Miracle-dz/UniFAR-FTUs huggingface dataset:
Molecular Mechanisms of N-Formyl-Methionyl-Leucyl-Phenylalanine-Induced Superoxide Generation and Degranulation in Mouse Neutrophils: Phospholipase D Is Dispensable

ABSTRACT Phospholipase D (PLD), which produces the lipid messenger phosphatidic acid (PA), has been implicated in superoxide generation and degranulation in neutrophils. The basis for this conclusion is the observation that primary alcohols, which interfere with PLD-catalyzed PA production, inhibit these neutrophil functions. However, off-target effects of primary alcohols cannot be totally excluded. Here, we generated PLD−/− mice in order to reevaluate the involvement of PLD in and investigate the molecular mechanisms of these neutrophil functions. Surprisingly, N-formyl-methionyl-leucyl-phenylalanine (fMLP) induced these functions in PLD−/− neutrophils, and these functions were suppressed by ethanol. These results indicate that PLD is dispensable for these neutrophil functions and that ethanol nonspecifically inhibits them, warning against the use of primary alcohols as specific inhibitors of PLD-mediated PA formation. The calcium ionophore ionomycin and the membrane-permeative compound 1-oleoyl-2-acetyl-sn-glycerol (OADG) synergistically induced superoxide generation. On the other hand, ionomycin alone induced degranulation, which was further augmented by OADG. These results demonstrate that conventional protein kinase C (cPKC) is crucial for superoxide generation, and a Ca2+-dependent signaling pathway(s) and cPKC are involved in degranulation in mouse neutrophils.
Nitrate transporters in leaves and their potential roles in foliar uptake of nitrogen dioxide

While plant roots are specialized organs for the uptake and transport of water and nutrients, the absorption of gaseous or liquid mineral elements by aerial plant parts has been recognized since more than one century. Nitrogen (N) is an essential macronutrient which generally absorbed either as nitrate (NO−3) or ammonium (NH+4) by plant roots. Gaseous nitrogen pollutants like N dioxide (NO2) can also be absorbed by plant surfaces and assimilated via the NO−3 assimilation pathway. The subsequent NO−3 flux may induce or repress the expression of various NO−3-responsive genes encoding for instance, the transmembrane transporters, NO−3/NO−2 (nitrite) reductase, or assimilatory enzymes involved in N metabolism. Based on the existing information, the aim of this review was to theoretically analyze the potential link between foliar NO2 absorption and N transport and metabolism. For such purpose, an overview of the state of knowledge on the NO−3 transporter genes identified in leaves or shoots of various species and their roles for NO−3 transport across the tonoplast and plasma membrane, in addition to the process of phloem loading is briefly provided. It is assumed that a NO2-induced accumulation of NO−3/NO−2 may alter the expression of such genes, hence linking transmembrane NO−3 transporters and foliar uptake of NO2. It is likely that NRT1/NRT2 gene expression and species-dependent apoplastic buffer capacity may be also related to the species-specific foliar NO2 uptake process. It is concluded that further work focusing on the expression of NRT1 (NRT1.1, NRT1.7, NRT1.11, and NRT1.12), NRT2 (NRT2.1, NRT2.4, and NRT2.5) and chloride channel family genes (CLCa and CLCd) may help us elucidate the physiological and metabolic response of plants fumigated with NO2.
Design and Application of a Novel Dielectric Loaded Helical Antenna to WLAN Products

BST dielectric loaded helical antenna designed here was found to be as good to operate on WLAN products. Characteristics of the new dielectric material Barium Strontium Titanate (BST) also known as Dielectric Resonator had helped maintained the antenna overall performance in terms of bandwidth, radiation pattern, gain and efficiency. Work done here was modeled and simulated using Computer Simulation technology Microwave Studio (CVST MW) software. The outcome shows good results after analyzing all of the fundamental scattering parameters. The gain obtained is around 6.745dB while attaining nearly 90 percent total efficiency. Its strongest signal is at the horizontal or azimuth position. This antenna could be deployed if another Wireless Local Area Network Access Point (AP) was radiating mostly at the elevation position and need to avoid signal loss when mounted on wall ceilings.
Transparent, lightweight application execution replay on commodity multiprocessor operating systems

We present Scribe, the first system to provide transparent, low-overhead application record-replay and the ability to go live from replayed execution. Scribe introduces new lightweight operating system mechanisms, rendezvous and sync points, to efficiently record nondeterministic interactions such as related system calls, signals, and shared memory accesses. Rendezvous points make a partial ordering of execution based on system call dependencies sufficient for replay, avoiding the recording overhead of maintaining an exact execution ordering. Sync points convert asynchronous interactions that can occur at arbitrary times into synchronous events that are much easier to record and replay. We have implemented Scribe without changing, relinking, or recompiling applications, libraries, or operating system kernels, and without any specialized hardware support such as hardware performance counters. It works on commodity Linux operating systems, and commodity multi-core and multiprocessor hardware. Our results show for the first time that an operating system mechanism can correctly and transparently record and replay multi-process and multi-threaded applications on commodity multiprocessors. Scribe recording overhead is less than 2.5% for server applications including Apache and MySQL, and less than 15% for desktop applications including Firefox, Acrobat, OpenOffice, parallel kernel compilation, and movie playback.
Sequential stamen maturation and movement in a protandrous herb: mechanisms increasing pollination efficiency and reducing sexual interference

Successive stamen movement directly controls pollen presentation schedules through sequential stamen maturation and changes the extent of herkogamy by altering the positions of sexual organs. We conducted floral manipulations to determine the function of successive stamen movement in pollen transfer. Our study supports the pollen presentation theory and provides direct experimental evidence that successive stamen movement could increase pollen transfer efficiency by sequential stamen maturation. On the other hand, movement herkogamy promotes pollen export, deposition and seed set, and could therefore be regarded as an effective mechanism to reduce interference between male and female functions.
Virologic characteristics of subclinical and symptomatic genital herpes infections.

BACKGROUND The frequency, pattern, and anatomical sites of subclinical shedding of herpes simplex virus (HSV) in the genital tract, along with factors that predict such shedding, have not been well characterized. METHODS We studied prospectively the clinical and virologic course of genital herpes in 110 women. The women kept symptom diaries and provided daily samples from the vulva, cervix, and rectum for viral culture. RESULTS During a median follow-up of 105 days, subclinical shedding of virus was identified in 36 of 65 women (55 percent) with HSV type 2 (HSV-2), in 16 of 31 women (52 percent) with HSV type 1 (HSV-1) and HSV-2, and in 4 of 14 women (29 percent) with only HSV-1. Among women with genital HSV-2 infection, subclinical shedding occurred on a mean of 2 percent of the days. The mean duration of viral shedding during subclinical episodes was 1.5 days, as compared with 1.8 days during symptomatic episodes. HSV was isolated from several sites in the genital tract and rectum in 17 percent of subclinical episodes and 22 percent of symptomatic episodes. Half the episodes of subclinical shedding of HSV occurred within seven days of a symptomatic recurrence. The risk of subclinical shedding increased with the frequency of symptomatic recurrences. Subclinical shedding was more frequent among women with more than 12 recurrences per year than among those with no symptomatic recurrences (odds ratio, 3.3; 95 percent confidence interval, 1.4 to 7.9); it was also more frequent among women who had recently acquired genital herpes (odds ratio for women with HSV acquired in the past year as compared with those who had had the infection for a year or more, 1.85; 95 percent confidence interval, 1.1 to 3.1). CONCLUSIONS Among women with a history of genital herpes infection, subclinical shedding of HSV is common and accounts for nearly one third of the total days of reactivation of HSV infection in the genital tract. Women with frequent symptomatic recurrences also have frequent subclinical shedding and may be at high risk for transmitting HSV.
Single-Channel Properties of Inositol (1,4,5)-Trisphosphate Receptor Heterologously Expressed in HEK-293 Cells

The inositol (1,4,5)-trisphosphate receptor (InsP3R) mediates Ca2+ release from intracellular stores in response to generation of second messenger InsP3. InsP3R was biochemically purified and cloned, and functional properties of native InsP3-gated Ca2+ channels were extensively studied. However, further studies of InsP3R are obstructed by the lack of a convenient functional assay of expressed InsP3R activity. To establish a functional assay of recombinant InsP3R activity, transient heterologous expression of neuronal rat InsP3R cDNA (InsP3R-I, SI− SII+ splice variant) in HEK-293 cells was combined with the planar lipid bilayer reconstitution experiments. Recombinant InsP3R retained specific InsP3 binding properties (K d = 60 nM InsP3) and were specifically recognized by anti–InsP3R-I rabbit polyclonal antibody. Density of expressed InsP3R-I was at least 20-fold above endogenous InsP3R background and only 2–3-fold lower than InsP3R density in rat cerebellar microsomes. When incorporated into planar lipid bilayers, the recombinant InsP3R formed a functional InsP3-gated Ca2+ channel with 80 pS conductance using 50 mM Ba2+ as a current carrier. Mean open time of recombinant InsP3-gated channels was 3.0 ms; closed dwell time distribution was double exponential and characterized by short (18 ms) and long (130 ms) time constants. Overall, gating and conductance properties of recombinant neuronal rat InsP3R-I were very similar to properties of native rat cerebellar InsP3R recorded in identical experimental conditions. Recombinant InsP3R also retained bell-shaped dependence on cytosolic Ca2+ concentration and allosteric modulation by ATP, similar to native cerebellar InsP3R. The following conclusions are drawn from these results. (a) Rat neuronal InsP3R-I cDNA encodes a protein that is either sufficient to produce InsP3-gated channel with functional properties identical to the properties of native rat cerebellar InsP3R, or it is able to form a functional InsP3-gated channel by forming a complex with proteins endogenously expressed in HEK-293 cells. (b) Successful functional expression of InsP3R in a heterologous expression system provides an opportunity for future detailed structure–function characterization of this vital protein.
Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome.

Processed pseudogenes were created by reverse-transcription of mRNAs; they provide snapshots of ancient genes existing millions of years ago in the genome. To find them in the present-day human, we developed a pipeline using features such as intron-absence, frame-disruption, polyadenylation, and truncation. This has enabled us to identify in recent genome drafts approximately 8000 processed pseudogenes (distributed from http://pseudogene.org). Overall, processed pseudogenes are very similar to their closest corresponding human gene, being 94% complete in coding regions, with sequence similarity of 75% for amino acids and 86% for nucleotides. Their chromosomal distribution appears random and dispersed, with the numbers on chromosomes proportional to length, suggesting sustained "bombardment" over evolution. However, it does vary with GC-content: Processed pseudogenes occur mostly in intermediate GC-content regions. This is similar to Alus but contrasts with functional genes and L1-repeats. Pseudogenes, moreover, have age profiles similar to Alus. The number of pseudogenes associated with a given gene follows a power-law relationship, with a few genes giving rise to many pseudogenes and most giving rise to few. The prevalence of processed pseudogenes agrees well with germ-line gene expression. Highly expressed ribosomal proteins account for approximately 20% of the total. Other notables include cyclophilin-A, keratin, GAPDH, and cytochrome c.
DBMS on modern storage hardware

In the present tutorial we perform a cross-cut analysis of database systems from the perspective of modern storage technology, namely Flash memory. We argue that neither the design of modern DBMS, nor the architecture of Flash storage technologies are aligned with each other. The result is needlessly suboptimal DBMS performance and inefficient Flash utilisation as well as low Flash storage endurance and reliability. We showcase new DBMS approaches with improved algorithms and leaner architectures, designed to leverage the properties of modern storage technologies. We cover the area of transaction management and multi-versioning, putting a special emphasis on: (i) version organisation models and invalidation mechanisms in multi-versioning DBMS; (ii) Flash storage management especially on append-based storage in tuple granularity; (iii) Flash-friendly buffer management; as well as (iv) improvements in the searching and indexing models. Furthermore, we present our NoFTL approach to native Flash access that integrates parts of the Flash-management functionality into the DBMS yielding significant performance increase and simplification of the I/O stack. In addition, we cover the basics of building large Flash storage for DBMS and revisit some of the RAID techniques and principles.
Real-time PCR assays targeting a unique chromosomal sequence of Yersinia pestis.

BACKGROUND Yersinia pestis, the causative agent of the zoonotic infection plague, is a major concern as a potential bioweapon. Current real-time PCR assays used for Y. pestis detection are based on plasmid targets, some of which may generate false-positive results. METHODS Using the yp48 gene of Y. pestis, we designed and tested 2 real-time TaqMan minor groove binder (MGB) assays that allowed us to use chromosomal genes as both confirmatory and differential targets for Y. pestis. We also designed several additional assays using both Simple-Probe and MGB Eclipse probe technologies for the selective differentiation of Yersinia pseudotuberculosis from Y. pestis. These assays were designed around a 25-bp insertion site recently identified within the yp48 gene of Y. pseudotuberculosis. RESULTS The Y. pestis-specific assay distinguished this bacterium from other Yersinia species but had unacceptable low-level detection of Y. pseudotuberculosis, a closely related species. Simple-Probe and MGB Eclipse probes specific for the 25-bp insertion detected only Y. pseudotuberculosis DNA. Probes that spanned the deletion site detected both Y. pestis and Y. pseudotuberculosis DNA, and the 2 species were clearly differentiated by a post-PCR melting temperature (Tm) analysis. The Simple-Probe assay produced an almost 7 degrees C Tm difference and the MGB Eclipse probe a slightly more than 4 degrees C difference. CONCLUSIONS Our method clearly discriminates Y. pestis DNA from all other Yersinia species tested and from the closely related Y. pseudotuberculosis. These chromosomal assays are important both to verify the presence of Y. pestis based on a chromosomal target and to easily distinguish it from Y. pseudotuberculosis.
The Complete Chloroplast Genome Sequences of the Medicinal Plant Forsythia suspensa (Oleaceae)

Forsythia suspensa is an important medicinal plant and traditionally applied for the treatment of inflammation, pyrexia, gonorrhea, diabetes, and so on. However, there is limited sequence and genomic information available for F. suspensa. Here, we produced the complete chloroplast genomes of F. suspensa using Illumina sequencing technology. F. suspensa is the first sequenced member within the genus Forsythia (Oleaceae). The gene order and organization of the chloroplast genome of F. suspensa are similar to other Oleaceae chloroplast genomes. The F. suspensa chloroplast genome is 156,404 bp in length, exhibits a conserved quadripartite structure with a large single-copy (LSC; 87,159 bp) region, and a small single-copy (SSC; 17,811 bp) region interspersed between inverted repeat (IRa/b; 25,717 bp) regions. A total of 114 unique genes were annotated, including 80 protein-coding genes, 30 tRNA, and four rRNA. The low GC content (37.8%) and codon usage bias for A- or T-ending codons may largely affect gene codon usage. Sequence analysis identified a total of 26 forward repeats, 23 palindrome repeats with lengths >30 bp (identity > 90%), and 54 simple sequence repeats (SSRs) with an average rate of 0.35 SSRs/kb. We predicted 52 RNA editing sites in the chloroplast of F. suspensa, all for C-to-U transitions. IR expansion or contraction and the divergent regions were analyzed among several species including the reported F. suspensa in this study. Phylogenetic analysis based on whole-plastome revealed that F. suspensa, as a member of the Oleaceae family, diverged relatively early from Lamiales. This study will contribute to strengthening medicinal resource conservation, molecular phylogenetic, and genetic engineering research investigations of this species.
Groupwise successive ICI cancellation for OFDM systems in time-varying channels

Orthogonal frequency division multiplexing (OFDM) is known as a promising technique for data transmission over broadband wireless communication channels. However, bit error rate (BER) performance of OFDM deteriorates significantly in time-varying channels due to presence of inter-channel interference (ICI). Previous works proposed time or frequency domain equalizers to reduce the effect of ICI. In this paper, we consider a combination of equalization and interference cancellation techniques to obtain better BER performance of OFDM in time-varying channels. Particularly, we propose a combined scheme of frequency domain minimum mean square error (MMSE) equalization and successive interference cancellation. A groupwise processing algorithm, which detects a group of subchannels in one iteration, is proposed to reduce the processing delay due to iterative successive cancellation. With the same third order of complexity, the proposed scheme provides large BER improvement over the conventional MMSE equalizer
[Study on dosage-toxicity/efficacy relationship of prepared rhubarb on basis of symptom-based prescription theory].

OBJECTIVE To investigate the dosage-efficacy/toxicity relationship of prepared rhubarb, in order to explore the bidirectional effects in hepatoprotection and hepatotoxicity of prepared rhubarb and the objective authenticity for attenuating toxicity by processing. METHOD Normal and pathological animals were adopted simultaneous to investigate the effect of total extracts from prepared rhubarb within a high dose range (2.0, 5.4, 14.7, 40.0 g x kg(-1) x d(-1)) on normal state, biochemical index and histopathology of experimental animals. The factor analytic approach was used to analyze the dosage-efficacy/toxicity relationship of prepared rhubarb. RESULT The factor analytic approach was used to extract two common factors from the nine biochemical indexes. The firs common factor was mainly dominated by HA, LN and TGF-β1, and could be explained as fibrotic factors. The second common factor was mainly dominated by ALT, AST and ALP, and could be explained as cellular factor. The results of the factor analysis suggested that prepared rhubarb showed significant bidirectional effects in hepatoprotection and hepatotoxicity, which could protect liver in CC14 injured chronic hepatic injury, but had a certain hepatotoxic effect to normal animals. The pathological examination showed consistent results with the factor analysis. Under comparable dosages, prepared rhubarb showed a stronger liver protecting effect than crude rhubarb, with a lower toxicity. CONCLUSION Although prepared rhubarb has a certain hepatotoxic effect to normal animals, it has also a significant therapeutic effect to animals with liver injury. The results proved the symptom-based prescription theory and the scientificity of the symptom-based medication. The symptom-based prescription theory is important to correctly realize the dosage-efficacy/toxicity relationship of traditional Chinese medicines and guide the symptom-based medication.
Analytic Methods for Adjusting Subjective Rating Schemes.

Abstract : Subjective evaluations of individual performances by supervisors are subject to bias. This report develops statistical and econometric techniques for correcting biases in models of individual performance using a variant of the Classical linear regression model. A multi-scale model is proposed to deal with two types of bias: location bias when an individual's performance is systematically overestimated or underestimated, and scale bias when differences among individuals rated are exaggerated or minimized. Several specific multi- scale estimating techniques are developed, and multi-scale estimators are applied to the problem of estimating the cost of on-the-job training in the military.
The Inhibition of Anti-DNA Binding to DNA by Nucleic Acid Binding Polymers

Antibodies to DNA (anti-DNA) are the serological hallmark of systemic lupus erythematosus (SLE) and can mediate disease pathogenesis by the formation of immune complexes. Since blocking immune complex formation can attenuate disease manifestations, the effects of nucleic acid binding polymers (NABPs) on anti-DNA binding in vitro were investigated. The compounds tested included polyamidoamine dendrimer, 1,4-diaminobutane core, generation 3.0 (PAMAM-G3), hexadimethrine bromide, and a β-cylodextrin-containing polycation. As shown with plasma from patients with SLE, NABPs can inhibit anti-DNA antibody binding in ELISA assays. The inhibition was specific since the NABPs did not affect binding to tetanus toxoid or the Sm protein, another lupus autoantigen. Furthermore, the polymers could displace antibody from preformed complexes. Together, these results indicate that NABPs can inhibit the formation of immune complexes and may represent a new approach to treatment.
Predicting Session Length in Media Streaming

Session length is a very important aspect in determining a user's satisfaction with a media streaming service. Being able to predict how long a session will last can be of great use for various downstream tasks, such as recommendations and ad scheduling. Most of the related literature on user interaction duration has focused on dwell time for websites, usually in the context of approximating post-click satisfaction either in search results, or display ads. In this work we present the first analysis of session length in a mobile-focused online service, using a real world data-set from a major music streaming service. We use survival analysis techniques to show that the characteristics of the length distributions can differ significantly between users, and use gradient boosted trees with appropriate objectives to predict the length of a session using only information available at its beginning. Our evaluation on real world data illustrates that our proposed technique outperforms the considered baseline.