gebhart/patrepeval huggingface dataset:
Microbial metagenome of urinary tract infection (2017)

Abstract Urine culture and microscopy techniques are used to profile the bacterial species present in urinary tract infections. To gain insight into the urinary flora in infection and health, we analyzed clinical laboratory features and the microbial metagenome of 121 clean-catch urine samples. 16S rDNA gene signatures were successfully obtained for 116 participants, while whole genome shotgun sequencing data was successfully generated for samples from 49 participants. Analysis of these datasets supports the definition of the patterns of infection and colonization/contamination. Although 16S rDNA sequencing was more sensitive, whole genome shotgun sequencing allowed for a more comprehensive and unbiased representation of the microbial flora, including eukarya and viral pathogens, and of bacterial virulence factors. Urine samples positive by whole genome shotgun sequencing contained a plethora of bacterial (median 41 genera/sample), eukarya (median 2 species/sample) and viral sequences (median 3 viruses/sample). Genomic analyses revealed cases of infection with potential pathogens (e.g., Alloscardovia sp, Actinotignum sp , Ureaplasma sp ) that are often missed during routine urine culture due to species specific growth requirements. We also observed gender differences in the microbial metagenome. While conventional microbiological methods are inadequate to identify a large diversity of microbial species that are present in urine, genomic approaches appear to comprehensively and quantitatively describe the urinary microbiome.
Synthetic approaches toward mitomycins: synthesis of the decarbamoyloxymitomycin derivative (1990)

S. Nakajima, K. Yoshida, M. Mon, Y. Ban and M. Shibasaki, J. Chem. Soc., Chem. Commun., 1990, 468 DOI: 10.1039/C39900000468
ChemInform Abstract: “syn‐Effect” in Nucleophilic Addition of Amines to 1,3‐Dienyl Sulfone and Ethyl (E)‐2,4‐Pentadienoate. (2008)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Solid-state dual-frequency laser free from anti-phase noise (2013)

We experimentally demonstrate how the proper design of a two polarization dual-frequency solid-state laser allows to get rid of the anti-phase noise in the simplest possible architecture and without using any electronic or optical feedback loop. This design is based on an appropriate choice of the active medium cut and orientation in order to assign two almost independent families of active atoms to the two laser modes.
Crossing Guard (2017)

Specialized hardware accelerators have performance and energy-efficiency advantages over general-purpose processors. To fully realize these benefits and aid programmability, accelerators may share a physical and virtual address space and full cache coherence with the host system. However, allowing accelerators -- particularly those designed by third parties -- to directly communicate with host coherence protocols poses several problems. Host coherence protocols are complex, vary between companies, and may be proprietary, increasing burden on accelerator designers. Bugs in the accelerator implementation may cause crashes and other serious consequences to the host system. We propose Crossing Guard , a coherence interface between the host coherence system and accelerators. The Crossing Guard interface provides the accelerator designer with a standardized set of coherence messages that are simple enough to aid in design of bug-free coherent caches. At the same time, they are sufficiently complex to allow customized and optimized accelerator caches with performance comparable to using the host protocol. The Crossing Guard hardware is implemented as part of the trusted host, and provides complete safety to the host coherence system, even in the presence of a pathologically buggy accelerator cache.
Outsourced or outsmarted? (2005)

Last month, we explored some of the security issues involved in outsourcing, in general; this month, we will explore some issues involved in outsourcing security itself.
Combining prospective and retrospective motion correction based on a model for fast continuous motion (2021)

The combined correction results in better images than pure PMC in the presence of fast motion. The predictions of artifacts are very accurate, allowing for comparing sequences or protocols in simulations. The observed artifacts due to Nyquist violations are expected to be corrected by utilizing parallel imaging.
Development of Non-Gel-Based Two-Dimensional Separation of Intact Proteins by an On-Line Hyphenation of Capillary Isoelectric Focusing and Hollow Fiber Flow Field-Flow Fractionation (2006)

A rapid, non-gel-based, on-line, two-dimensional separation method is introduced for proteome analysis. Protein fractionation was carried out by first exploiting the differences in their respective isoelectric points (pI) in a Teflon capillary using isoelectric focusing (IEF), followed by a molecular weight (MW)-based separation in a hollow fiber by flow field-flow fractionation (FlFFF). The method developed here (CIEF-HFFlFFF) may be a powerful alternative to two-dimensional polyacrylamide gel electrophoresis, which is currently used for the separation and purification of proteins. In CIEF-HFFlFFF, proteins can be collected as a fraction of a certain pI and MW interval without being denatured. Additionally, the ampholyte solution is simultaneously removed during separation in the hollow fiber, and the overall process time is significantly reduced. This method was applied to a human urinary proteome sample, leading to the identification of 114 proteins with the subsequent off-line use of nanoflow liquid chromatography-tandem mass spectrometry after the tryptic digestion of each collected protein fraction.
Convolutional Networks for Object Category and 3D Pose Estimation from 2D Images (2017)

Current CNN-based algorithms for recovering the 3D pose of an object in an image assume knowledge about both the object category and its 2D localization in the image. In this paper, we relax one of these constraints and propose to solve the task of joint object category and 3D pose estimation from an image assuming known 2D localization. We design a new architecture for this task composed of a feature network that is shared between subtasks, an object categorization network built on top of the feature network, and a collection of category dependent pose regression networks. We also introduce suitable loss functions and a training method for the new architecture. Experiments on the challenging PASCAL3D+ dataset show state-of-the-art performance in the joint categorization and pose estimation task. Moreover, our performance on the joint task is comparable to the performance of state-of-the-art methods on the simpler 3D pose estimation with known object category task.
Sequence Analysis of a New Short Tandem Repeat Locus D17S2266E Located in the Human Growth Hormone Gene Cluster HumGH@* (2008)

D17S2266E is a new, variable genetic marker exhibiting polymorphism of the number of repeats of four- and two-nucleotide motifs. This study, carried out on a group of 250 unrelated persons from various regions of Poland, revealed the presence of 24 different alleles ranging in size from 232 to 290 base pairs. Analysis of the sequenced fragments demonstrated that the alleles consisted of two flanking regions and two variable blocks that were separated by a consensus sequence. There were (AAAG)(5)(AG)(1)(AAAG)(3-4) repeats in the first block, and [(AAAG)(2)(AG)(1)](0-1)[(AAAG)(6)(AG)(1)](0-1)(AAAG)(n) repeats in the second block. On the basis of the allele frequencies in the population, we were able to do biostatistical calculations, which gave the following results: expected heterozygosity 0.8947 +/- 0.0137, power of discrimination 0.9793, polymorphism information content 0.8837, probability of exclusion (PE) 0.7859, PE for motherless cases 0.6473, and an average paternity index of 4.7470. These biostatistical parameters show that the marker D17S2266E can find a wide range of applications in forensic testing.
Robust norms for selected neuropsychological tests in older adults (2008)

The current study provided longitudinal robust norms for individuals age 70 years and older for several neuropsychological tests. We compared baseline neuropsychological test performance in three groups free of dementia at baseline: a robust normative sample free of dementia for at least two post-follow-up assessments, an incident dementia sample which developed new onset dementia during the follow-up and a lost to follow-up (LTF) sample. ANCOVAs showed that the robust sample performed better on all neuropsychological tests compared to the incident dementia and LTF samples. These findings support the argument that individuals in transition to developing dementia may reduce the mean, increase the variability and therefore underestimate cognitive performance in normal aging. We suggest that longitudinal robust norms may help mitigate the limitations inherent in cross-sectional normative samples.
Concentration theorem for tri-partite LDPC codes (2004)

This paper presents the framework of tripartite LDPC codes and more than a single coded bit affects its channel outputs. Symbol-nodes along with variable-nodes and check-nodes of the graph of an LDPC codes is used to represent a third set of nodes in channel output. Thus the concentration theorem is considered in this framework, which optimizes the average performance of the codes and the design criterion is meaningful for a randomly chosen sample from the ensemble of LDPC codes.
Targeted Delivery of Fluorescent High‐Mannose‐Type Oligosaccharide Cathepsin Inhibitor Conjugates (2015)

Three fluorescent cathepsin inhibitor glycoconjugates have been designed, synthesized, and evaluated in terms of their cell internalization and cathepsin inhibitory properties. The conjugates are composed of a peptide epoxysuccinate, capable of covalent and irreversible binding to cysteine proteases, coupled to a fluorescent BODIPY dye and functionalized with a mono-, tri-, or heptamannoside. Mannose-receptor-dependent uptake of the probes in live dendritic cells is shown to depend on the type of carbohydrate attached. Where uptake of the monomannoside is poor and mannose-receptor-independent, the intracellular labeling of cathepsins by the probes equipped with a tri- or heptamannoside conjugate appeared concentration- and mannose-receptor-dependent.
Fatigue crack growth monitoring at elevated temperatures using multiplexed Fiber Bragg Gratings (2009)

Light-weight and multiplexable, Fiber Bragg Grating (FBG) optical sensors allow the integration of many sensors along a single electrically passive and electromagnetic interference immune optical fiber. In this paper, we describe the use of multiple FBGs for monitoring and early stage detection of fatigue crack growth. We provide experimental results over a range of temperatures for fatigue crack monitoring in titanium alloy specimens subjected to periodic loading for tens of thousands of cycles and demonstrate detection of early-stage fatigue crack extension.
Synthesis of Cycloalkanones from Dienes and Allylamines through CbH and CbC Bond Activation Catalyzed by a Rhodium(I) Complex This work was supported by the National Research Laboratory Program (2000-N-NL-01-C-271) administered by Ministry of Science and Technology, and by the Korean Science and Engineering Foundation (20004010). (2002)

Maskierter Formaldehyd: Das Allylamin 1 lässt sich bei der Rhodium-katalysierten Cyclisierung von Dienen des Typs 2 als maskierte Form von Formaldehyd verwenden. Die Reaktion, die die entsprechenden Cycloalkanone 3 zugänglich macht, verläuft über Chelat-kontrollierte C-H- und C-C-Bindungsaktivierung. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2001/2002/z19011_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Melanosis Oculi (1983)

The iris of a patient with melanosis oculi was studied, using the transmission electron microscope. An unusual form of macromelanosome was found within the cytoplasm of stromal melanocytes. It is possible that these structures were formed as a result of inappropriate production of the individual subunits of the melanosome. Their presence within stromal melanocytes, but not within the cells of the posterior pigment epithelium, was in keeping with the hypothesis that melanosis oculi is a disorder of melanocytes derived from neural crest.
A STUDY OF LIPID PROFILES IN PATIENTS OF TYPE 2 DIABETES MELLITUS (2016)

BACKGROUND&#13;\nThe pattern of dyslipidaemia varies among the patients of type 2 diabetes mellitus. The purpose of the present study is to find&#13;\nlipid abnormalities in type 2 Diabetes Mellitus patients, which is the important factor causing atherosclerosis and cardiovascular&#13;\ndiseases.&#13;\nMATERIALS AND METHODS&#13;\nThis cross-sectional comparative study was conducted in 100 patients attending the OPD of Department of Medicine at Jhalawar&#13;\nMedical College Hospital, Jhalawar (Rajasthan) from July 2015 to Dec 2015. Random sampling (Allocation) method was used&#13;\nand data assessed in a prospective manner. Fasting Blood Sugar, Postprandial Blood Sugar (FBS, PPBS), Lipid profile,&#13;\nTriglyceride (TG), Low-Density Lipoprotein (LDL), High-Density Lipoprotein (HDL), Total Cholesterol (TC), were measured.&#13;\nStatistical analysis were performed.&#13;\nRESULTS&#13;\nA total number of 100 patients type 2 Diabetes Mellitus (52 males and 48 females) attending OPD were recruited in this study.&#13;\nTG levels were (195.92±5.42 and 184.31±7.86) in male and female respectively with significant difference between the genders&#13;\n(P&lt;0.0001). Total cholesterol in male and female (164.25±3.15 and 183.45±4.22), respectively. Low-Density Lipoprotein (LDL)&#13;\nin male and female was (98.66±2.36 and 113.68±2.56), respectively. High-Density Lipoprotein was in male and female&#13;\n(38.28±4.7) and (39.35±2.57), respectively.&#13;\nCONCLUSION&#13;\nIn conclusion, dyslipidaemia were observed in a greater proportion in both genders more in female type 2 diabetes mellitus&#13;\npatients than male type 2 diabetes mellitus patients.&#13;\n
Follow-Up Analysis of Genome-Wide Association Data Identifies Novel Loci for Type 1 Diabetes (2008)

Evaluation of a large number of statistical GWA candidates in several independent cohorts has revealed additional loci that are associated with type 1 diabetes. The two genes at these respective loci, UBASH3A and BACH2, are both biologically relevant to autoimmunity.
Structure of lipid multilayers<i>via</i>drop casting of aqueous liposome dispersions (2016)

Liposomes serve as a lipid delivery matrix and a structural precursor, facilitating solid-supported lipid multilayer formation<italic>via</italic>simple drop casting.
14‐3‐3ζ escorts CCTα for calcium‐activated nuclear import in lung epithelia (2009)

Integrity of animal biomembranes is critical to preserve normal cellular functions and viability. Phosphatidylcholine, an indispensible membrane component, requires the enzyme CCTalpha for its biosynthesis. Nuclear expression of CCTalpha is needed for expansion of the nuclear membrane network, but mechanisms for CCTalpha nuclear import are unknown. Herein, we show that in epithelia, extracellular Ca(2+) triggers CCTalpha cytoplasmic-nuclear translocation. CCTalpha nuclear import was associated with binding to 14-3-3zeta, a key regulator of protein trafficking. 14-3-3zeta was both sufficient and required for CCTalpha nuclear import. Helix G within the 14-3-3zeta binding groove interacts with a putative molecular signature within the CCTalpha carboxyl-terminal phosphoserine motif (residues 328-343). 14-3-3zeta was critically involved in preserving phosphatidylcholine synthesis and cell viability in a model of Pseudomonas aeruginosa infection where Ca(2+) concentrations increase within epithelia. Thus, 14-3-3zeta controls CCTalpha nuclear import in response to calcium signals, thereby regulating mammalian phospholipid synthesis. Agassandian, M., Chen, B. B., Schuster, C. C., Houtman, J. C. D., Mallampalli, R. K. 14-3-3zeta escorts CCTalpha for calcium-activated nuclear import in lung epithelia.
Fabrication of long-acting insulin formulation based on poly (3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) nanoparticles: preparation, optimization, characterization, and <i>in vitro</i> evaluation (2018)

The purpose of this research was the fabrication, statistical optimization, and in vitro characterization of insulin-loaded poly(hydroxybutyrate-co-hydroxyvalerate) (PHBV) nanoparticles (INS-PHBV-NPs). Nanopar-ticles were successfully developed by double emulsification solvent evaporation method. The NPs were characterized for particle size, entrapment efficiency (EE%), and polydispersity index (PDI). The NPs also were characterized by scanning electron microscopy (SEM), Fourier transformed infrared spectroscopy (FTIR), X-ray diffraction (XRD), differential scanning calorimetry (DSC), and circular dichroism (CD). The optimum conditions were found to be 1.6% polyvinyl alcohol (PVA), 0.9% of PHBV, and 15 mg/ml of insulin with the aid of the Box-Behnken experimental design results. The optimized NPs showed spherical shape with particle size of 250.21 ± 11.37 nm, PDI of 0.12 ± 0.01, and with EE% of 90.12 ± 2.10%. In vitro drug release pattern followed Korsmeyer-Peppas model and exhibited an initial burst release of 19% with extended drug release of 63.2% from optimized NPs within 27 d. In conclusion, these results suggest that INS-PHBV-NPs could be a promising candidate for designing an injectable sustained release formulation for insulin.
Genetic Analysis of a Duck Circovirus Detected in Commercial Pekin Ducks in New York (2007)

The genetic organization of the duck circovirus (DuCV) 33753-52 detected in commercial Pekin duck flocks from Long Island, NY, is described. The nucleotide sequence of virus 33753-52 exhibited high similarity with DuCVs previously detected in Germany and Hungary. It is possible that this DuCV from New York shares the same ancestor with the European counterparts. The virus 33753-52 exhibited genetic features characteristic of other circoviruses, such as the presence of two major open reading frames (rep and cap), two intergenic regions, one stem-loop structure, four intergenic direct repeats, and the conserved motifs for the rolling circle replication and for the dNTP binding domain in the Rep protein. This report is the first report of the presence of DuCV in commercial Pekin duck farms in the United States. The clinical and pathologic significance of DuCV in the duck farms located on Long Island needs to be clarified. DuCv was detected in culled birds, due to low body development, leg deformities, or arthritis. Staphylococcus aureus and Riemerella anatipestifer serotype 4 were isolated from some of the DuCV-positive birds. The apparent low prevalence of the virus suggests that at this time, this infection is not a significant problem for the duck industry in New York. However, the immunosuppressive properties of this virus need to be clarified as well as its role as a predisposing agent for other diseases.
Cells That Overproduce Protein Kinase C Are More Susceptible to Transformation by an Activated <i>H-ras</i> Oncogene (1989)

We recently developed rat fibroblast cell lines that stably overproduce high levels of the beta 1 form of protein kinase C (PKC). These cells display several disorders in growth control and form small microscopic colonies in agar. In the present study we demonstrate that one of these cell lines, R6-PKC3, is extremely susceptible to transformation by an activated human bladder cancer c-H-ras oncogene (T24). Compared with control cell line R6-C1, T24-transfected R6-PKC3 cells yielded a 10-fold increase in the formation of large colonies in agar. Cell lines established from these colonies displayed a highly transformed morphology, expressed the T24-encoded p21 ras protein, continued to express high levels of PKC, and were highly tumorigenic in nude mice. These results provide genetic evidence that PKC mediates some of the effects of the c-H-ras oncogene on cell transformation. Data are also presented suggesting that optimum synergistic effects between c-H-ras and PKC require critical levels of their respective activities. These findings may be relevant to the process of multistage carcinogenesis in tissues containing cells with an activated c-H-ras oncogene.
Linear Cavity Erbium-Doped Fibre Laser with Tunable Wavelength Range of 112 nm (2002)

We report on a linear cavity erbium-doped fibre laser with a large tuning range of 1509-1621 nm. We obtain a 1 dB flat tuning range of 1538-1613 nm and a 3 dB tuning range of 1516-1621 nm. The threshold at 1580 nm is 6.1 mW, the Mope efficiency is 0.193 and the output power is 18.2 mW, when 100 mW pump power at 1480 nm is provided. High signal-to-noise ratios of better than 60 dB are achieved within all the tuning ranges.
Research on the Integration and Transition of Pareto Principle and Long Tail Theory (2011)

Long tail theory doesn’t replace Pareto principle. On the contrary, both of them operate in the economics of abundance. In the condition of abundant products, the adaptability and importance increase for Pareto principle. Meanwhile, the long tail effect brought by abundant economy can not be ignored. The effect includes increased “hot” products, “hot” products converted from “cold” products, the long tail turning to be longer and fatter and the curve of long tail turning to be smoother. The application of long tail theory instead of Pareto principle needs to lower production cost and transition cost, effective search and massive customized production. Key words: Pareto principle; Long tail theory; The economics of abundance; Integration; Transition
Electricity Market Forecasting via Low-Rank Multi-Kernel Learning (2014)

The smart grid vision entails advanced information technology and data analytics to enhance the efficiency, sustainability, and economics of the power grid infrastructure. Aligned to this end, modern statistical learning tools are leveraged here for electricity market inference. Day-ahead price forecasting is cast as a low-rank kernel learning problem. Uniquely exploiting the market clearing process, congestion patterns are modeled as rank-one components in the matrix of spatio-temporally varying prices. Through a novel nuclear norm-based regularization, kernels across pricing nodes and hours can be systematically selected. Even though market-wide forecasting is beneficial from a learning perspective, it involves processing high-dimensional market data. The latter becomes possible after devising a block-coordinate descent algorithm for solving the non-convex optimization problem involved. The algorithm utilizes results from block-sparse vector recovery and is guaranteed to converge to a stationary point. Numerical tests on real data from the Midwest ISO (MISO) market corroborate the prediction accuracy, computational efficiency, and the interpretative merits of the developed approach over existing alternatives.
IEEE 2020 World Congress on Services Welcome Message from the Women in Services Computing Symposium Chair (2020)

Presents the introductory welcome message from the conference proceedings. May include the conference officers' congratulations to all involved with the conference event and publication of the proceedings record.