Miracle-dz/UniFAR-FTUs huggingface dataset:
Variation in Stomatopod (Gonodactylus smithii) Color Signal Design Associated with Organismal Condition and Depth

In interactions, many tropical stomatopod species display conspicuous colored body spots that can communicate information about the sender’s state (e.g., sex, aggressiveness, etc.). Species inhabiting a variety of depths experience large differences in illumination spectrum and intensity due to filtering of light by water and its constituents. Stomatopod spectral sensitivity is known to vary phenotypically with changes in light environment (associated with depth) that potentially affects the detection of color signals. Animals collected at different depths also have different body coloration. This study examines how spectral differences in colored body spots vary with organismal condition and models the effects of changing body coloration, light environment, and spectral sensitivity on the detection of color signals in a gonodactyloid species, Gonodactylus smithii. Of the seven conspicuous color spots that were measured in G. smithii, three had spectral differences that correlated with sex, aggression, and female reproductive state. A model of color detection in G. smithii indicates that longer-wavelength spectral content was affected most by varying body coloration and light conditions. Most color signals were perceived similarly both by shallow- and by deep-adapted photoreceptor sets over a range of depths (1–13 m). Eye spot (‘meral spot’) color detection also was invariant over the same depth range in shallow- and deep-adapted, long-wavelength receptors, but deep-adapted receptors continued to maintain a consistent detection of these spots down to 18 meters. These results suggest that meral spot coloration may have evolved as a constant signal when viewed by conspecifics from various depths.
Constellation Design for Improved Iterative LDPC Decoding

Recent advances in iteratively decoded channel codes such as low-density parity-check (LDPC) codes make it possible to operate close to channel capacity limits. The capacity of a coded modulation is therefore a very useful indicator when analyzing the performance of a near infinite-length code under maximum likelihood (ML) decoding. In this work, we analyze the behavior of LDPC codes of moderate lengths using belief propagation (BP) based decoding algorithms. We found that in many cases analyzing the capacity of the coded modulation is not enough to predict which constellation will yield the best error rate performance in a Gaussian noise channel. For the case of M-ary constellations with M=8 and 16 we show how a lower error rate can be achieved by making simple changes to constant envelope phase-shift keying (PSK) constellations. Modifying these constellations translates to an increase in the mean log-likelihood ratio of some of the received bits, resulting in an improvement in performance.
Color Superresolution Reconstruction and Demosaicing Using Elastic Net and Tight Frame

The goal of color superresolution reconstruction and demosaicing is to get an enhanced resolution image from raw single-chip data of Bayer color filter array. Two parts of regularization method, fidelity and regularization terms, are discussed in detail to solve the problem. Elastic net is successfully applied to variable-selection method; we utilize it as a novel fidelity term to improve performance and make the reconstructed image more suitable for human visual system. Piecewise linear framelet operators are recently adopted to image denoising, which are utilized to detect multiorientation variation of the signal in color correlation space. K R as green (G) minus red and K B as G minus blue are a color correlation space of low-pass signal, and luminance component contains most of the information of a full-color image. Thus, K R/K B plus luminance component is considered as a color correlation space for regularization. Experimental results show that our algorithm is efficient in removing visual artifact, preserving the edges of image with high-peak signal-to-noise ratio, and satisfying visual effect.
Increasing the GluN2A/GluN2B Ratio in Neurons of the Mouse Basal and Lateral Amygdala Inhibits the Modification of an Existing Fear Memory Trace

Reconsolidation updating is a form of memory modification in which an existing memory can become destabilized upon retrieval and subsequently be modified via protein-synthesis-dependent reconsolidation. However, not all memories appear to destabilize upon retrieval and thus are not modifiable via reconsolidation updating approaches and the neurobiological basis for this remains poorly understood. Here, we report that auditory fear memories created with 10 tone–shock pairings are resistant to retrieval-dependent memory destabilization and are associated with an increase in the synaptic GluN2A/GluN2B ratio in neurons of the basal and lateral amygdala (BLA) compared with weaker fear memories created via one or three tone–shock pairings. To increase the GluN2A/GluN2B ratio after learning, we generated a line of mice that expresses an inducible and doxycycline-dependent GFP-GluN2A transgene specifically in α-CaMKII-positive neurons. Our findings indicate that increasing the GluN2A/GluN2B ratio in BLA α-CaMKII-positive neurons after a weak fear memory has consolidated inhibits retrieval-dependent memory destabilization and modification of the fear memory trace. This was associated with a reduction in retrieval-dependent AMPA receptor trafficking, as evidenced by a reduction in retrieval-dependent phosphorylation of GluR1 at serine-845. In addition, we determined that increasing the GluN2A/GluN2B ratio before fear learning significantly impaired long term memory consolidation, whereas short-term memory remained unaltered. An increase in the GluN2A/GluN2B ratio after fear learning had no influence on fear extinction or expression. Our results underscore the importance of NMDAR subunit composition for memory destabilization and suggest a mechanism for why some memories are resistant to modification. SIGNIFICANCE STATEMENT Memory modification using reconsolidation updating is being examined as one of the potential treatment approaches for attenuating maladaptive memories associated with emotional disorders. However, studies have shown that, whereas weak memories can be modified using reconsolidation updating, strong memories can be resistant to this approach. Therefore, treatments targeting the reconsolidation process are unlikely to be clinically effective unless methods are devised to enhance retrieval-dependent memory destabilization. Currently, little is known about the cellular and molecular events that influence the induction of reconsolidation updating. Here, we determined that an increase in the GluN2A/GluN2B ratio interferes with retrieval-dependent memory destabilization and inhibits the initiation of reconsolidation updating.
In Situ generation of difluoromethyl diazomethane for [3+2] cycloadditions with alkynes.

A novel approach to agrochemically important difluoromethyl-substituted pyrazoles has been developed based on the elusive reagent CF2 HCHN2 , which was synthesized (generated in situ) for the first time and employed in [3+2] cycloaddition reactions with alkynes. The reaction is extremely practical as it is a one-pot process, does not require a catalyst or the isolation of the potentially toxic and explosive gaseous intermediate, and proceeds in a common solvent, namely chloroform, in air. The reaction is also scalable and allows for the preparation of the target pyrazoles on gram scale.
Short- and Long-Term Adaptation to Ethanol Stress and Its Cross-Protective Consequences in Lactobacillus plantarum

ABSTRACT This paper describes the molecular responses of Lactobacillus plantarum WCFS1 toward ethanol exposure. Global transcriptome profiling using DNA microarrays demonstrated adaptation of the microorganism to the presence of 8% ethanol over short (10-min and 30-min) and long (24-h) time intervals. A total of 57 genes were differentially expressed at all time points. Expression levels of an additional 859 and 873 genes were modulated after 30 min and 24 h of exposure to the solvent, respectively. Ethanol exposure led to induced expression of genes involved in citrate metabolism and cell envelope architecture, as well as canonical stress response pathways controlled by the central stress regulators HrcA and CtsR. Correspondingly, cells grown for 24 h in medium containing 8% ethanol exhibited higher levels of citrate consumption and modified cell membrane fatty acid composition and showed invaginating septa compared with cells grown in liquid medium without ethanol. In addition, these physiological changes resulted in cross-protection against high temperatures but not against several other stresses tested. To evaluate the role of HrcA and CtsR in ethanol tolerance, ctsR and hrcA gene deletion mutants were constructed. The growth rate of the L. plantarum ΔctsR::cat strain was impaired in de Man-Rogosa-Sharpe (MRS) medium containing 8% ethanol, whereas growth of the L. plantarum ΔhrcA::cat and ΔctsR ΔhrcA::cat mutants was indistinguishable from that of wild-type cells. Overall, these results suggest that the induction of CtsR class III stress responses provides cross-protection against heat stress.
Demographic Differences in Sun Protection Beliefs and Behavior: A Community-Based Study in Shanghai, China

Objective: We want to know the attitudes and behaviors towards UV protection and we want to analyze the difference between different Chinese demographic groups in this study. Methods: A community-based study was undertaken in Shanghai from October 2009 to January 2010. The participants, ages 20–60 years old, were screened by cluster sampling and were investigated through interviews at their own homes. Personal basic information and questions pertaining to their knowledge and attitudes towards sunlight and sun protective activities were included in the questionnaire. Results: We completed 5964 questionnaires (2794 men and 3170 women). Eighty-six percent of the respondents belonged to Fitzpatrick skin type IV. Knowledge about UV-induced risks was known by more than half of the participants. However, only one-third of the participants thought they needed sun protection in winter and indoors or in vehicles, and 27% of the participants acknowledged tanning was not favorable. The attitudes towards sun exposure varied greatly, showing significant differences based on gender, age, socioeconomic groups and skin type groups (p < 0.05). Fifty-five percent of the participants never use an umbrella under sunlight, only 26.5% of the respondents wear hats, and 21.3% of the participants applied sunscreen. Females and individuals of a younger age and higher education level were more likely to perform sun-protective behaviors than males and those of an older age and lower education level (p < 0.001). Conclusion: There is a deficit in the use of sun protection existing in our surveyed Chinese population, especially in males and lower socioeconomic population, which could allow for planning prevention campaigns and exploring sun-preventive products.
(111)-Faceted Metal Source and Drain for Aggressively Scaled Metal/High- $k$ MISFETs

We have proposed a (111)-faceted metal source and drain (S/D) with a metal gate and a high-k gate dielectric for aggressively scaled complementary metal-insulator-semiconductor field-effect transistors (MISFETs). The metal S/D is formed by epitaxially grown nickel disilicide. N-type or p-type dopants are segregated in the atomically flat metal/Si interfaces that help to reduce the effective Schottky barrier height between the epitaxial metal and silicon. Therefore, a single type of metal S/D can work for both n-type and p-type MISFETs. The dopant segregation is realized by an ion implantation into the epitaxial silicides and a subsequent low-temperature annealing. Operations of 6-nm-long n-type and p-type silicon-on-insulator MISFETs that came with a fully silicided gate electrode and a high-k gate dielectric were experimentally demonstrated. The excellent short-channel effect immunity due to the trapezoidal channel was also verified by numerical simulation.
International code of botanical nomenclature (Vienna Code) : adopted by the Seventeenth International Botanical Congress, Vienna, Austria, July 2005

International code of Botanical Nomenclature(Vienna code)adopted by the seventeenth international botanical congress Vienna,Austria,July 2005 , International code of Botanical Nomenclature(Vienna code)adopted by the seventeenth international bo. , مرکز فناوری اطلاعات و اطلاع رسانی کشاورزی
JavaDL: a Java-based Deep Learning Tool to Predict Drug Responses

Motivation Accurate prediction of drug response in each patient is the holy grail in personalized medicine. Recently, deep learning techniques have been witnessed with revival in a variety of areas such as image processing and genomic data analysis, and they will be useful for the coming age of big data analysis in pharmaceutical research and chemogenomic applications. This provides us an impetus to develop a novel deep learning platform to accurately and reliably predict the response of cancer to different drug treatments. Results In this study, we describe a Java-based implementation of deep neural network (DNN) method, termed JavaDL, to predict cancer responses to drugs solely based on their chemical features. To this end, we devised a novel cost function by adding a regularization term which suppresses overfitting. We also adopted an “early stopping” strategy to further reduce overfit and improve the accuracy and robustness of our models. Currently the software has been integrated with a genetic algorithm-based variable selection approach and implemented as part of our JavaDL package. To evaluate our program, we compared it with several machine learning programs including SVM and kNN. We observed that JavaDL either significantly outperforms other methods in model building and prediction or obtains better results in handling big data analysis. Finally, JavaDL was employed to predict drug responses of several highly aggressive triple-negative breast cancer cell lines, and the results showed robust and accurate predictions with r2 as high as 0.80. Availability The program is freely available at https://imdlab.mdanderson. org/JavaDL/JavaDL.php.
Segmentation in multiple levels for extracting salient regions of human body from single images

Importance of the digital image processing has increased in a massive way in recent days. Digital image processing has its own way in high end applications. Extracting the human pose from the images is a difficult task. In present days there are several researches have done for estimating the exact pose of the human. In several applications we require human body segmentation it is a difficult task. For example we required to do the segmentation of the image for understanding of the given picture and recognition of the activity in that picture. To manage with the extremely high difficult pose like human hand is behind him who is not visible in the image, complexity of the picture, and appearances of various human bodies in the picture. There are various existing works which need the computationally difficult training and some existing works requires the template matching processes. The main aim of this paper is to see the salient regions of human body to estimate the pose in the picture by using bottom to up style which in turn uses multiple level of segmentation. The approach is divide into five steps namely detection of the face, second one is segmentation in multiple level, third is detection of skin, fourth is segmentation of the upper body and finally the segmentation of the lower part of the body. Finally we can prove that the simulation results of our method achieve better results and high efficiency over the traditional existing methods. In this paper we improved the results with spline regression.
Hyperuricemia, gout and the kidney

Purpose of review(a) To examine the latest information about renal tubular handling of uric acid, its genetic background and contribution to the causation of hyperuricemia. (b) To review the association of hyperuricemia, gout and chronic kidney damage and whether hyperuricemia is cause or effect of renal dysfunction. Recent findingsThe gene SLC2A9 encodes for GLUT9, an important proximal tubule transporter of uric acid. Polymorphisms of the gene have been linked to gout susceptibility and to hereditary hypouricemia. Familial childhood gout with progressive renal impairment attributable to mutations of the uromodulin (UMOD) gene is associated with reduced uromodulin in the proximal tubule cilia. Familial juvenile hyperuricemic nephropathy (FJHN) is one of three similar clinical disorders associated with uromodulin gene mutations. Genetic studies of urate transportation and of uromodulin-related nephropathy emphasize the pivotal importance of the proximal tubule in uric acid homeostasis. Studies of allopurinol and febuxostat lowering of serum urate have once again raised the tantalizing possibility that hyperuricemia is harmful to the kidneys by showing better preservation of glomerular filtration rate (GFR) in treated patients. SummaryRenal tubular handling of uric acid is dependent on tubular transporters, one of which is GLUT9. Mutations of its gene SLC2A9 are associated with aberrations of uric acid disposal. Familial hyperuricemia due to uromodulin deficiency precedes but does not cause kidney failure. Nevertheless, both allopurinol and febuxostat treatment has sustained the hypothesis that hyperuricemia itself can have an adverse impact on kidney function.
Polymorphisms in the CLCN7 gene modulate bone density in postmenopausal women and in patients with autosomal dominant osteopetrosis type II.

CONTEXT Genetic factors are important determinants of bone mineral density (BMD). The fact that mutations in the ClC-7 chloride channel cause autosomal dominant osteopetrosis (ADOII) make the CLCN7 gene an attractive candidate for the regulation of bone density. OBJECTIVE The objective of the study was to investigate the association between polymorphisms in the CLCN7 gene and BMD in postmenopausal women and with clinical variability in ADOII. DESIGN This was a genetic association study using five single-nucleotide polymorphisms and a variable number tandem repeat (VNTR) polymorphism in the CLCN7 gene. PARTICIPANTS A total of 425 postmenopausal women aged 64 +/- 7 yr participated in the study. We also investigated an ADOII family with low penetrance comprising 18 mutation carriers. MAIN OUTCOME MEASURE(S) In our postmenopausal cohort, individual single-nucleotide polymorphism genotypes and haplotypes were analyzed for association with BMD at the lumbar spine and the femoral neck and with the bone resorption marker deoxypyridinoline (D-Pyr/Crea). The same polymorphisms on the nonmutated CLCN7 allele were investigated for association with the variability of the ADOII phenotype. RESULTS Analysis by multiple linear regression revealed a significant association between the ss genotype of the VNTR and higher Z-score values (P = 0.029). The haplotype 4, which comprises the long allele of the VNTR, was found to be significantly associated with lower femoral neck Z-score values (P = 0.011). Furthermore, we found an association of the ss genotype of the VNTR with lower levels of the bone resorption marker D-Pyr/Crea (P = 0.015), whereas haplotype 4 was associated with higher D-Pyr/Crea levels (P = 0.039). In the ADOII family, we could demonstrate that haplotype 3, which contains the s-allele of the VNTR, is associated with a slightly higher probability that mutation carriers develop osteopetrosis (P = 0.029). In both cases the association seems largely to be driven by the VNTR genotype but is further strengthened if surrounding polymorphisms are added to the analysis. CONCLUSION We observed a significant association of CLCN7 polymorphisms with the variance of BMD and bone resorption marker levels in postmenopausal women and with the variability of the ADOII phenotype.
A general best‐fit method for concentration‐response curves and the estimation of low‐effect concentrations

Risk assessments of toxic chemicals currently rely heavily on the use of no‐observed‐effect concentrations (NOECs). Due to several crucial flaws in this concept, however, discussion of replacing NOECs with statistically estimated low‐effect concentrations continues. This paper describes a general best‐fit method for the estimation of effects and effect concentrations by the use of a pool of 10 different sigmoidal regression functions for continuous toxicity data. Due to heterogeneous variabilities in replicated data (i.e., heteroscedasticity), the concept of generalized least squares is used for the estimation of the model parameters, whereas a nonparametric variance model based on smoothing spline functions is used to describe the heteroscedasticity. To protect the estimates against outliers, the generalized least‐squares method is improved by winsorization. On the basis of statistical selection criteria, the best‐fit model is chosen individually for each set of data. Furthermore, the bootstrap methodology is applied for constructing confidence intervals for the estimated effect concentrations. The best‐fit method for the estimation of low‐effect concentrations is validated by a simulation study, and its applicability is demonstrated with toxicity data for 64 chemicals tested in an algal and a bacterial bioassay. In comparison with common methods of concentration‐response analysis, a clear improvement is achieved.
Avoiding TLB Shootdowns Through Self-Invalidating TLB Entries

Updates to a process's page table entry (PTE) renders any existing copies of that PTE in any of a system's TLBs stale. To prevent a process from making illegal memory accesses using stale TLB entries, the operating system (OS) performs a costly TLB shootdown operation. Rather than explicitly issuing shootdowns, we propose a coordinated TLB and page table management mechanism where an expirationtime is associated with each TLB entry. An expired TLB entry is treated as invalid. For each PTE, the OS then tracks the latest expiration time of any TLB entry potentially caching that PTE. No shootdown is issued if the OS modifies a PTE when its corresponding latest expiration time has already passed.In this paper, we explain the hardware and OS support required to support Self-invalidating TLB entries (SITE). As an emerging use case that needs fast TLB shootdowns, we consider memory systems consisting of different types of memory (e.g., faster DRAM and slower non-volatile memory) where aggressive migrations are desirable to keep frequently accessed pages in faster memory, but pages cannot migratetoo often because each migration requires a PTE update and corresponding TLB shootdown. We demonstrate that such heterogeneous memory systems augmented with SITE can allow an average performance improvement of 45.5% over a similar system with traditional TLB shootdowns by avoiding more than 65% of the shootdowns.