Miracle-dz/UniFAR-FTUs huggingface dataset:
Polar Organic Gate Dielectrics for Graphene Field-Effect Transistor-Based Sensor Technology

We have pioneered the use of liquid polar organic molecules as alternatives to rigid gate-dielectrics for the fabrication of graphene field-effect transistors. The unique high net dipole moment of various polar organic molecules allows for easy manipulation of graphene’s conductivity due to the formation of an electrical double layer with a high-capacitance at the liquid and graphene interface. Here, we compare the performances of dimethyl sulfoxide (DMSO), acetonitrile, propionamide, and valeramide as polar organic liquid dielectrics in graphene field-effect transistors (GFETs). We demonstrate improved performance for a GFET with a liquid dielectric comprised of DMSO with high electron and hole mobilities of 154.0 cm2/Vs and 154.6 cm2/Vs, respectively, and a Dirac voltage <5 V.
MicroRNA-dependent regulation of Hox gene expression sculpts fine-grain morphological patterns in a Drosophila appendage

ABSTRACT Disruptions of normal Hox gene expression can lead to severe morphological defects, revealing a link between the regulation of Hox expression and pattern formation. Here, we explore these links, focusing on the impact of microRNA regulation on the expression of the Drosophila Hox gene Ultrabithorax (Ubx) during haltere development. Through a combination of bioinformatic and transcriptomic analyses, we identify the miR-310/313 cluster (miR-310C) as a candidate regulator of Ubx. Several experiments confirm this. First, miR-310C and Ubx protein show complementary expression patterns in haltere imaginal discs; second, artificial activation of miR-310C expression in haltere discs leads to Ubx-like phenotypes. Third, expression of a fluorescent reporter bearing Ubx 3′UTR sequences is reduced when co-expressed with miR-310C. Fourth, deletion of miR-310C leads to Ubx upregulation and changes the array of mechanosensory sensilla at the base of the haltere. Fifth, an artificial increase of Ubx levels within the miR-310C expression domain phenocopies the mechanosensory defects observed in miR-310C mutants. We propose that miR-310C-mediated repression delimits Ubx fine-grain expression, contributing to the sculpting of complex morphologies in the Drosophila haltere with implications for flight control. Our work reveals a novel role of microRNA regulation in the control of Hox gene expression with impact on morphology. Summary: A novel role of microRNAs in the control of Hox gene expression with impact on the development of morphology in Drosophila, suggesting that microRNAs might play similar roles in other bilaterians.
Enhanced source location privacy mechanism for WSNs

Source location privacy in wireless sensor networks is an important security issue when a wireless sensor network is used in monitoring valuable assets or the source is a sensitive object. However, the open nature of a sensor network makes relatively easy for an adversary to detect message flows and trace back the message hop-by-hop to it source by moving in the reverse direction of the flows. Many schemes have been proposed recently to provide source location privacy but all performs poorly, because either with insufficient safety period or high energy consumption or data delivery delay. In this paper, after analysing privacy weakness of the cyclic entrapment method (CEM), we propose an enhanced scheme by introducing two mechanisms to provide strong location privacy against skilled adversary. The proposed strategy is principally based on false paths instead of loops and ensures that the arrival angle formed between the real and the real path is minimal. We evaluate our scheme based on two criteria: safety period, and ratio delivery. The simulation results show that our scheme improve safety period while keeping packets delivery ratio similar as in CEM method.
Transparent and Water-Resistant Composites Prepared from Acrylic Resins ABPE-10 and Acetylated Nanofibrillated Cellulose as Flexible Organic Light-Emitting Device Substrate

Acetylated nanofibrillated cellulose (ANFC)/acrylic resin ABPE-10 composite film was prepared by impregnating ABPE-10 into ANFC films under negative pressure, which can enhance properties of ANFC films by forming an interpenetrating polymer network structure between ABPE-10 and the ANFC film. The ANFC/ABPE-10 composite film met the high performance flexible organic light-emitting diode substrate requirement, even when the ANFC dosage was as high as approximately 70%. The transparency of films with different ANFC dosages significantly increased from 67% (42 µm) to 88% (45 µm), as determined by ultraviolet-visible analysis. The composite film inherited the properties of AFNC, with a low coefficient of thermal expansion and a ductile compact structure. The contact angles of ANFC films increased from 49.2° to 102.9° after dipping in ABPE-10. Additionally, the composite films had good surface smoothness and mechanical properties.
Mitonuclear genomics challenges the theory of clonality in Trypanosoma congolense: Reply to Tibayrenc and Ayala

We recently published the first genomic diversity study of Trypanosoma congolense, a major aetiological agent of Animal African Trypanosomiasis. We demonstrated striking levels of SNP and indel diversity in the Eastern province of Zambia as a consequence of hybridization between divergent trypanosome lineages. We concluded that these and earlier findings in T. congolense challenge the predominant clonal evolution (PCE) model. In a recent comment, Tibayrenc and Ayala claim that there are many features in T. congolense supporting their theory of clonality. While we can follow the reasoning of the authors, we also identify major limitations in their theory and interpretations that resulted in incorrect conclusions. First, we argue that each T. congolense subgroup should be analysed independently as they may represent different (sub)species rather than “near‐clades”. Second, the authors neglect major findings of two robust population genetic studies on Savannah T. congolense that provide clear evidence of frequent recombination. Third, we reveal additional events of introgressive hybridization in T. congolense by analysing the maxicircle coding region using next‐generation sequencing analyses. At last, we pinpoint two important misinterpretations by the authors and show that there are no spatially and temporally widespread clones in T. congolense. We stand by our earlier conclusions that the clonal framework is unlikely to accurately model the population structure of T. congolense. Other theoretical frameworks such as Maynard Smith's epidemic model may better represent the complex ancestry seen in T. congolense, where clones delimited in space and time arise against a background of recombination.
Clinical characteristics and course of oral somatic delusions: a retrospective chart review of 606 cases in 5 years

Objective Oral cenesthopathy is characterized by foreign body sensations without medical and dental evidence for them. It is thought to be a rare disease in psychiatry, but many patients are visiting dental clinics seeking treatment to remove a foreign body. Even though the features of oral cenesthopathy might be different between a psychiatric clinic and a dental clinic, there has been no clinic-statistical study from dentists. In this study, we report a clinico-statistical study of patients with oral cenesthopathy in dentistry. Methods This is a retrospective chart review of 606 outpatients with oral cenesthopathy in Tokyo Medical and Dental University from April 2010 through to March 2015. Results A total of 159 male and 447 female patients were included in this study. The mean age was 62.08 years, and female patients were older than male patients. The trigger of the dental treatment and the acute phase of depression at the onset were significantly related (p=0.037). Only 128 patients (36%) had clinically significant improvement after 6 months of pharmacotherapy. No history of psychiatric disorders (odds ratio [OR] 0.479 [95% confidence interval {CI}: 0.262–0.875], p=0.017) and longer duration of illness (>18 months) (OR 2.626 [95% CI: 1.437–4.799], p=0.002) were significant factors for clinical outcomes. Conclusion Patients with oral cenesthopathy in our clinic were predominantly elderly female patients. Dental treatment in the acute phase of depression might be a risk factor for oral cenesthopathy. Therefore, comprehending the situation of psychiatric disorder and obtaining adequate informed consent might be required to prevent the trouble concerning oral cenesthopathy.
Exonic splice regulation imposes strong selection at synonymous sites

What proportion of coding sequence nucleotides have roles in splicing, and how strong is the selection that maintains them? Despite a large body of research into exonic splice regulatory signals, these questions have not been answered. This is because, to our knowledge, previous investigations have not explicitly disentangled the frequency of splice regulatory elements from the strength of the evolutionary constraint under which they evolve. Current data are consistent both with a scenario of weak and diffuse constraint, enveloping large swaths of sequence, as well as with well-defined pockets of strong purifying selection. In the former case, natural selection on exonic splice enhancers (ESEs) might primarily act as a slight modifier of codon usage bias. In the latter, mutations that disrupt ESEs are likely to have large fitness and, potentially, clinical effects. To distinguish between these scenarios, we used several different methods to determine the distribution of selection coefficients for new mutations within ESEs. The analyses converged to suggest that ∼15%–20% of fourfold degenerate sites are part of functional ESEs. Most of these sites are under strong evolutionary constraint. Therefore, exonic splice regulation does not simply impose a weak bias that gently nudges coding sequence evolution in a particular direction. Rather, the selection to preserve these motifs is a strong force that severely constrains the evolution of a substantial proportion of coding nucleotides. Thus synonymous mutations that disrupt ESEs should be considered as a potentially common cause of single-locus genetic disorders.
Acyclovir inhibits Cyprinid herpesvirus 3 multiplication in vitro.

Cyprinid herpesvirus 3 (CyHV-3), also known as koi herpesvirus (KHV), is an aetiological agent of a virulent and lethal disease in common and koi carp. In this study, we examined in vitro the anti-CyHV-3 activity of acyclovir (ACV), nucleoside analogue commonly used against human herpesviruses, as well as acyclovir monophospate (ACV-MP). The cytotoxicity of the ACV and the ACV-MP for two common carp cell lines, CCB (Common carp brain) and KF1 (Koi carp fin 1), was determined by means of MTT and crystal violet assays. In subsequent studies, the concentration of 66.67 μM was applied. The ACV and the ACV-MP (66.67 μM) inhibited a cytopathic effect (CPE) induced by the CyHV-3 virus in the CCB (ACV by 66%, ACV-MP by 58%) and the KF1 (ACV by 25%, ACV-MP by 37%). The viral load measured by the means of TaqMan qPCR was reduced in a range of 67%-93% depending on the analogue, the cell line and the time of incubation. The expression of viral genes (ORF149, ORF3, ORF134 and ORF78) in CCB cells infected with the CyHV-3 was strongly downregulated within the range of 78%-91%. In summary, both the ACV and the ACV-MP can inhibit CyHV-3 replication in vitro.
A compendium of conserved cleavage and polyadenylation events in mammalian genes

Cleavage and polyadenylation is essential for 3' end processing of almost all eukaryotic mRNAs. Recent studies have shown widespread alternative cleavage and polyadenylation (APA) events leading to mRNA isoforms with different 3' UTRs and/or coding sequences. Here, we present a compendium of conserved cleavage and polyadenylation sites (PASs) in mammalian genes, based on approximately 1.2 billion 3' end sequencing reads from more than 360 human, mouse, and rat samples. We show that ∼80% of mammalian mRNA genes contain at least one conserved PAS, and ∼50% have conserved APA events. PAS conservation generally reduces promiscuous 3' end processing, stabilizing gene expression levels across species. Conservation of APA correlates with gene age, gene expression features, and gene functions. Genes with certain functions, such as cell morphology, cell proliferation, and mRNA metabolism, are particularly enriched with conserved APA events. Whereas tissue-specific genes typically have a low APA rate, brain-specific genes tend to evolve APA. In addition, we show enrichment of mRNA destabilizing motifs in alternative 3' UTR sequences, leading to substantial differences in mRNA stability between 3' UTR isoforms. Using conserved PASs, we reveal sequence motifs surrounding APA sites and a preference of adenosine at the cleavage site. Furthermore, we show that mutations of U-rich motifs around the PAS often accompany APA profile differences between species. Analysis of lncRNA PASs indicates a mechanism of PAS fixation through evolution of A-rich motifs. Taken together, our results present a comprehensive view of PAS evolution in mammals, and a phylogenic perspective on APA functions.
The effect of autologous leukocyte platelet rich fibrin on the rate of orthodontic tooth movement: A prospective randomized clinical trial

ABSTRACT Objective: The aim of this study was to evaluate the effect of LPRF, placed in extraction sockets, on orthodontic tooth movement (OTM). Materials and Methods: Thirty extraction sockets from eight patients (five males, three females, with a mean age of 17.37 years; range 12–25 years) requiring extraction of first premolars based on their orthodontic treatment plan participated in this split-mouth clinical trial. In one randomly selected quadrant of each jaw, the extraction socket was preserved as the experimental group by immediate placement of LPRF in the extraction socket. The other quadrant served as the control group for secondary healing. Immediately, the teeth adjacent to the defects were pulled together by a NiTi closed-coil spring with constant force. A piece of 0.016 × 0.022-inch stainless steel wire was used as the main arch wire. The amount of OTM was measured on the study casts at eight time points with 2-week intervals for 3 months. Analysis of random effect model was performed for the purpose of comparison between the experimental and control groups. Results: According to the random effect model, a statistically significant difference was found between the experimental and control group in rate of OTM (P = 0.006). Conclusion: According to the results, application of LPRF, as an interdisciplinary approach combining orthodontics and surgery, may accelerate OTM, particularly in extraction cases.
The Lena River Delta, Arctic Siberia: an Arctic ground data observatory of the DUE Permafrost Remote Sensing Project

Permafrost landscapes are a challenge for the validation of remote sensing products. The land surface is characterized by high heterogeneity, patterned ground, disturbances, abundance of small-sized water bodies, and sharp moisture gradients. A significant challenge in the evaluation of remote sensing products for highlatitude permafrost landscapes are the very sparse ground data: there are only a limited number of welldescribed and multi-instrumented field sites. Within the ESA Data User Element DUE PERMAFROST project an important component is the evaluation and the assessment by the users and remote sensing experts to lend confidence in the scientific utility of the DUE PERMAFROST products. The long-term and multi-instrumented Russian-German Samoylov Station in the Lena River Delta (Arctic Siberia) is a prime site for evaluation in DUE PERMAFROST PERMAFROST and serves as an important platform to answer the following questions: • Are plot data representative of surrounding parameters at satellite spatial resolutions? • How are the statistics derived from the matchup analysis against in-situ Diagnostic Data Sets (DDS) (absolute validation)? • How is the credibility of DUE Permafrost products against ‘descriptive truth’ (relative validation)?
Deep Learning-based Poetry Generation Given Visual Input

The paper describes the implementation and evaluation of a system able to generate poetry satisfying rhyth-mical and rhyming constraints from an input image. The poetry generation system consists of a Convolu-tional Neural Network for image object classiﬁcation, a module for ﬁnding related words and rhyme words, and a Long Short-Term Memory (LSTM) Neural Network trained on a song lyrics data set compiled speciﬁ-cally for this work. In total, 153 stanzas were generated and evaluated in two different experiments. The results indicate that the deep learning based system is capable of generating subjectively poetic, grammatically correct and meaningful poetry, but not on a consistent basis.
An Analytical hierarchy process model for the evaluation of college

Taking into account the characteristcs of college experimental teaching, through investgaton and analysis, evaluaton indices and an Analytcal Hierarchy Process (AHP) model of experimental teaching quality have been established following the analytcal hierarchy process method, and the evaluaton indices have been given reasonable weights. An example is given, and the evaluaton results show that the evaluaton indices proposed in this paper are capable of refectng objectvely, exactly and reasonably experimental teaching quality, and of effectvely promotng the quality of experimental teaching.
RegionDroid: A Tool for Detecting Android Application Repackaging Based on Runtime UI Region Features

With the rapid development of mobile devices, Android applications (apps) are universally used. However, attackers repackage Android apps and release them to the markets for illegal purposes, which brings great threats to the Android ecosystem. To leverage the popularity of original apps, they keep similar software behaviors to confuse app users. Furthermore, repackaged apps can be obfuscated or encrypted to avoid being detected. Besides, hybrid mobile apps, built by combining web technology and native elements, are becoming a preferred choice for developers. The structure of hybrid apps differs a lot from that of native apps which would raise great challenges to repackaging detection. Existing works still have some limitations in detecting repackaging from obfuscated and encrypted apps. Besides, few of them can deal with hybrid apps. In this paper, we proposed an approach based on the app UI regions extracted from app's runtime UI traces. We also implement a tool named RegionDroid based on the approach. We apply RegionDroid to tree datasets with totally 369 apps. It successfully finds all the 98 obfuscated or encrypted repackaged pairs in dataset S1. It also shows good credibility in distinguishing another 114 commercial apps in dataset S2. We also test our approach in dataset S3 with 157 hybrid apps by comparing them pairwisely and the false positive rate is 0.016%.
Assessment of the radio 3H‐CH4 tracer technique to measure aerobic methane oxidation in the water column

Microbial methane oxidation rates in ocean and freshwater systems reveal how much of emitted methane from the sediments is oxidized to CO2 and how much can reach the atmosphere directly. The tracer‐method using 3H‐CH4 provides a way to measure methane oxidation rates even in water with low methane concentrations. We assessed this method by implementing several experiments, collecting data from various environments, and including recent literature concerning the method to identify any uncertainties that should be considered. Our assessment reveals some difficulties of the method but also reassures previous assumptions to be correct. Some of the difficulties are hardly to be avoided, such as incubating all samples at the right in situ temperature or limiting the variability of methane oxidation rate measurements in water of low methanotrophic activity. Other details, for example, quickly measuring the total radioactivity after stopping the incubation, are easy to adapt in each laboratory. And yet other details as shaking during incubation and bottle size seem to be irrelevant. With our study, we hope to improve and to encourage future measurements of methane oxidation rates in different environments and to provide a standard procedure of methane oxidation rate measurements to make the data better comparable.
An Ordered Semantic Embedding for Sentence

In this paper, we propose a method to extract a sentence embedding which reflects different aspects of semantics in a weak order. Most existing methods typically attempt to capture the whole semantics of a sentence with a weighted sum of word embeddings. Much information may be lost in the process. More elaborate methods try to extract different aspects of semantics, ignoring their semantic connections. However, this treatment is counter-intuitive. Human read sentences efficiently by paying attention to different parts of a sentence orderly. These semantic aspects have their inner relationship or logic. Inspired by this, we propose to extract the semantics orderly and represent a single aspect with a vector. The final sentence embedding will be a matrix that reflects the main semantic aspects and also keeps their inner logic.
Inverse designed photonic fibers and metasurfaces for nonlinear frequency conversion

Typically, photonic waveguides designed for nonlinear frequency conversion rely on intuitive and established principles, including index guiding and band gap engineering, and are based on simple shapes with high degrees of symmetry. We show that recently developed inverse-design techniques can be applied to discover new kinds of microstructured fibers and metasurfaces designed to achieve large nonlinear frequency conversion efficiencies. As a proof of principle, we demonstrate complex, wavelengthscale chalcogenide glass fibers and gallium phosphide metasurfaces exhibiting some of the largest nonlinear conversion efficiencies predicted thus far. Such enhancements arise because, in addition to enabling a great degree of tunability in the choice of design wavelengths, these optimization tools ensure both frequency- and phase-matching in addition to large nonlinear overlap factors, potentially orders of magnitude larger than those obtained in hand-designed structures.