Miracle-dz/UniFAR-FTUs huggingface dataset:
The p53 inhibitor Mdm4 cooperates with multiple genetic lesions in tumourigenesis

The p53 inhibitor Mdm4 is present at high levels in multiple human cancers. Overexpression of Mdm4 in mice drives the spontaneous development of mostly lymphomas and sarcomas. In this study, we explored the ability of Mdm4 to cooperate with lesions in tumour development. The Mdm4 transgene contributed to mammary tumour development in a BALB/cJ background. High levels of Mdm4 enhanced tumour development in a mutant p53R172H heterozygous background, and reduced the need to lose the wild‐type p53 allele, as compared with mice heterozygous only for the p53R172H mutation. Additionally, high levels of Mdm4 cooperated with an oncogenic K‐ras mutation to drive lung tumourigenesis in vivo. Finally, we examined p53‐independent functions of Mdm4 by studying the contribution of Mdm4 to tumour development in the absence of p53. Whereas the overall survival times of p53‐null mice with and without the Mdm4 transgene were similar, male mice with both alterations showed significantly shorter survival than p53‐null male mice, and showed differences in tumour spectrum, demonstrating a p53‐independent function of Mdm4 in tumourigenesis. Furthermore, p53‐null mice with the highest level of Mdm4 tended to have multiple tumours. Thus, a detailed analysis of Mdm4 transgenic mice in various genetic backgrounds shows synergy in tumour development in vivo. Mdm4 may thus serve as a therapeutic target in cancers. Copyright © 2016 Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.
Yield‐aware sizing of pipeline ADC using a multiple‐objective evolutionary algorithm

In this paper, an efficient and highly accurate algorithm for yield‐aware design of pipeline analog to digital converters (ADCs) based on a four‐step approach is presented. First, a general netlist is generated for the data converter building blocks. Then, using an evolutionary method, its best performance sizing is estimated. Finally, the yield gets enhanced to reach a desired value. With the same accuracy, the presented algorithm can achieve yield optimization by approximately five times less computational cost compared with a state‐of‐the‐art MC‐based method. The framework is applied to demonstrate a reliable converter with optimum performance, power consumption, speed and area overhead during a single running process. A prototype 10‐bit resolution, 10‐MS/s pipeline analog to digital converter has been simulated in a 0.18‐µm 1.8‐V CMOS process. Presented results, applying the proposed method, show important advantages in terms of accuracy and efficiency. Copyright © 2016 John Wiley & Sons, Ltd.
Critical success factors in enterprise resource planning systems: Review of the last decade

Organizations perceive ERP as a vital tool for organizational competition as it integrates dispersed organizational systems and enables flawless transactions and production. This review examines studies investigating Critical Success Factors (CSFs) in implementing Enterprise Resource Planning (ERP) systems. Keywords relating to the theme of this study were defined and used to search known Web engines and journal databases for studies on both implementing ERP systems per se and integrating ERP systems with other well- known systems (e.g., SCM, CRM) whose importance to business organizations and academia is acknowledged to work in a complementary fashion. A total of 341 articles were reviewed to address three main goals. This study structures previous research by presenting a comprehensive taxonomy of CSFs in the area of ERP. Second, it maps studies, identified through an exhaustive and comprehensive literature review, to different dimensions and facets of ERP system implementation. Third, it presents studies investigating CSFs in terms of a specific ERP lifecycle phase and across the entire ERP life cycle. This study not only reviews articles in which an ERP system is the sole or primary field of research, but also articles that refer to an integration of ERP systems and other popular systems (e.g., SCM, CRM). Finally it provides a comprehensive bibliography of the articles published during this period that can serve as a guide for future research.
Hydraulic engineering in the social-ecological delta: understanding the interplay between social, ecological, and technological systems in the Dutch delta by means of “delta trajectories”

Several of the world's largest deltas have recently been conceptualized as social-ecological delta systems. Although such conceptualizations are valuable in emphasizing complex interaction between social actors and ecological processes in deltas, they do not go into specific dynamics that surround technological developments in the hydraulic domain. By drawing from concepts originating in socio-technical systems research, we stress the importance of technology, particularly the domain of hydraulic engineering, in shaping a delta’s future. Based on two geographically distinct cases of flood management infrastructure in the Dutch delta, we demonstrate the influence of existing hydraulic works, in mutual interaction with social responses and environmental processes, on the development of the congregated delta system over time. The delta trajectory concept is introduced as a way to understand the interplay between social, ecological, and technological systems in deltas. We discuss options to realign unsustainable pathways with more desirable ones. Adaptive delta management presents a policy environment where these messages may be picked up.
Color as a stimulus for feed consumption.

Abstract BOTH young and mature chickens, in common with most birds, belong to that group of animals which have a relatively well developed ability for visual discrimination. This ability extends to a differentiation between certain areas of the color spectrum (Guhl, 1962; Gunter, 1964; Kilham et al., 1968; Malott, 1968; and Taylor et al., 1969). The fact that this ability does exist presents certain opportunities to use color as a natural stimulus for desirable responses in many behavioral patterns. The present study was designed to investigate whether a response in feed consumption could be achieved by the use of colored feed and feeders and also the effect of the position of the feeders on consumption. MATERIALS AND METHODS Four hundred pure strain White Leghorn pullets, which had been in production for approximately eight weeks, were randomly distributed into four groups and placed in four litter floor pens. Each group had access…
OsFTIP1-Mediated Regulation of Florigen Transport in Rice Is Negatively Regulated by the Ubiquitin-Like Domain Kinase OsUbDKγ4

OsFTIP1, whose abundance is regulated by OsUbDKγ4 through the 26S proteasome pathway, affects rice flowering under long days (LDs) via modulating transport of the LD-specific florigen RFT1. Flowering time is a critical agronomic trait that determines successful seed production and adaptation of crop plants. Photoperiodic control of this process in flowering plants is mediated by the long-distance mobile signal called florigen partly encoded by FLOWERING LOCUS T (FT) in Arabidopsis thaliana and its orthologs in other plant species. Despite the progress in understanding FT transport in the dicot model Arabidopsis, the mechanisms of florigen transport in monocots, which provide most of the biomass in agriculture, are unknown. Here, we show that rice FT-INTERACTING PROTEIN1 (OsFTIP1), a member of the family of multiple C2 domain and transmembrane region proteins (MCTPs) and the closest ortholog of Arabidopsis FTIP1, is required for export of RICE FLOWERING LOCUS T 1 (RFT1) from companion cells to sieve elements. This affects RFT1 movement to the shoot apical meristem and its regulation of rice flowering time under long days. We further reveal that a ubiquitin-like domain kinase γ4, OsUbDKγ4, interacts with OsFTIP1 and modulates its degradation in leaves through the 26S proteasome, which in turn affects RFT1 transport to the shoot apical meristem. Thus, dynamic modulation of OsFTIP1 abundance in leaves by a negative regulator OsUbDKγ4 is integral to the role of OsFTIP1 in mediating RFT1 transport in rice and provides key evidence for a conserved role of FTIP1-like MCTPs in mediating florigen transport in flowering plants.
Nutritional evaluation of lectin-free soybeans for poultry.

This study evaluated the nutritional value of raw lectin-free soybeans in comparison with raw Kunitz trypsin inhibitor-free soybeans, raw conventional soybeans, and commercial heat processed soybean meal (SBM). Analyzed lectin values (milligrams per kilogram) were 7.2, 7.1, and < 0.00015 for the Kunitz-free, conventional, and lectin-free soybeans, respectively. Three experiments were conducted using New Hampshire x Columbian male chicks fed 23% CP dextrose-soybean diets from 8 to 17 d of age. Growth performance of chicks fed lectin-free soybeans was greater (P < 0.05) than that of chicks fed raw conventional soybeans in all three experiments. However, performance of chicks fed lectin-free soybeans was lower than that of chicks fed Kunitz-free soybeans or SBM. The SBM yielded weight gains and feed efficiencies that were much higher than those observed from any of the raw soybeans. True amino acid digestibility and TMEn of the lectin-free and conventional soybeans were determined using the precision-fed cecectomized rooster assay. Seven roosters were crop-intubated with 30 g of soybeans and excreta were collected for 48 h. Digestibility coefficients of most amino acids for lectin-free soybeans were 5 to 8 percentage units higher than those for conventional soybeans, but the differences were not significant (P > 0.05). Likewise, the TMEn for lectin-free soybeans was 11% higher than that for raw conventional soybeans (3.577 vs 3.227 kcal/g DM) but the difference was not significant (P > 0.05). The results of this study indicate that the nutritional value of raw lectin-free soybeans is greater than raw conventional soybeans but is less than raw Kunitz-free soybeans and SBM, suggesting that trypsin inhibitor is a greater antinutritional factor than lectins.
Endogenous peripheral hydrogen sulfide is propyretic: its permissive role in brown adipose tissue thermogenesis in rats

What is the central question of this study? In fever, the most striking response in the acute phase reaction of systemic inflammation, plasma H2S concentration increases. However, the role of endogenous peripheral H2S in fever is unknown. What is the main finding and its importance? Endogenous peripheral H2S is permissive for increased brown adipose tissue thermogenesis to maintain thermal homeostasis in cold environments as well as to mount fever. This finding expands the physiological role of the gaseous modulator as a key regulator of thermal control in health (thermal homeostasis) and disease (fever in systemic inflammation).
Nonamplification ERBB2 genomic alterations in 5605 cases of recurrent and metastatic breast cancer: An emerging opportunity for anti‐HER2 targeted therapies

Activating, nonamplification ERBB2 mutations (ERBB2mut) are not detected by immunohistochemistry (IHC) or fluorescence in situ hybridization (FISH), but are detected by DNA sequencing and may predict clinical responses to human epidermal growth factor receptor (HER2)‐targeted therapy. The authors queried 5605 advanced/metastatic breast cancers (mBC) to uncover the frequency of ERBB2mut genomic alterations. Clinical responses to anti‐HER2 therapeutics were identified.
Bootstrapping and Multiple Imputation Ensemble Approaches for Missing Data

Presence of missing values in a dataset can adversely affect the performance of a classifier; it deteriorates rapidly as missingness increases. Single and Multiple Imputation (MI) are normally performed to fill in the missing values. In this paper, we present several variants of combining MI and bootstrapping to create ensemble that can model uncertainty and diversity in the data and that are robust to high missingness in the data. We present three ensemble strategies: bootstrapping on incomplete data followed by single imputation and MI, and MI ensemble without bootstrapping. We use mean imputation, Gaussian random imputation and expectation maximization as the base imputation methods to be used in these ensemble strategies. We perform an extensive evaluation of the performance of the proposed ensemble strategies on 8 datasets by varying the missingness ratio. Our results show that bootstrapping followed by average of MIs using expectation maximization is the most robust method that prevents the classifier's performance from degrading, even at high missingness ratio (30%). For small missingness ratio (up to 10%) most of the ensemble methods perform equivalently but better than their single imputation counterparts. Kappa-error plots suggest that accurate classifiers with reasonable diversity is the reason for this behaviour. A consistent observation in all the datasets suggests that for small missingness (up to 10%), bootstrapping on incomplete data without any imputation produces equivalent results to other ensemble methods with imputations.
Anomalous Moisture Diffusion in an Epoxy Adhesive Detected by Magnetic Resonance Imaging

Non-Fickian or anomalous diffusion is frequently observed when the absorption of moisture by a polymer is being studied. Different models have been presented in the literature that can accurately predict the trends of the weight-gain curves. However, it is not always clear which of these models yield good predictions of moisture distribution. This article presents a time-resolved moisture distribution study of an epoxy sample immersed in deuterated water (D2O) at 70°C over a period of 2.5 months. The moisture distribution was measured during that period with a novel high-resolution magnetic resonance imaging technique that is well adapted to the imaging of thin plates. The experimental results showed that the concentration of D2O at the surface of the sample increased with time, even after 2.5 months. These results were used to evaluate the performance of several standard diffusion models. Although this study is phenomenological, it appears that a model featuring time-varying boundary conditions yields the best representation of moisture absorption for these samples. © 2008 Wiley Periodicals, Inc. J Appl Polym Sci, 2008
Effect of dietary supplemental levels of vitamin A on the egg production and immune responses of heat-stressed laying hens.

Two experiments were conducted to evaluate the effect of vitamin A supplementation of a commercial layer diet on the laying performance and immune function of heat-stressed hens. In Experiment 1, two different levels of vitamin A supplementation (3,000 and 9,000 IU/kg) were used to investigate the laying performance and antibody titer against Newcastle disease virus (NDV) of heat-stressed hens. Results showed that the high level of vitamin A supplementation (9,000 IU/kg) had a beneficial effect on the feed intake and laying rate of heat-stressed hens (P < 0.05), compared with the control group (3,000 IU/kg). The antibody titers were not influenced by the level of vitamin A (P > 0.05). In Experiment 2, the effect of four levels of vitamin A (3,000, 6,000, 9,000, and 12,000 IU/kg) on the antibody titer to NDV and T lymphocyte proportion was studied. The experimental birds were exposed to a high temperature (31.5 C) 15 d after NDV vaccination (Treatment 1) or immediately (Treatment 2). The results showed that the egg weight was increased (P < 0.01) by the high levels of vitamin A supplementation (6,000 and 9,000 IU/kg), but feed intake, laying rate, and body weight loss were not (P > 0.05). In Treatment 1, vitamin A had no significant effect on antibody titers against NDV in normal or hot environments but increased (P < 0.01) the proportion of alpha-naphthyl acetate esterase (ANAE)-positive cells. Vitamin A supplementation had a significant effect on NDV antibody titer and ANAE-positive cell proportion in Treatment 2 (P < 0.01). The results of the present study suggested that vitamin A supplementation in commercial layer diets to layer chickens under heat stress was beneficial to laying performance and immune function.
Bisphenol S (BPS) Alters Maternal Behavior and Brain in Mice Exposed During Pregnancy/Lactation and Their Daughters

Estrogenic endocrine disrupting chemicals have been shown to disrupt maternal behavior in rodents. We investigated the effects of an emerging xenoestrogen, bisphenol S (BPS), on maternal behavior and brain in CD-1 mice exposed during pregnancy and lactation (F0 generation) and in female offspring exposed during gestation and perinatal development (F1 generation). We observed different effects in F0 and F1 dams for a number of components of maternal behavior, including time on the nest, time spent on nest building, latency to retrieve pups, and latency to retrieve the entire litter. We also characterized expression of estrogen receptor α in the medial preoptic area (MPOA) and quantified tyrosine hydroxylase immunoreactive cells in the ventral tegmental area, 2 brain regions critical for maternal care. BPS-treated females in the F0 generation had a statistically significant increase in estrogen receptor α expression in the caudal subregion of the central MPOA in a dose-dependent manner. In contrast, there were no statistically significant effects of BPS on the MPOA in F1 dams or the ventral tegmental area in either generation. This work demonstrates that BPS affects maternal behavior and brain with outcomes depending on generation, dose, and postpartum period. Many studies examining effects of endocrine disrupting chemicals view the mother as a means by which offspring can be exposed during critical periods of development. Here, we demonstrate that pregnancy and lactation are vulnerable periods for the mother. We also show that developmental BPS exposure alters maternal behavior later in adulthood. Both findings have potential public health implications.
Prevalence and mechanism of triazole resistance in Aspergillus fumigatus in a referral chest hospital in Delhi, India and an update of the situation in Asia

Aspergillus fumigatus causes varied clinical syndromes ranging from colonization to deep infections. The mainstay of therapy of Aspergillus diseases is triazoles but several studies globally highlighted variable prevalence of triazole resistance, which hampers the management of aspergillosis. We studied the prevalence of resistance in clinical A. fumigatus isolates during 4 years in a referral Chest Hospital in Delhi, India and reviewed the scenario in Asia and the Middle East. Aspergillus species (n = 2117) were screened with selective plates for azole resistance. The isolates included 45.4% A. flavus, followed by 32.4% A. fumigatus, 15.6% Aspergillus species and 6.6% A. terreus. Azole resistance was found in only 12 (1.7%) A. fumigatus isolates. These triazole resistant A. fumigatus (TRAF) isolates were subjected to (a) calmodulin and β tubulin gene sequencing (b) in vitro antifungal susceptibility testing against triazoles using CLSI M38-A2 (c) sequencing of cyp51A gene and real-time PCR assay for detection of mutations and (d) microsatellite typing of the resistant isolates. TRAF harbored TR34/L98H mutation in 10 (83.3%) isolates with a pan-azole resistant phenotype. Among the remaining two TRAF isolates, one had G54E and the other had three non-synonymous point mutations. The majority of patients were diagnosed as invasive aspergillosis followed by allergic bronchopulmonary aspergillosis and chronic pulmonary aspergillosis. The Indian TR34/L98H isolates had a unique genotype and were distinct from the Chinese, Middle East, and European TR34/L98H strains. This resistance mechanism has been linked to the use of fungicide azoles in agricultural practices in Europe as it has been mainly reported from azole naïve patients. Reports published from Asia demonstrate the same environmental resistance mechanism in A. fumigatus isolates from two highly populated countries in Asia, i.e., China and India and also from the neighboring Middle East.
GHz Serial Passive Clock Distribution in VLSI Using Bidirectional Signaling

Thr authors introduce a serial passive clock distribution technique allowing efficient and accurate skew removal at any arbitrary clock drop point. The passive transmission medium may be on-chip electrical transmission lines built in current IC technology or possible optical waveguides in future developments. The proposed technique is naturally insensitive to practical loses and other non ideal effects and has the capability of covering large chip areas
SGBEM (for Cracked Local Subdomain) -- FEM (for uncracked global Structure) Alternating Method for Analyzing 3D Surface Cracks and Their Fatigue-Growth

As shown in an earlier work, the FEM-BEM alternating method is an efficient and accurate method for fracture analysis. In the present paper, a further improvement is formulated and implemented for the analyses of three-dimensional arbitrary surface cracks by modeling the cracks in a local finite-sized subdomain using the symmetric Galerkin boundary element method (SGBEM). The finite element method is used to model the uncracked global (built-up) structure for obtaining the stresses in an otherwise uncracked body. The solution for the cracked structural component is obtained in an iteration procedure, which alternates between FEM solution for the uncracked body, and the SGBEM solution for the crack in the local finite-sized subdomain. The regularized version of the displacement and traction integral equations and their Galerkin weak forms are used. Examples for surface cracks in a finite-sized global structure demonstrate the accuracy and efficiency of the method. Also, the problem of fatigue-growth of an initially-semi-circular surface flaw, inclined to the direction of tensile loading in a plate, is studied; and the mixed-mode fatigue-crack-growth results are compared with experimental data reported in literature. keyword: SGBEM, FEM, alternating, surface crack.
Getting “Inside” Type I IFNs: Type I IFNs in Intracellular Bacterial Infections

Type I interferons represent a unique and complex group of cytokines, serving many purposes during innate and adaptive immunity. Discovered in the context of viral infections, type I IFNs are now known to have myriad effects in infectious and autoimmune disease settings. Type I IFN signaling during bacterial infections is dependent on many factors including whether the infecting bacterium is intracellular or extracellular, as different signaling pathways are activated. As such, the repercussions of type I IFN induction can positively or negatively impact the disease outcome. This review focuses on type I IFN induction and downstream consequences during infection with the following intracellular bacteria: Chlamydia trachomatis, Listeria monocytogenes, Mycobacterium tuberculosis, Salmonella enterica serovar Typhimurium, Francisella tularensis, Brucella abortus, Legionella pneumophila, and Coxiella burnetii. Intracellular bacterial infections are unique because the bacteria must avoid, circumvent, and even co-opt microbial “sensing” mechanisms in order to reside and replicate within a host cell. Furthermore, life inside a host cell makes intracellular bacteria more difficult to target with antibiotics. Because type I IFNs are important immune effectors, modulating this pathway may improve disease outcomes. But first, it is critical to understand the context-dependent effects of the type I IFN pathway in intracellular bacterial infections.
mu - biased quantum Fourier sampling

We show that DNF formulae can be quantum PAC-learned in polynomial time under product distributions using a quantum example oracle. The current best classical algorithm runs in superpolynomial time. Our result extends the work by Bshouty and Jackson (1998) that proved that DNF formulae are efficiently learnable under the uniform distribution using a quantum example oracle. Our proof is based on a new quantum algorithm that efficiently samples the coefficients of a μ–biased Fourier transform.