comparable extent of risedronate absorption when administered either 0.5-1 h before breakfast or 2 h after an evening meal support previous clinical studies where risedronate was found to have similar effectiveness using these dosing regimens. This flexibility in the timing of risedronate administration may provide patients an alternative means to achieve the desired efficacy while maintaining their normal daily routine.
A Modified Implant Healing Abutment to Optimize Soft Tissue Contours: A Case Report (2004)

The soft tissue profile created around a conventional healing abutment may be inadequate to accommodate an anatomically shaped abutment that is larger than a standard machined abutment. This causes difficulties in its insertion and subsequent impression-making and provisional restoration fabrication. This article presents a simple technique to overcome these problems.