gebhart/patrepeval huggingface dataset:
Simplified Mesh Generation from Renders (2006)

Scientific visualization presents data or real-world objects in 3D to visually verify and observe results. It has been used in everything from car manufacture to seismic analysis. The 3D models used frequently have far too much detail to be rendered at acceptable frame-rates on current computers, and while the speed of graphics hardware continually increases, so does the resolution of stored data. Quite often, the models displayed include very high resolution submodels that were originally intended to be displayed on their own, like including a fully detailed pressure gauge with all mechanical parts on a large engine. While many methods exist to reduce the complexity of the regular meshes such objects are built from, they all require detailed knowledge of mesh data. The only way to get this data is to integrate extended data export into the tool used to produce the mesh, a task which is difficult unless the software is self-written or comes with full source code. Presented here is a new method to generate a well-formed approximate mesh with color and normal information, based on just the ability to draw the object on screen. The resulting mesh contains no hidden or intersecting surfaces and hence is perfectly suited for simplification. 1
Plasma lyso-phosphatidylcholine concentration is decreased in cancer patients with weight loss and activated inflammatory status (2007)

In conclusion, LPC concentrations were decreased in cancer patients. LPC plasma concentrations correlated with weight loss and inflammatory parameters and, therefore, might be a general indicator of severity of malignant disease.
Complete Monitoring of Coherent and Incoherent Spin Flip Domains in the Recombination of Charge-Separated States of Donor-Iridium Complex-Acceptor Triads (2015)

The spin chemistry of photoinduced charge-separated (CS) states of three triads comprising one or two triarylamine donors, a cyclometalated iridium complex sensitizer and a naphthalene diimide (NDI) acceptor, was investigated by transient absorption spectroscopy in the ns−μs time regime. Strong magnetic-field effects (MFE) were observed for two triads with a phenylene bridge between iridium complex sensitizer and NDI acceptor. For these triads, the lifetimes of the CS states increased from 0.6 μs at zero field to 40 μs at about 2 T. Substituting the phenylene by a biphenyl bridge causes the lifetime of the CS state at zero field to increase by more than 2 orders of magnitude (τ = 79 μs) and the MFE to disappear almost completely. The kinetic MFE was analyzed in the framework of a generalized Hayashi–Nagakura scheme describing coherent (S, T0 ↔ T±) as well as incoherent (S, T0 ⇌ T±) processes by a single rate constant k±. The magnetic-field dependence of k± of the triads with phenylene bridge spans 2 orders of magnitude and exhibits a biphasic behavior characterized by a superposition of two Lorentzians. This biphasic MFE is observed for the first time and is clearly attributable to the coherent (B < 10 mT) and incoherent (10 mT < B < 2 T) domains of spin motion induced by isotropic and anisotropic hyperfine coupling. The parameters of both domains are well understood in terms of the structural properties of the two triads, including the effect of electron hopping in the triad with two donor moieties. The kinetic model also accounts for the reduction of the MFE on reducing the rate constant of charge recombination in the triad with the biphenyl bridge.
Identifying tagged transposon insertion sites in yeast by direct genomic sequencing (2000)

Tagged transposons are powerful tools for large-scale studies of gene expression, protein localization, and gene disruption in Saccharomyces cerevisiae. The current techniques used to identify transposon insertion sites in the yeast genome require a DNA amplification step that can be time-consuming and problematic. We show that the DNA amplification step can be bypassed. Insertion sites can be identified rapidly and reliably by direct genomic sequencing using a transposon-specific primer, BigDye-labelled terminators, and an automated sequencer. Direct genomic sequencing can also save time on the genetic analysis phase of transposon-based projects.
DUAL: Acceleration of Clustering Algorithms using Digital-based Processing In-Memory (2020)

Today's applications generate a large amount of data that need to be processed by learning algorithms. In practice, the majority of the data are not associated with any labels. Unsupervised learning, i.e., clustering methods, are the most commonly used algorithms for data analysis. However, running clustering algorithms on traditional cores results in high energy consumption and slow processing speed due to a large amount of data movement between memory and processing units. In this paper, we propose DUAL, a Digital-based Unsupervised learning AcceLeration, which supports a wide range of popular algorithms on conventional crossbar memory. Instead of working with the original data, DUAL maps all data points into high-dimensional space, replacing complex clustering operations with memory-friendly operations. We accordingly design a PIM-based architecture that supports all essential operations in a highly parallel and scalable way. DUAL supports a wide range of essential operations and enables in-place computations, allowing data points to remain in memory. We have evaluated DUAL on several popular clustering algorithms for a wide range of large-scale datasets. Our evaluation shows that DUAL provides a comparable quality to existing clustering algorithms while using a binary representation and a simplified distance metric. DUAL also provides 58.8× speedup and 251.2× energy efficiency improvement as compared to the state-of-the-art solution running on GPU.
High Temperature Superconductor Terahertz Emitters: Fundamental Physics and Its Applications (2011)

Coherent and continuous radiation sources of the electromagnetic (EM) waves at terahertz (1 THz = 1012 c/s) frequencies using a mesa structure fabricated from high temperature superconducting Bi2Sr2CaCu2O8+δ single crystals are described with a special emphasis on the physics of the radiation mechanism and the applications. After the intensive studies of many mesas fabricated with different conditions, it is revealed that the ac-Josephson effect works as a primary driving mechanism of the radiation and the cavity resonance needed for stronger radiation plays an additional role to the mechanism, although both are working together while radiating. A prototype of the imaging machine for multipurpose uses has successfully been developed.
Selective Modulation of A&#946;42 Production in Alzheimers Disease: Non-Steroidal Anti-Inflammatory Drugs and Beyond (2006)

The amyloid-beta (Abeta) peptides and in particular the longer, highly amyloidogenic isoform Abeta42 are believed by many to be the central disease-causing agents in Alzheimer's disease (AD). Consequently, academic and pharmaceutical laboratories have focused on elucidating the mechanisms of Abeta production and developing strategies to diminish Abeta formation for treatment or prevention of AD. The most substantial advances have been made with respect to inhibitors of the gamma-secretase enzyme, which catalyzes the final step in the generation of Abeta from the amyloid precursor protein (APP). Highly potent gamma-secretase inhibitors which suppress production of all Abeta peptides are available today. However, due to the promiscuous substrate specificity of gamma-secretase and its essential role in the NOTCH signaling pathway overt mechanism-based toxicity has been observed in preclinical studies of gamma-secretase inhibitors. For that reason, specific blockage of Abeta42 production might be preferable over non-discriminatory gamma-secretase inhibition but small molecule inhibitors of Abeta42 production have remained elusive until recently. This has changed with the discovery that certain non-steroidal anti-inflammatory drugs (NSAIDs) including ibuprofen possess preferential Abeta42-lowering activity. These compounds seem to offer a window of modulation where Abeta42 production is potently inhibited whereas processing of the NOTCH receptor and other gamma-secretase substrates remains unaffected. The Abeta42-lowering activity of NSAIDs is not related to inhibition of cyclooxygenases and can be dissociated from the anti-inflammatory properties of this class of drugs. Ongoing efforts concentrate on uncovering the mechanism of action and improving potency and brain permeability of Abeta42-lowering compounds. Hopes are high that in the near future this will lead to the development of clinically viable compounds which selectively target Abeta42 as a key molecule in the pathogenesis of AD.
New research (1999)

The following papers were programmed for the British Society of Gerontology Annual Conference in Bournemouth 17-19 September. The BSG aims to promote the understanding of human ageing and later life through research and communication. It seeks to foster the application of this knowledge to the improvement of the quality of life in old age.
Efficient Synthesis of the Immunomodulating Compound KRP-203 (2007)

A practical and concise synthesis of KRP-203 (1) was achieved by utilizing a palladium coupling reaction mediated by XantPhos and Pd2(dba)3 as the key step. The coupling reaction of aryl bromide 5 with 3-hydroxythiophenol (6) proceeded chemoselectively to give phenol 7 in spite of the presence of a chlorine substituent on 5 and a hydroxyl group on 6. Phenol 7 was converted into KRP-203 by benzylation and removal of the protecting groups in high yield.
Models and framework for supporting runtime decisions in Web-based systems (2008)

Efficient management of distributed Web-based systems requires several mechanisms that decide on request dispatching, load balance, admission control, request redirection. The algorithms behind these mechanisms typically make fast decisions on the basis of the load conditions of the system resources. The architecture complexity and workloads characterizing most Web-based services make it extremely difficult to deduce a representative view of a resource load from collected measures that show extreme variability even at different time scales. Hence, any decision based on instantaneous or average views of the system load may lead to useless or even wrong actions. As an alternative, we propose a two-phase strategy that first aims to obtain a representative view of the load trend from measured system values and then applies this representation to support runtime decision systems. We consider two classical problems behind decisions: how to detect significant and nontransient load changes of a system resource and how to predict its future load behavior. The two-phase strategy is based on stochastic functions that are characterized by a computational complexity that is compatible with runtime decisions. We describe, test, and tune the two-phase strategy by considering as a first example a multitier Web-based system that is subject to different classes of realistic and synthetic workloads. Also, we integrate the proposed strategy into a framework that we validate by applying it to support runtime decisions in a cluster Web system and in a locally distributed Network Intrusion Detection System.
Recent progress on photochromic diarylethene polymers (2011)

Organic photochromic materials based on diarylethenes and their derivatives have been intensively investigated from fundamental research to technological applications. This review briefly presents the latest advances in photochromic polymers containing diarylethenes and their derivatives. Polymer matrices doped with diarylethene derivatives and diarylethene electroactive polymers will also be included. The new and significant research in the field of photochromic diarylethenes polymers is highlighted. Their design and preparation methods, various properties and possible applications are briefly discussed.
Dynamic diffuse optical tomography imaging of peripheral arterial disease (2012)

Peripheral arterial disease (PAD) is the narrowing of arteries due to plaque accumulation in the vascular walls. This leads to insufficient blood supply to the extremities and can ultimately cause cell death. Currently available methods are ineffective in diagnosing PAD in patients with calcified arteries, such as those with diabetes. In this paper we investigate the potential of dynamic diffuse optical tomography (DDOT) as an alternative way to assess PAD in the lower extremities. DDOT is a non-invasive, non-ionizing imaging modality that uses near-infrared light to create spatio-temporal maps of oxy- and deoxy-hemoglobin in tissue. We present three case studies in which we used DDOT to visualize vascular perfusion of a healthy volunteer, a PAD patient and a diabetic PAD patient with calcified arteries. These preliminary results show significant differences in DDOT time-traces and images between all three cases, underscoring the potential of DDOT as a new diagnostic tool.
Nanoimprint fabrication of polymer cell substrates with combined microscale and nanoscale topography (2007)

This article reports the fabrication of polymer cell culture substrates with combined microscale and nanoscale topography. The substrates were fabricated using two embossing steps, where the microscale features were formed in the first embossing step and then the nanoscale features were formed in the second. The first embossing produced grooves either 2 or 10μm wide, while the second embossing produced grooves 50nm wide on a 150nm pitch. The 50nm grooves were either parallel to or perpendicular to the microgrooves. Osteoblast-like cells were seeded onto the substrates and cell alignment was analyzed using immunofluorescence and scanning electron microscopy. There was a significant decrease in alignment of cells on substrates with nanogrooves perpendicular to microgrooves as compared to those with parallel nanogrooves. This research enables cell response to be examined to complex combinations of microscale and nanoscale topography.
Determinations of the trace and minor elements in tin-lead solders by atomic absorption spectrometry (1970)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDeterminations of the trace and minor elements in tin-lead solders by atomic absorption spectrometryJae Young. Hwang and Linda M. SandonatoCite this: Anal. Chem. 1970, 42, 7, 744–747Publication Date (Print):June 1, 1970Publication History Published online1 May 2002Published inissue 1 June 1970https://doi.org/10.1021/ac60289a018RIGHTS & PERMISSIONSArticle Views73Altmetric-Citations11LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (437 KB) Get e-Alertsclose Get e-Alerts
Identification of Podocalyxin-like Protein as a High Endothelial Venule Ligand for L-selectin: Parallels to CD34 (1998)

The leukocyte adhesion molecule, L-selectin, mediates the recruitment of lymphocytes to secondary lymphoid organs via interactions with specific ligands presented on high endothelial venules (HEV). Although the HEV-derived ligands for L-selectin are still incompletely defined, they share a common sialomucin-like structure which is thought to present clustered oligosaccharides to the lectin domain of L-selectin. Podocalyxin-like protein (PCLP) is a transmembrane sialomucin that is similar in structure to the well-characterized L-selectin ligand CD34. PCLP has been shown previously to be expressed on the foot processes of podocytes in the kidney glomerulus as well as on vascular endothelium at some sites. We have determined that PCLP is present on HEV, where it binds to both recombinant L-selectin and the HEV-specific monoclonal antibody MECA-79. Furthermore, purified HEV-derived PCLP is able to support the tethering and rolling of lymphocytes under physiological flow conditions in vitro. These results suggest a novel function for PCLP as an adhesion molecule and allow the definition of conserved structural features in PCLP and CD34, which may be important for L-selectin ligand function.
Evaluation of Passing Distance for Social Robots (2006)

Casual encounters with mobile robots for nonexperts can be a challenge due to lack of an interaction model. The present work is based on the rules from proxemics which are used to design a passing strategy. In narrow corridors the lateral distance of passage is a key parameter to consider. An implemented system has been used in a small study to verify the basic parametric design for such a system. In total 10 subjects evaluated variations in proxemics for encounters with a robot in a corridor setting. The user feedback indicates that entering the intimate sphere of people is less comfortable, however a too significant avoidance is also considered unnecessary. Adequate signaling of avoidance is a behaviour that must be carefully tuned
Dried Plums: A Multi-Functional Bakery Ingredient (1993)

Dried plums are noted for their high content of dietary fiber, carotenes (Vitamin A precursor), iron and potassium (TABLE 1). Their use as ingredients generally results in an enhancement of vitamin, mineral and fiber values. Health authorities (1.2.3) strongly suggest that healthy adults and children over the age of 2 reduce fat intake to 30% or less of total calories, increase dietary fiber to 20-30 grams/day, and increase consumption of fruits, vegetables and grain products. All of this, made especially lucid through the use of U.S.D.A's new Food Pyramid, has resulted in an ideal positioning for combining the benefits of dried plums with those of bakery products.
e-ASPECTS Correlates with and Is Predictive of Outcome after Mechanical Thrombectomy (2017)

The e-ASPECTS correlated with mRS at 3 months and was predictive of unfavorable outcome after mechanical thrombectomy, but further studies in patients with poor scan are needed.
A multiple description speech coder based on AMR-WB for mobile ad hoc networks (2004)

To address the challenging task of achieving effective voice communication over mobile ad hoc networks (MANETs), we introduce a new multiple description (MD) speech coder based on the AMR-WB (adaptive multirate wideband) standard. The MD coder splits the bitstream of the AMR-WB coder into two redundant sub-streams by directly selecting overlapping subsets of encoded data generated for each frame. The sub-streams are transmitted on different network paths. When both sub-streams arrive at the decoder, an output identical to that of AMR-WB is recovered. If only one substream arrives at the decoder, degraded, but still acceptable, speech quality is obtained. The performance of the multiple description coding system is tested for MANETS with a network simulator and an informal listening test. The results demonstrate that this approach makes effective use of the channel capacity and provides reliable end-to-end connections for voice communication in MANETs.
Epidaurus: aggregation and integration analysis of prostate cancer epigenome (2014)

Integrative analyses of epigenetic data promise a deeper understanding of the epigenome. Epidaurus is a bioinformatics tool used to effectively reveal inter-dataset relevance and differences through data aggregation, integration and visualization. In this study, we demonstrated the utility of Epidaurus in validating hypotheses and generating novel biological insights. In particular, we described the use of Epidaurus to (i) integrate epigenetic data from prostate cancer cell lines to validate the activation function of EZH2 in castration-resistant prostate cancer and to (ii) study the mechanism of androgen receptor (AR) binding deregulation induced by the knockdown of FOXA1. We found that EZH2's noncanonical activation function was reaffirmed by its association with active histone markers and the lack of association with repressive markers. More importantly, we revealed that the binding of AR was selectively reprogramed to promoter regions, leading to the up-regulation of hundreds of cancer-associated genes including EGFR. The prebuilt epigenetic dataset from commonly used cell lines (LNCaP, VCaP, LNCaP-Abl, MCF7, GM12878, K562, HeLa-S3, A549, HePG2) makes Epidaurus a useful online resource for epigenetic research. As standalone software, Epidaurus is specifically designed to process user customized datasets with both efficiency and convenience.
Engineering and overexpression of periplasmic forms of the penicillin-binding protein 3 of <i>Escherichia coli</i> (1994)

Replacement of the 36 and 56 N-terminal amino acid residues of the 588-amino-acid-residue membrane-bound penicillin-binding protein 3 (PBP3) of Escherichia coli by the OmpA signal peptide allows export of F37-V577 PBP3 and G57-V577 PBP3 respectively into the periplasm. The modified ftsI genes were placed under the control of the fused lpp promoter and lac promoter/operator; expression of the truncated PBP3s was optimized by varying the copy number of the recombinant plasmids and the amount of LacI repressor, and export was facilitated by increasing the SecB content of the producing strain. The periplasmic PBP3s (yield 8 mg/l of culture) were purified to 70% protein homogeneity. They require the presence of 0.25 M NaCl to remain soluble. Like the membrane-bound PBP3, they undergo processing by elimination of the C-terminal decapeptide I578-S588, they bind penicillin in a 1:1 molar ratio and they catalyse hydrolysis and aminolysis of acyclic thioesters that are analogues of penicillin. The membrane-anchor-free PBP3s have ragged N-termini. The G57-V577 PBP3, however, is less prone to proteolytic degradation than the F37-V577 PBP3.
Combined heart-kidney transplantation: report on six cases (1998)

Combined heart-kidney transplantation from the same donor should be proposed to patients who would qualify for transplantation of each organ within a few years.
Involvement of Flap Endonuclease 1 in Base Excision DNA Repair (1998)

Base excision repair can proceed in either one of two alternative pathways: a DNA polymerase beta-dependent pathway and a proliferating cell nuclear antigen (PCNA)-dependent pathway. Excision of an apurinic/apyrimidinic (AP) site by cutting the phosphate backbone on its 3' side following incision at its 5' side by AP endonuclease is a prerequisite to completion of these repair pathways. Using a reconstituted system with the proteins derived from Xenopus laevis, we found that flap endonuclease 1 (FEN1) was a factor responsible for the excision of a 5'-incised AP site in the PCNA-dependent pathway. In this pathway, DNA synthesis was not required for the action of FEN1 in the presence of PCNA and a replication factor C-containing fraction. The polymerase beta-dependent pathway could also use FEN1 for excision of the synthetic AP sites, which were not susceptible to beta-elimination. In this pathway, FEN1 was functional without PCNA and replication factor C but required the DNA synthesis, which led to a flap structure formation.