Miracle-dz/UniFAR-FTUs huggingface dataset:
Chromatin Structure in Neuronal and Neuroglial Cell Nuclei as a Function of Age

Abstract: Nuclei from the cerebral cortices of animals of different ages were separated into neuronal and neuroglial populations. Nuclei from cerebellar neurons were also studied. Using the enzyme micrococcal nuclease as a probe for chromatin structure, we found that the DNA from both neuronal preparations showed a decreased susceptibility to digestion during aging, although the onset of this alteration varies. In addition, both neuronal populations showed dramatic increases in the nucleosome spacing of the chromatin. Cerebral neuronal chromatin has a repeat length (nucleosome core and linker region) of 164 base pairs at 22 days and 11 months, 186 base pairs at 24 months, and 199 base pairs at 30 months. Cerebellar neuronal chromatin has a repeat of 188 base pairs at both 22 days and 11 months, 208 base pairs at 24 months, and 243 base pairs at 30 months. Neuroglial chromatin, on the other hand, showed no change in either accessibility to nuclease or repeat length.
The nuclear localization of WAP and CSN genes is modified by lactogenic hormones in HC11 cells

Whey acidic protein (WAP) and casein (CSN) genes are among the most highly expressed milk protein genes in the mammary gland of the lactating mouse. Their tissue‐specific regulation depends on the activation and recruitment of transcription factors, and chromatin modifications in response to hormonal stimulation. We have investigated if another mechanism, such as specific positioning of the genes in the nucleus, could be involved in their functional regulation. Fluorescent in situ hybridization was used to study the nuclear localization of WAP and CSN genes in mouse mammary epithelial cells (HC11) cultured in the absence and presence of lactogenic hormones. Automatic 3D image processing and analysis tools were developed to score gene positions. In the absence of lactogenic hormones, both genes are distributed non‐uniformly within the nucleus: the CSN locus was located close to the nuclear periphery and the WAP gene tended to be central. Stimulation by lactogenic hormones induced a statistically significant change to their distance from the periphery, which has been described as a repressive compartment. The detection of genes in combination with the corresponding chromosome‐specific probe revealed that the CSN locus is relocated outside its chromosome territory following hormonal stimulation, whereas the WAP gene, which is already sited more frequently outside its chromosome territory in the absence of hormones, is not affected. We conclude that milk protein genes are subject to nuclear repositioning when activated, in agreement with a role for nuclear architecture in gene regulation, but that they behave differently as a function of their chromosomal context. J. Cell. Biochem. 105: 262–270, 2008. © 2008 Wiley‐Liss, Inc.
Dysgranular retrosplenial cortex lesions in rats disrupt cross-modal object recognition

The retrosplenial cortex supports navigation, with one role thought to be the integration of different spatial cue types. This hypothesis was extended by examining the integration of nonspatial cues. Rats with lesions in either the dysgranular subregion of retrosplenial cortex (area 30) or lesions in both the granular and dysgranular subregions (areas 29 and 30) were tested on cross-modal object recognition (Experiment 1). In these tests, rats used different sensory modalities when exploring and subsequently recognizing the same test objects. The objects were first presented either in the dark, i.e., giving tactile and olfactory cues, or in the light behind a clear Perspex barrier, i.e., giving visual cues. Animals were then tested with either constant combinations of sample and test conditions (light to light, dark to dark), or changed “cross-modal” combinations (light to dark, dark to light). In Experiment 2, visual object recognition was tested without Perspex barriers, but using objects that could not be distinguished in the dark. The dysgranular retrosplenial cortex lesions selectively impaired cross-modal recognition when cue conditions switched from dark to light between initial sampling and subsequent object recognition, but no impairment was seen when the cue conditions remained constant, whether dark or light. The combined (areas 29 and 30) lesioned rats also failed the dark to light cross-modal problem but this impairment was less selective. The present findings suggest a role for the dysgranular retrosplenial cortex in mediating the integration of information across multiple cue types, a role that potentially applies to both spatial and nonspatial domains.
Mitochondrial metabolism in hematopoietic stem cells requires functional FOXO3

Hematopoietic stem cells (HSC) are primarily dormant but have the potential to become highly active on demand to reconstitute blood. This requires a swift metabolic switch from glycolysis to mitochondrial oxidative phosphorylation. Maintenance of low levels of reactive oxygen species (ROS), a by‐product of mitochondrial metabolism, is also necessary for sustaining HSC dormancy. Little is known about mechanisms that integrate energy metabolism with hematopoietic stem cell homeostasis. Here, we identify the transcription factor FOXO3 as a new regulator of metabolic adaptation of HSC. ROS are elevated in Foxo3−/− HSC that are defective in their activity. We show that Foxo3−/− HSC are impaired in mitochondrial metabolism independent of ROS levels. These defects are associated with altered expression of mitochondrial/metabolic genes in Foxo3−/− hematopoietic stem and progenitor cells (HSPC). We further show that defects of Foxo3−/− HSC long‐term repopulation activity are independent of ROS or mTOR signaling. Our results point to FOXO3 as a potential node that couples mitochondrial metabolism with HSC homeostasis. These findings have critical implications for mechanisms that promote malignant transformation and aging of blood stem and progenitor cells.
Quality Estimation of English-Hindi Outputs using Naive Bayes Classifier

In this paper we present an approach for estimating the quality of machine translation system. There are various methods for estimating the quality of output sentences, but in this paper we focus on Na\"ive Bayes classifier to build model using features which are extracted from the input sentences. These features are used for finding the likelihood of each of the sentences of the training data which are then further used for determining the scores of the test data. On the basis of these scores we determine the class labels of the test data.
Trait Associations across Evolutionary Time within a Drosophila Phylogeny: Correlated Selection or Genetic Constraint?

Traits do not evolve independently. To understand how trait changes under selection might constrain adaptive changes, phenotypic and genetic correlations are typically considered within species, but these capture constraints across a few generations rather than evolutionary time. For longer-term constraints, comparisons are needed across species but associations may arise because of correlated selection pressures rather than genetic interactions. Implementing a unique approach, we use known patterns of selection to separate likely trait correlations arising due to correlated selection from those reflecting genetic constraints. We examined the evolution of stress resistance in >90 Drosophila species adapted to a range of environments, while controlling for phylogeny. Initially we examined the role of climate and phylogeny in shaping the evolution of starvation and body size, two traits previously not examined in this context. Following correction for phylogeny only a weak relationship between climate and starvation resistance was detected, while all of the variation in the relationship between body size and climate could be attributed to phylogeny. Species were divided into three environmental groups (hot and dry, hot and wet, cold) with the expectation that, if genetic correlations underpin trait correlations, these would persist irrespective of the environment, whereas selection-driven evolution should produce correlations dependent on the environment. We found positive associations between most traits in hot and dry environments coupled with high trait means. In contrast few trait correlations were observed in hot/wet and cold environments. These results suggest trait associations are primarily driven by correlated selection rather than genetic interactions, highlighting that such interactions are unlikely to limit evolution of stress resistance.
A research trend of pretreatment in bioethanol production process with lignocellulosic biomass: a literature review.

Lignocellulosic biomass is the most abundant raw material for bioconversion in many country. However the high costs for pretreatment and enzymatic hydrolysis currently deter commercialization of lignocellulosic biomass, especially wood biomass which is considered as the most recalcitrant material for enzymatic hydrolysis mainly due to the high lignified structure and the nature of the lignin component. Therefore, overcoming recalcitrance of lignocellulosic biomass for converting carbohydrates into intermediates that can subsequently be converted into biobased fuels and biobased products is the primary technical and economic challenge for bioconversion process. This study was mainly reviewed on the research trend of pretreatment with lignocellulosic biomass in bioethanol production process.
Uniting cartoon textures with computer assisted animation

We present a novel method to create perpetual animations from a small set of given keyframes. Existing approaches either are limited to re-sequencing large amounts of existing image/video data, or to interpolating vector based drawings.Our approach benefits from several ideas and techniques from video textures, computer-assisted animation and motion graphs. It combines the re-sequencing of existing material with the automatic generation of new data. Furthermore, the animator can interfere with the animation process at each arbitrary moment.First, a given set of keyframes is used to automatically generate a set of in-betweens. The amount of in-betweens required, depends on a distance metric preventing possible visual discontinuities. Next, an optimised cost graph is derived from the generated frames, indicating for all keyframes how many steps are required to travel from one keyframe to another. Finally, by rearranging the generated sets of in-betweens according to the cost graph, new animations can be synthesised from the generated data.The resulting animations are smooth, broader than the input data and require no postprocessing.
After vs. priming effects of anodal transcranial direct current stimulation on upper extremity motor recovery in patients with subacute stroke.

PURPOSE Transcranial direct current stimulation (tDCS) of the motor cortex seems to be effective in improving motor performance in patients with chronic stroke, while some recent findings have reported conflicting results for the subacute phase. We aimed to verify whether upper extremity motor rehabilitation could be enhanced by treatment with tDCS administered before a rehabilitative session. METHODS Hand dexterity and force in 16 individuals with subacute stroke were assessed before (T0) and after anodal stimulation (T1) and after a successive session of motor rehabilitation (T2) in a double-blind, randomized, sham-controlled, crossover trial. To confirm the value of the device as a specific effector, behavioral tests were also administered. RESULTS Anodal and sham stimulation plus rehabilitation significantly improved manual dexterity (repeated-measure Anova: A-tDCS: p = 0.005; S-tDCS: p = 0.042). Post hoc analysis revealed a significant stimulation effect only for A-tDCS (p = 0.013 between T0 and T1) and not for S-tDCS, whereas the rehabilitation effect (between T1 and T2) was not significant in either group. Hand force and behavioral features were unchanged. CONCLUSIONS Anodal brain stimulation improves hand dexterity but does not increase the effectiveness of the rehabilitation directly. These results suggest the presence of aftereffects, not priming effects, of A-tDCS superimposed onto motor learning phenomena.
Supportive Instances for Regularized Multiple Criteria Linear Programming Classification

Although classification models based on multiple criteria progarmming receive many attentions in recent years, their essence of taking every training instances into considering makes them too senstive to noisy or imbalanced samples. To overcome this shortage, in this paper, we propose a clusering based algorithm to find the representative (also called supportive) instances for a most recent multiple criteria programming classification model, the Rregularized Multiple Criteria Linear Programming (RMCLP) model, just as Support Vector Machine (SVM) finding the support vectors. Our new algorithm selects instances which locate around the clustering center as the supportive instances, and then bulid RMCLP model using only these supportive instancs. Experimental results on synthetic and real-life datasets show that our method not only improves the performance of RMCLP, but also reduces the number of training instances, which can significantly save costs in business world because labeling training samples is usually expensive and sometimes impossible.
NBTI aging evaluation of PUF-based differential architectures

Silicon Physical Unclonable Functions (PUFs) have emerged as novel cryptographic primitives, with the ability to generate unique chip identifiers and cryptographic keys by exploiting intrinsic manufacturing process variations. The “Two Choose One” PUF (TCO-PUF) has recently been proposed. It is based on a differential architecture and exploits the non-linear relationship between current and voltage in the subthreshold operating region. As CMOS technology scales down, aging-induced Negative Bias Temperature Instability (NBTI) is becoming more pronounced, resulting in reliability issues for the PUF response. Differential design techniques can be useful for mitigating and canceling out first-order environmental dependencies such as aging, temperature and supply voltage. In this study, we investigate the robustness of PUFs with differential architectures, such as TCO-PUF and Arbiter-PUF, under the influence of NBTI. Our results indicate PUFs with differential architectures are less vulnerable to aging-related degradation compared to other PUF designs such as RO-PUF and SRAM-PUF. We show that the reliability of TCO-PUF and Arbiter-PUF only degrades by about 4.5% and 2.41%, respectively, after 10 years, while RO-PUFs and SRAM-PUFs degrade by about 12.76% in 10 years and 7% in 4.5 years, respectively.
Automatic estimation of the optimal AR order for epilepsy analysis using EEG signals

In this paper, we propose a computationally efficient method to estimate the optimal order of the autoregressive (AR) modeling of electroencephalographic (EEG) signals in order to use the AR coefficients as features for the analysis of EEG signals and the automatic detection of epileptic seizures. The estimation of the optimal AR-order is made using regression analysis of statistical features extracted from the samples of the EEG signals. The proposed method was evaluated in both background and ictal EEG segments using recordings from 10 epileptic patients. The experimental evaluation showed that the mean absolute error of the estimated optimal AR order is approximately 4 units.
The Human-Computer System: Towards an Operational Model for Problem Solving

We take a visual analytics approach towards an operational model of the human-computer system. In particular, the approach combines ideas from (human-centered) interactive visualization and cognitive science. The model we derive is a first step on the path to a more complete evaluated and validated model. However, even at this stage important principles can be extracted for visual analytics systems that closely couple automated analyses with human analytic reasoning and decision-making. These improved systems can then be applied effectively to difficult, open-ended problems involving complex data. Another advantage of this approach is that specific gaps are revealed in both visual analytics methods and cognitive science understanding that must be filled in order to create the most effective systems. Related to this is that the resulting visual analytics systems built upon the human-computer model will provide testbeds to further evaluate and extend cognitive science principles.
Evidence for gene flow in parasitic nematodes between two host species of shrews

We describe the genetic structure of populations of the intestinal nematode Longistriata caudabullata (Trichostrongyloidea: Heligmosomidae), a common parasite of short‐tailed shrews (genus Blarina, Insectivora: Soricidae). Parasites and hosts were collected from a transect across a contact zone between two species of hosts, Blarina brevicauda and B. hylophaga, in central North America. An 800‐base pairs (bp) fragment of the ND4 mitochondrial DNA (mtDNA) gene was sequenced for 28 worms and a 783‐bp fragment of the mtDNA control region was analysed for 16 shrews. Phylogenetic analyses of mtDNA sequences revealed reciprocal monophyly for the shrew species, concordant with morphological diagnosis, and supported the idea that the transect cuts through a secondary contact zone between well‐differentiated B. brevicauda and B. hylophaga. In contrast to this pattern, the parasitic nematode mtDNA phylogeny was not subdivided according to host affiliation. Genealogical discordance between parasite and host phylogenies suggests extensive gene flow among parasites across the host species boundary.
Alzheimer disease: An interactome of many diseases

Alzheimer Disease (AD) is an outcome as well as source of many diseases. Alzheimer is linked with many other diseases like Diabetes type 2, cholesterolemia, hypertension and many more. But how each of these diseases affecting other is still unknown to scientific community. Signaling Pathways of one disease is interlinked with other disease. But to what extent healthy brain is affected when any signaling in human body is disturbed is the question that matters. There is a need of Pathway analysis, Protein-Protein interaction (PPI) and the conserved interactome study in AD and linked diseases. It will be helpful in finding the potent drug or vaccine target in conscious manner. In the present research the Protein-Protein interaction of all the proteins involved in Alzheimer Disease is analyzed using ViSANT and osprey tools and pathway analysis further reveals the significant genes/proteins linking AD with other diseases.
Initial beamforming for mmWave communications

Cellular systems were designed for carrier frequencies in the microwave band (below 3 GHz) but will soon be operating in frequency bands up to 6 GHz. To meet the ever increasing demands for data, deployments in bands above 6 GHz, and as high as 75 GHz, are envisioned. However, as these systems migrate beyond the microwave band, certain channel characteristics can impact their deployment, especially the coverage range. To increase coverage, beamforming can be used but this role of beamforming is different than in current cellular systems, where its primary role is to improve data throughput. Because cellular procedures enable beamforming after a user establishes access with the system, new procedures are needed to enable beamforming during cell discovery and acquisition. This paper discusses several issues that must be resolved in order to use beamforming for access at millimeter wave (mmWave) frequencies, and presents solutions for initial access. Several approaches are verified by computer simulations, and it is shown that reliable network access and satisfactory coverage can be achieved in mmWave frequencies.
Embedded SI Partial Transmit Sequence with improved bit error rate

OFDM is a multicarrier modulation scheme with high bandwidth efficiency and robustness to multipath environment used in high data rate transmission. However, a drawback of this system is the large peak-to-average-power ratio (PAR) of the transmit signal which makes its straightforward implementation quite costly. PAR in an OFDM based system can be reduced significantly by PTS method for which data recovery requires side information (SI) about the phases used at transmitter. Sending SI, not only reduces the rate, but also increases BER, for any error in SI detection can damage a large amount of transmitted information. By introducing a new phase set, we propose a PTS based method for MPSK modulation that doesnpsilat need to explicitly send side information. Simulation results demonstrate the good performance of proposed method in PAR reduction at the expense of adding a little more complexity to the receiver structure. The main drawback of this method is BER degradation in modulations with alphabet size greater than 8. To reduce BER, another algorithm based on set partitioning is suggested. Simulation results show that by degradation of about 0.4dB in PAR reduction, SNR can improve about 2dB when the modulation is 16PSK.
3‐O‐Methylfunicone, a secondary metabolite produced by Penicillium pinophilum, induces growth arrest and apoptosis in HeLa cells

Abstract. 3‐O‐Methylfunicone (OMF) is a secondary metabolite produced by the soil fungus Penicillium pinophilum which has cytostatic properties. The aim of this study was to investigate the mechanisms by which such properties are exerted, with special reference to any anti‐proliferative and apoptotic potential, on HeLa cells. OMF treatment caused about 44% inhibition of cell growth after 24 h, and modifications in the tubulin fibre organization. In addition, a significant increase in p21 mRNA expression and a decrease in cyclin D1 and Cdk4 mRNA expression resulted at the same time. Apoptosis induction was demonstrated by the annexin V assay, cytofluorimetric analysis of the DNA content of the sub‐G1 fraction and DNA laddering. Taken together, our data showed that the compound inhibits proliferation of HeLa cells by several mechanisms, such as disruption of tubulin fibres, cell cycle arrest and apoptosis induction. The capacity of the compound to affect the cell cycle and to modulate apoptosis is indicative of a potential for the development of a new agent for cancer chemotherapy.
Enabling Attributes for Team-Based Knowledge Sharing: A Preliminary Empirical Test

This study proposes and empirically tests a conceptual model of knowledge sharing in a team-based environment. Relationships among people in organizations play a significant role in the transfer of knowledge. Using social psychology as our theoretical frame of reference, we propose that empathy and helping behaviors lead to enhanced knowledge sharing. A written survey was developed and piloted to test these two enabling conditions. Our data show that both result in higher levels of transacting behaviors in which knowledge is shared.
Interactive splatting of nonrectilinear volumes

Various techniques are described for achieving interactive direct volume rendering of nonrectilinear data sets using fast projection (splatting) methods. The use of graphics hardware, rendering approximations, parallelization and reduced resolution meshes are discussed. Results from the use of these techniques are presented in the form of color photos and comparative timings. <<ETX>>