Miracle-dz/UniFAR-FTUs huggingface dataset:
Interleukin-1beta and TNF-alpha act in synergy to inhibit longitudinal growth in fetal rat metatarsal bones.

UNLABELLED We hypothesized that pro-inflammatory cytokines can act locally in the growth plate to impair longitudinal growth. In a model of cultured fetal rat metatarsal bones, we found that IL-1beta and TNF-alpha act in synergy to inhibit longitudinal growth, an effect linked to decreased proliferation and increased apoptosis of growth plate chondrocytes. IGF-I could partially reverse all these effects. INTRODUCTION Children with chronic inflammatory conditions, such as Crohn's disease or rheumatoid arthritis, experience impaired longitudinal growth. The inflammatory process itself, which includes upregulation of the pro-inflammatory cytokines interleukin (IL)-1beta, IL-6, and TNF-alpha, is believed to be at least partly responsible for the poor growth in these patients. This study aimed to clarify whether these cytokines can act locally in the growth plate to suppress longitudinal growth and whether any negative effects can be reversed by insulin-like growth factor-I (IGF-I). MATERIALS AND METHODS The effects of cytokines on longitudinal bone growth were studied in fetal (day E20) rat metatarsal bones kept in culture. After a 7-day culture, the bones were sectioned, and chondrocyte proliferation was assessed by bromodeoxyuridine (BrdU) incorporation and apoptosis by TUNEL. RESULTS When added separately, IL-1beta and TNF-alpha impaired longitudinal bone growth only at a high concentration (100 ng/ml each; p < 0.05 versus control). In contrast, when added in combination, IL-1beta and TNF-alpha potently inhibited growth at far lower concentrations (from 3 ng/ml each; p < 0.001 versus control) and also decreased chondrocyte proliferation and increased apoptosis. Growth failure induced by the combination of IL-1beta and TNF-alpha (10 ng/ml each) could be counteracted by anti-IL-1beta (100 ng/ml; p < 0.001), anti-TNF-alpha (100 ng/ml; p < 0.001), or IGF-I (100 ng/ml; p < 0.01). IL-6 did not affect longitudinal growth even when added in combination with IL-1beta or TNF-alpha (10 ng/ml each). CONCLUSIONS We show that IL-1beta and TNF-alpha act in synergy to locally suppress longitudinal growth, an effect that can be partially reversed by IGF-I. Although growth hormone (GH)/IGF-I may improve longitudinal growth in children with chronic inflammatory diseases, our results suggest that the inflammatory process itself must be targeted to achieve normal growth.
Near-Wall Migration Dynamics of Erythrocytes in Vivo: Effects of Cell Deformability and Arteriolar Bifurcation

Red blood cell (RBC) deformability has a significant impact on microcirculation by affecting cell dynamics. Despite previous studies that have demonstrated the margination of rigid cells and particles in vitro, little information is available on the in vivo margination of deformability-impaired RBCs under physiological flow and hematocrit conditions. Thus, in this study, we examined how the deformability-dependent, RBC migration alters the cell distribution under physiological conditions, particularly in arteriolar network flows. The hardened RBCs (hRBCs) were found to preferentially flow near the vessel walls of small arterioles (diameter = 47.1–93.3 μm). The majority of the hRBCs (63%) were marginated within the range of 0.7R-0.9R (R: radial position normalized by vessel radius), indicating that the hRBCs preferentially accumulated near the vessel walls. The laterally marginated hRBCs maintained their lateral positions near the walls while traversing downstream with attenuated radial dispersion. In addition, the immediate displacement of RBCs while traversing a bifurcation also contributes to the near-wall accumulation of hRBCs. The notable difference in the inward migration between the marginated nRBCs and hRBCs after bifurcations further supports the potential role of bifurcations in the accumulation of hRBCs near the walls.
Behavioral and Psychosocial Interventions for HIV Prevention in Floating Populations in China over the Past Decade: A Systematic Literature Review and Meta-Analysis

Background Floating populations have been repeatedly characterized as “the tipping point” for the HIV epidemic in China. This study aims to systematically summarize and assess the effectiveness of HIV prevention interventions in floating populations in China over the past decade. Methods We conducted a systematic search in three international databases for literature published between 2005 and 2012 with condom use as the primary outcome, and knowledge about HIV transmission and prevention and stigma towards HIV-infected individuals as secondary outcomes. The impact of interventions on changing the primary and secondary outcomes was calculated by risk difference (RD). We also performed subgroup analyses and meta-regression based on different study characteristics, using Stata 12.0, for the primary outcome. Results Sixteen studies (out of 149) involved 19 different programs and a total of 10,864 participants at entry from 11 provinces in China. The pooled effect estimate of all studies indicated that people participating in HIV-related interventions were 13% more likely to use condoms (95%CI: 0.07, 0.18), however, the effects on increasing condom use exhibited significant heterogeneity across programs (P<0.01, I 2 = 0.93). The meta-regression results suggest that interventions have been significantly less successful in changing condom use in more recent studies (β, 0.14; 95%CI: 0.01, 0.27), adjusted for sexual relationship, study design and follow-up period. Regarding the secondary outcomes, HIV-related interventions were successful at improving knowledge about HIV transmission and prevention (RD, −0.26; 95%CI: −0.36, −0.16 and RD, −0.25; 95%CI: −0.33, −0.16, respectively), and decreasing stigma (RD, 0.18; 95%CI: 0.09, 0.27). Conclusions The included studies between 2005 and 2012 indicate that HIV prevention interventions among Chinese floating populations in the past decade were only marginally effective at increasing condom use, but relatively successful at increasing HIV knowledge and decreasing stigma. To avert new infections, novel sexual risk-reduction interventions taking into account the changing socio-economic and cultural situation of Chinese floating populations are urgently needed.
Character-based Neural Machine Translation

Neural Machine Translation (MT) has reached state-of-the-art results. However, one of the main challenges that neural MT still faces is dealing with very large vocabularies and morphologically rich languages. In this paper, we propose a neural MT system using character-based embeddings in combination with convolutional and highway layers to replace the standard lookup-based word representations. The resulting unlimited-vocabulary and affix-aware source word embeddings are tested in a state-of-the-art neural MT based on an attention-based bidirectional recurrent neural network. The proposed MT scheme provides improved results even when the source language is not morphologically rich. Improvements up to 3 BLEU points are obtained in the German-English WMT task.
Chemical profiling of bioactive constituents in Sarcandra glabra and its preparations using ultra-high-pressure liquid chromatography coupled with LTQ Orbitrap mass spectrometry.

In this study, a fast and reliable method based on an ultra-high-pressure liquid chromatography coupled with photodiode-array detection (PDA) and a linear ion trap high-resolution mass spectrometer (LTQ-Orbitrap XL) has been developed for the identification of bioactive constituents in the whole plant of Sarcandra glabra and its related four preparations. By accurate mass measurements within 5 ppm error for each molecular ion and subsequent fragment ions in routine analysis, 50 compounds, including organic acids, caffeoyl derivatives, flavonoids, coumarins and terpenoids, were identified or tentatively characterized. Among them, 6,7,8-trihydroxycoumarin-O-rhamnopyranoside (17), (2R)-naringenin-6-C-B-D-glucopyranosyl-(6→1)-apiose (25) and (2S)-naringenin-6-C-B-D-glucopyranosyl-(6→1)-apiose (27) were tentatively identified as new compounds. Besides, 21 of these compounds were coexisting in four preparations of Sarcandra glabra. Fragmentation behaviors of the four major categories of compounds were also investigated. This established UPLC-PDA/ESI-MS(n) method was reliable and effective for the separation and identification of the major constituents and would be the basis for quality control of Sarcandra glabra and its related preparations.
Fragile X related protein 1 isoforms differentially modulate the affinity of fragile X mental retardation protein for G-quartet RNA structure

Fragile X syndrome, the most frequent form of inherited mental retardation, is due to the absence of expression of the Fragile X Mental Retardation Protein (FMRP), an RNA binding protein with high specificity for G-quartet RNA structure. FMRP is involved in several steps of mRNA metabolism: nucleocytoplasmic trafficking, translational control and transport along dendrites in neurons. Fragile X Related Protein 1 (FXR1P), a homologue and interactor of FMRP, has been postulated to have a function similar to FMRP, leading to the hypothesis that it can compensate for the absence of FMRP in Fragile X patients. Here we analyze the ability of three isoforms of FXR1P, expressed in different tissues, to bind G-quartet RNA structure specifically. Only the longest FXR1P isoform was found to be able to bind specifically the G-quartet RNA, albeit with a lower affinity as compared to FMRP, whereas the other two isoforms negatively regulate the affinity of FMRP for G-quartet RNA. This result is important to decipher the molecular basis of fragile X syndrome, through the understanding of FMRP action in the context of its multimolecular complex in different tissues. In addition, we show that the action of FXR1P is synergistic rather than compensatory for FMRP function.
Lack of p53 Nuclear Immunostaining Is Not Indicative of Absence of TP53 Gene Mutations in Colorectal Adenocarcinomas

Multiple studies using primary tumors have reported that alterations in p53 expression and detection of TP53 mutations are associated with clinical aggressiveness and poor response to specific therapies. However, there is no general agreement regarding the optimal technical approach to the analysis of p53. We have studied a series of 100 primary colorectal adenocarcinomas by immunohistochemistry with the monoclonal antibody PAb1801, and single-stranded conformation polymorphism (PCR-SSCP, exons 4–8) followed by direct sequencing of shifted bands. p53 Nuclear staining was undetectable (score 0) in 29 of 100 cases. However, gene mutations were detected in 15 of these cases, with all of these mutations leading to abnormal proteins. p53 Nuclear staining was detectable and scored as less than 10% tumor cells positive in 15 of 100 cases but was still considered to be displaying a p53-negative phenotype because the cut-off value for positivity was 10% positive tumor cells. Nevertheless, TP53 gene mutations were detected in 2 of these cases. p53 Nuclear immunoreactivities were detectable and scored as more than 10% tumor cells positive in 56 cases, considered the p53-positive phenotype. TP53 gene mutations were identified in 51 of these 56 cases. These results reveal that immunohistochemical assessment does not predict TP53 mutation status in colorectal adenocarcinoma, mainly in cases displaying absence of nuclear staining. It is thus concluded that molecular profiling should be conducted in parallel with immunophenotyping when analyzing colorectal tumors for p53 status.
Resource Allocation in MIMO Radar With Multiple Targets for Non-Coherent Localization

In an MIMO radar network, the multiple transmit elements may emit waveforms that differ on power and bandwidth. In this paper, we are asking, given that these two resources are limited, what is the optimal power, optimal bandwidth, and optimal joint power and bandwidth allocation for best localization of multiple targets. The well-known Crámer-Rao lower bound for target localization accuracy is used as a figure of merit and approximate solutions are found by minimizing a sequence of convex problems. Their quality is assessed through extensive numerical simulations and with the help of a lower-bound on the true solution. Simulations results reveal that bandwidth allocation policies have a definitely stronger impact on performance than power.
Minimal Flat Knotted Ribbons

This paper gives mathematical models for flat knotted ribbons, and makes specific conjectures for the least length of ribbon (for a given width) needed to tie the trefoil knot and the figure eight knot. The first conjecture states that (for width one) the least length of ribbon needed to tie an open-ended trefoil knot is L = 4(F + 1)/Sqrt[2 + F] where F = (1 + Sqrt[5])/2 is the golden ratio. The second conjecture states that the least length of the figure eight knot (in the same sense) is 32/Sqrt[15].
Re-establishing the regenerative potential of central nervous system axons in postnatal mice

At a certain point in development, axons in the mammalian central nervous system lose their ability to regenerate after injury. Using the optic nerve model, we show that this growth failure coincides with two developmental events: the loss of Bcl-2 expression by neurons and the maturation of astrocytes. Before postnatal day 4, when astrocytes are immature, overexpression of Bcl-2 alone supported robust and rapid optic nerve regeneration over long distances, leading to innervation of brain targets by day 4 in mice. As astrocytes matured after postnatal day 4, axonal regeneration was inhibited in mice overexpressing Bcl-2. Concurrent induction of Bcl-2 and attenuation of reactive gliosis reversed the failure of CNS axonal re-elongation in postnatal mice and led to rapid axonal regeneration over long distances and reinnervation of the brain targets by a majority of severed optic nerve fibers up to 2 weeks of age. These results suggest that an early postnatal downregulation of Bcl-2 and post-traumatic reactive gliosis are two important elements of axon regenerative failure in the CNS.
Identical Genotype B3 Sequences from Measles Patients in 4 Countries, 2005

Surveillance of measles virus detected an epidemiologic link between a refugee from Kenya and a Dutch tourist in New Jersey, USA. Identical genotype B3 sequences from patients with contemporaneous cases in the United States, Canada, and Mexico in November and December 2005 indicate that Kenya was likely to have been the common source of virus.
Estimation With a Helper Who Knows the Interference

We consider the problem of estimating a signal corrupted by independent interference with the assistance of a cost-constrained helper who knows the interference causally or noncausally. When the interference is known causally, we characterize the minimum distortion incurred in estimating the desired signal. In the noncausal case, we present a general achievable scheme for discrete memoryless systems and novel lower bounds on the distortion for the binary and Gaussian settings. Our Gaussian setting coincides with that of assisted interference suppression introduced by Grover and Sahai. Our lower bound for this setting is based on the relation recently established by Verdú between divergence and minimum mean squared error. We illustrate with a few examples that this lower bound can improve on those previously developed. Our bounds also allow us to characterize the optimal distortion in several interesting regimes. Moreover, we show that causal and noncausal estimation are not equivalent for this problem. Finally, we consider the case where the desired signal is also available at the helper. We develop new lower bounds for this setting that improve on those previously developed, and characterize the optimal distortion up to a constant multiplicative factor for some regimes of interest.
Analysis of phone confusion in EMG-based speech recognition

In this paper we present a study on phone confusabilities based on phone recognition experiments from facial surface electromyographic (EMG) signals. In our study EMG captures the electrical potentials of the human articulatory muscles. This technology can be used to create Silent Speech Interfaces, where a user can communicate naturally without uttering any sound. This paper investigates to which extent different phone properties can be recognized from an EMG signal, shows which weaknesses have yet to be overcome, and compares the results to acoustic-based recognition of phones.
Apigenin Restricts FMDV Infection and Inhibits Viral IRES Driven Translational Activity

Foot-and-mouth disease (FMD) is a highly contagious disease of domestic and wild ruminants that is caused by FMD virus (FMDV). FMD outbreaks have occurred in livestock-containing regions worldwide. Apigenin, which is a flavonoid naturally existing in plant, possesses various pharmacological effects, including anti-inflammatory, anticancer, antioxidant and antiviral activities. Results show that apigenin can inhibit FMDV-mediated cytopathogenic effect and FMDV replication in vitro. Further studies demonstrate the following: (i) apigenin inhibits FMDV infection at the viral post-entry stage; (ii) apigenin does not exhibit direct extracellular virucidal activity; and (iii) apigenin interferes with the translational activity of FMDV driven by internal ribosome entry site. Studies on applying apigein in vivo are required for drug development and further identification of potential drug targets against FDMV infection.
Improving Chinese Tokenization With Linguistic Filters on Statistical Lexical Acquisition

The first step in Chinese NLP is to tokenize or segment character sequences into words, since the text contains no word delimiters. Recent heavy activity in this area has shown the biggest stumbling block to be words that are absent from the lexicon, since successful tokenizers to date have been based on dictionary lookup (e.g., Chang & Chen 1993; Chiang et al. 1992; Lin et al. 1993; Wu & Tseng 1993; Sproat et al. 1994). We present empirical evidence for four points concerning tokenization of Chinese text: (1) More rigorous "blind" evaluation methodology is needed to avoid inflated accuracy measurements; we introduce the nk-blind method. (2) The extent of the unknown-word problem is far more serious than generally thought, when tokenizing unrestricted texts in realistic domains. (3) Statistical lexical acquisition is a practical means to greatly improve tokenization accuracy with unknown words, reducing error rates as much as 32.0%. (4) When augmenting the lexicon, linguistic constraints can provide simple inexpensive filters yielding significantly better precision, reducing error rates as much as 49.4%.
Comparison of three commercially available amplification assays, AMP CT, LCx, and COBAS AMPLICOR, for detection of Chlamydia trachomatis in first-void urine

We compared the Gen-Probe transcription-mediated amplification assay (AMP CT), the Abbott LCx assay, and the Roche COBAS AMPLICOR assay for the detection of Chlamydia trachomatis in a mixed population in urine samples. First-void urine, urethral specimens, and cervical specimens in females were obtained from 1,000 patients (544 males and 456 females) visiting the outpatient sexually transmitted disease clinic of our hospital. The prevalence of C. trachomatis infection was 7.7% as determined by tissue culture of urethral and cervical specimens. The sensitivities of LCx, COBAS AMPLICOR, and AMP CT compared to cell culture were 79, 86, and 78%, respectively. Sensitivity and specificity were recalculated by using a new "gold standard", i.e., a sample was considered to be true positive if two or more techniques yielded positive results. Specimens positive only by cell culture or positive in only one commercial amplification technique were retested by a previously described in-house PCR. After discordance analysis the sensitivities of LCx, COBAS AMPLICOR, and AMP CT were 84, 93, and 85%, respectively. Specificity exceeded 99% for all three assays. With each method the sensitivity was lower for urine samples from females compared to urine samples from males. By application of this new gold standard, existing differences between methods are highlighted; future evaluations of new techniques should be validated against two or more amplification assays.
Fixational Eye Movement Correction of Blink-Induced Gaze Position Errors

Our eyes move continuously. Even when we attempt to fix our gaze, we produce “fixational” eye movements including microsaccades, drift and tremor. The potential role of microsaccades versus drifts in the control of eye position has been debated for decades and remains in question today. Here we set out to determine the corrective functions of microsaccades and drifts on gaze-position errors due to blinks in non-human primates (Macaca mulatta) and humans. Our results show that blinks contribute to the instability of gaze during fixation, and that microsaccades, but not drifts, correct fixation errors introduced by blinks. These findings provide new insights about eye position control during fixation, and indicate a more general role of microsaccades in fixation correction than thought previously.
A study of sentiment analysis using deep learning techniques on Thai Twitter data

Sentiment analysis is very important for social listening, especially, when there are millions of Twitter users in Thailand nowadays. Almost all prior works are based on classical classification techniques, e.g., SVM, Naïve Bayes, etc. Recently, the deep learning techniques have shown promising accuracy in this domain on English tweet corpus. In this paper, we propose the first study that applies deep learning techniques to classify sentiment of Thai Twitter data. There are two deep learning techniques included in our study: Long Short Term Memory (LSTM) and Dynamic Convolutional Neural Network (DCNN). A proper data preprocessing has been conducted. Moreover, we also investigate an effect of word orders in Thai tweets. The results show that the deep learning techniques significantly outperform many classical techniques: Naïve Bayes and SVM, except Maximum Entropy.
Environment-assisted quantum transport in ordered systems

Noise-assisted transport in quantum systems occurs when quantum time evolution and decoherence conspire to produce a transport efficiency that is higher than what would be seen in either the purely quantum or purely classical cases. In disordered systems, it has been understood as the suppression of coherent quantum localization through noise, which brings detuned quantum levels into resonance and thus facilitates transport. We report several new mechanisms of environment-assisted transport in ordered systems, in which there is no localization to overcome and where one would naively expect that coherent transport is the fastest possible. Although we are particularly motivated by the need to understand excitonic energy transfer in photosynthetic light-harvesting complexes, our model is general—transport in a tight-binding system with dephasing, a source and a trap—and can be expected to have wider application.
Is There a Relationship Between GERD and Asthma?

JGM Approximately 25 million Americans have asthma. How many of these individuals have gastroesophageal reflux disease (GERD) depends on how GERD is defined. The prevalence of GERD certainly appears to be higher in asthma patients than in the general population, but studies have used different definitions of GERD, making it difficult to compare their findings and compile data. The prevalence of GERD in asthma patients has ranged from 25% to 80% in studies, many of which use self-reported GERD. In a study conducted by the American Lung Association Asthma Clinical Research Centers (ACRC) Network, 38% of asthma patients had GERD (as defined by a positive pH probe).