Miracle-dz/UniFAR-FTUs huggingface dataset:
Mutation of A677 in histone methyltransferase EZH2 in human B-cell lymphoma promotes hypertrimethylation of histone H3 on lysine 27 (H3K27)

Trimethylation of histone H3 on lysine 27 (H3K27me3) is a repressive posttranslational modification mediated by the histone methyltransferase EZH2. EZH2 is a component of the polycomb repressive complex 2 and is overexpressed in many cancers. In B-cell lymphomas, its substrate preference is frequently altered through somatic mutation of the EZH2 Y641 residue. Herein, we identify mutation of EZH2 A677 to a glycine (A677G) among lymphoma cell lines and primary tumor specimens. Similar to Y641 mutant cell lines, an A677G mutant cell line revealed aberrantly elevated H3K27me3 and decreased monomethylated H3K27 (H3K27me1) and dimethylated H3K27 (H3K27me2). A677G EZH2 possessed catalytic activity with a substrate specificity that was distinct from those of both WT EZH2 and Y641 mutants. Whereas WT EZH2 displayed a preference for substrates with less methylation [unmethylated H3K27 (H3K27me0):me1:me2 kcat/Km ratio = 9:6:1] and Y641 mutants preferred substrates with greater methylation (H3K27me0:me1:me2 kcat/Km ratio = 1:2:13), the A677G EZH2 demonstrated nearly equal efficiency for all three substrates (H3K27me0:me1:me2 kcat/Km ratio = 1.1:0.6:1). When transiently expressed in cells, A677G EZH2, but not WT EZH2, increased global H3K27me3 and decreased H3K27me2. Structural modeling of WT and mutant EZH2 suggested that the A677G mutation acquires the ability to methylate H3K27me2 through enlargement of the lysine tunnel while preserving activity with H3K27me0/me1 substrates through retention of the Y641 residue that is crucial for orientation of these smaller substrates. This mutation highlights the interplay between Y641 and A677 residues in the substrate specificity of EZH2 and identifies another lymphoma patient population that harbors an activating mutation of EZH2.
Impedance control and gain tuning of Flexible Base Moving Manipulators using PSO method

New gains tuning and impedance control method were addressed for flexible base moving manipulators. Slow and fast dynamics of robot are decoupled using singular perturbation method. Then, using sliding mode control method, an impedance control law was derived for the slow dynamics. Combined control law was proposed comprising the impedance control law and a feedback control law for the fast dynamics. As fist time, we proposed a new online particle swarm optimization algorithm for gain tuning of impedance control at the contact moments of end effector and unknown environments. This proposed sliding mode impedance controller and online PSO were simulated for a flexible base moving manipulator. Model is composed of a 2 DOF planar manipulator and a single DOF moving base with flexibility. This controller provides desired position/force control with satisfactory damped vibrations especially at the point of contact. Also, all impedance control coefficients were tuned converged by proposed online PSO algorithm after minimum contact moments.
Towards a Hybrid Rule-based and Statistical Arabic-French Machine Translation System

Arabic is a morphologically rich and complex language, which presents significant challenges for natural language processing and machine translation. In this paper, we describe an ongoing effort to build our first Arabic-French phrase‐ based machine translation system using the Moses decoder among other linguistic tools. The results show an improvement in the quality of translation and a gain in terms of Bleu score after introducing a pre-processing scheme for Arabic and applying some rules based on morphological variations of the source language. The proposed approach is completed without increasing the amount of training data or changing radically the algorithms that can affect the translation or training engines.
Progress with situation assessment and risk prediction in advanced driver assistance systems: A survey

In the field of automotive safety, advanced driver assistance systems (ADAS) are receiving growing attention. Effective ADAS requires awareness of the actual driving situation, a reliable assessment of the risks, and making rapid decisions on assisting actions. This paper reviews the current progress in these complementing subfields. The goal is to explore and critically analyze the most promising technological solutions and system application concepts. In order to systematize our study, first a reasoning model is introduced. Then, a detailed study of the different situation and risk evaluation methods currently applied in automotive safety systems is presented. Our first observation has been that the general thinking about ADAS reflects a ‘perception, analysis, decision and action’ pattern. In addition, we observed that situation and risk assessment is typically restricted both by the number of factors considered, and by a limited consideration of drivers’ attitudinal behavior. Though a huge amount of research knowledge has been published, there are still several gaps in the knowledge related to understanding and handling complex driving situations. We will use the information gathered in this survey to determine the most critical factors for ADAS, to extend risk assessment with consideration of human individual characteristics, and to develop a driveradaptive reasoning model.
Optimization Problems for Fast AAM Fitting in-the-Wild

We describe a very simple framework for deriving the most-well known optimization problems in Active Appearance Models (AAMs), and most importantly for providing efficient solutions. Our formulation results in two optimization problems for fast and exact AAM fitting, and one new algorithm which has the important advantage of being applicable to 3D. We show that the dominant cost for both forward and inverse algorithms is a few times mN which is the cost of projecting an image onto the appearance subspace. This makes both algorithms not only computationally realizable but also very attractive speed-wise for most current systems. Because exact AAM fitting is no longer computationally prohibitive, we trained AAMs in-the-wild with the goal of investigating whether AAMs benefit from such a training process. Our results show that although we did not use sophisticated shape priors, robust features or robust norms for improving performance, AAMs perform notably well and in some cases comparably with current state-of-the-art methods. We provide Matlab source code for training, fitting and reproducing the results presented in this paper at http://ibug.doc. ic.ac. uk/resources.
Multispectral imaging microscope with millisecond time resolution.

A new multispectral imaging microscope with micrometer spatial resolution and millisecond temporal resolution has been developed. The imaging microscope is based on the use of an acousto-optic tunable filter (AOTF) for spectral tuning and a progressive scan camera capable of snapshot operation for recording. It can operate in two modes: images are recorded as a function of time or wavelength. When operated as a function of time, the microscope is configured so that as many images as possible are recorded, grabbed, and stored per one wavelength. Upon completion, the AOTF is scanned to a new wavelength, and a new set of images are recorded. Up to 33 images/ second (i.e., 30 ms/image) can be recorded in this mode. In the other configuration, the recording wavelength is rapidly scanned (by means of the AOTF) and only one image is rapidly recorded, grabbed, and stored for each wavelength. Because additional time is needed to scan the AOTF, the maximum number of images can be grabbed in this case is 16 frames/s. Preliminary applications of the imaging microscope include measurements of photoinduced changes of a single unit cell in temperature-sensitive cholesteric liquid crystals as a function of time and wavelength. The changes were found to be varied with time and wavelength. Interestingly, the photoinduced changes of unit cells in the liquid crystal are not the same but different from cell to cell. This imaging microscope is particularly useful for measurements of small-size samples that undergo rapid chemical or biochemical reactions, e.g., activities of a single biological cell.
PSA‐NCAM modulates BDNF‐dependent survival and differentiation of cortical neurons

We show that the loss or inactivation of the polysialic acid (PSA) tail of neural cell adhesion molecule (NCAM) on rat cortical neurons in culture leads to reduced differentiation and survival. The mechanism by which this negative effect is mediated appears to involve the neuronal response to brain‐derived neurotrophic factor (BDNF): (i) in the absence of PSA or in the presence of excess free PSA added to the culture medium, BDNF‐induced cell signalling is reduced; (ii) the addition of exogenous BDNF to the medium reverses the effect of PSA loss or inactivation. These data suggest that PSA‐NCAM, previously shown to modulate cell migration and plasticity, is needed for an adequate sensitivity of neurons to BDNF.
Excretory/secretory antigens (ES) from in-vitro cultures of Taenia crassiceps cysticerci, and use of an anti-ES monoclonal antibody for antigen detection in samples of cerebrospinal fluid from patients with neurocysticercosis

Abstract Antigens were obtained from cysticerci of the ORF strain of Taenia crassiceps, by culture of cysts in protein-free hybridoma medium (PFHM). Budding of new vesicles was observed after 24-48h. Excretory/secretory (ES) antigens (peptides of <20kDa) were recovered in the medium after culture for 48h. SDS-PAGE analysis of vesicular-fluid (VF) antigens (obtained by rupturing T. crassiceps cysticerci in PFHM) and the ES antigens indicated partial homology between the two preparations. ES peptides of 18- and 14-kDa were recognized by polyclonal antibodies produced in rabbits immunized either with the VF antigens or with a total-antigen preparation of T. solium cysticerci. Antibodies present in samples of serum or cerebrospinal fluid (CSF) from patients with neurocysticercosis also reacted with ES peptides. An anti-ES monoclonal antibody detected antigens in the CSF from 10 patients with neurocysticercosis, showing the antigenic homology of the ES antigens with those of T. solium cysticerci in human infections.
Both PHYTOCHROME RAPIDLY REGULATED1 (PAR1) and PAR2 Promote Seedling Photomorphogenesis in Multiple Light Signaling Pathways1[C][W][OPEN]

Both PAR1 and PAR2, encoding bHLH transcription factors, enhance seedling deetiolation under far-red, red, and blue light conditions. Arabidopsis (Arabidopsis thaliana) seedlings undergo photomorphogenesis in the light and etiolation in the dark. Light-activated photoreceptors transduce the light signals through a series of photomorphogenesis promoting or repressing factors to modulate many developmental processes in plants, such as photomorphogenesis and shade avoidance. CONSTITUTIVE PHOTOMORPHOGENIC1 (COP1) is a conserved RING finger E3 ubiquitin ligase, which mediates degradation of several photomorphogenesis promoting factors, including ELONGATED HYPOCOTYL5 (HY5) and LONG HYPOCOTYL IN FAR-RED1 (HFR1), through a 26S proteasome-dependent pathway. PHYTOCHROME RAPIDLY REGULATED1 (PAR1) was first detected as an early repressed gene in both phytochrome A (phyA)-mediated far-red and phyB-mediated red signaling pathways, and subsequent studies showed that both PAR1 and PAR2 are negative factors of shade avoidance in Arabidopsis. However, the role of PAR1 and PAR2 in seedling deetiolation, and their relationships with other photomorphogenesis promoting and repressing factors are largely unknown. Here, we confirmed that both PAR1 and PAR2 redundantly enhance seedling deetiolation in multiple photoreceptor signaling pathways. Their transcript abundances are repressed by phyA, phyB, and cryptochrome1 under far-red, red, and blue light conditions, respectively. Both PAR1 and PAR2 act downstream of COP1, and COP1 mediates the degradation of PAR1 and PAR2 through the 26S proteasome pathway. Both PAR1 and PAR2 act in a separate pathway from HY5 and HFR1 under different light conditions, except for sharing in the same pathway with HFR1 under far-red light. Together, our results substantiate that PAR1 and PAR2 are positive factors functioning in multiple photoreceptor signaling pathways during seedling deetiolation.
Prenatal Endotoxemia and Placental Drug Transport in The Mouse: Placental Size-Specific Effects

Lipopolysaccharide (LPS) in high doses inhibits placental multidrug resistance P-glycoprotein (P-gp - Abcb1a/b) and breast cancer resistance protein (BCRP - Abcg2). This potentially impairs fetal protection against harmful factors in the maternal circulation. However, it is unknown whether LPS exposure, at doses that mimic sub-lethal clinical infection, alters placental multidrug resistance. We hypothesized that sub-lethal (fetal) LPS exposure reduces placental P-gp activity. Acute LPS (n = 19;150 µg/kg; ip) or vehicle (n = 19) were given to C57BL/6 mice at E15.5 and E17.5. Placentas and fetal-units were collected 4 and 24 h following injection. Chronic LPS (n = 6; 5 µg/kg/day; ip) or vehicle (n = 5) were administered from E11.5–15.5 and tissues were collected 4 h after final treatment. P-gp activity was assessed by [3H]digoxin accumulation. Placental Abcb1a/b, Abcg2, interleukin-6 (Il-6), Tnf-α, Il-10 and toll-like receptor-4 (Tlr-4) mRNA were measured by qPCR. Maternal plasma IL-6 was determined. At E15.5, maternal IL-6 was elevated 4 h after single (p<0.001) and chronic (p<0.05) LPS, but levels had returned to baseline by 24 h. Placental Il-6 mRNA was also increased after acute and chronic LPS treatments (p<0.05), whereas Abcb1a/b and Abcg2 mRNA were unaffected. However, fetal [3H]digoxin accumulation was increased (p<0.05) 4 h after acute LPS, and maternal [3H]digoxin myocardial accumulation was increased (p<0.05) in mice exposed to chronic LPS treatments. There was a negative correlation between fetal [3H]digoxin accumulation and placental size (p<0.0001). Acute and chronic sub-lethal LPS exposure resulted in a robust inflammatory response in the maternal systemic circulation and placenta. Acute infection decreased placental P-gp activity in a time- and gestational age-dependent manner. Chronic LPS decreased P-gp activity in the maternal myocardium and there was a trend for fetuses with smaller placentas to accumulate more P-gp substrate than their larger counterparts. Collectively, we demonstrate that acute sub-lethal LPS exposure during pregnancy impairs fetal protection against potentially harmful xenobiotics in the maternal circulation.
Pointwise linear regression analysis for detection of visual field progression with absolute versus corrected threshold sensitivities.

PURPOSE To compare the performance of point-wise linear regression analysis (PLR) with total deviation (TD) versus corrected or pattern deviation (PD) threshold sensitivities for detection of visual field progression. METHODS Four hundred two eyes (402 patients) enrolled in the Advanced Glaucoma Intervention Study (AGIS) were selected. Criteria for progression according to PLR were a slope<or=-1 dB/year with P<or=0.01 with >or=2 worsening points within the same Glaucoma Hemifield Test cluster. PLR was performed on TD and PD threshold sensitivities and compared to clinical evaluation. Eyes were classified into three groups based on mean deviation (MD): mild (MD>or=-6 dB), moderately advanced (-6 dB>MD>or=-12 dB), and advanced (MD<-12 dB) glaucoma. RESULTS Visual field progression was observed in 154 (38%), 85 (21%), and 175 (44%) eyes, according to PLR(TD) and PLR(PD), and clinical evaluation. The pair-wise agreement between clinicians and PLR(TD) was significantly greater than that of clinicians and PLR(PD) (kappa=0.48, 95% CI: 0.44-0.52 vs. kappa=0.31, 95% CI: 0.27-0.35). Agreement between PLR(TD) and PLR(PD) decreased with increasing glaucoma severity: kappa (95% CI)=0.60 (0.52-0.67), 0.41 (0.35-0.47), and 0.33 (0.27-0.40) for mild, moderately advanced, and advanced glaucoma, respectively. CONCLUSIONS Point-wise linear regression analysis on TD threshold sensitivities performed better than the same analysis on PD when clinical evaluation was used as a reference. Agreement between the two methods was less in moderately advanced and advanced glaucoma.
An SMR based advance resource reservation scheme for combined mobility and QoS Provisioning

One of the major problems of deploying RSVP in the mobile environment is called the advance resource reservation problem. If an RSVP reservation path is reserved in advance in the subnet that a mobile node will visit, the mobile node can continue its QoS session smoothly when it hands over to that subnet. However, if too many network resources are used for advance reservation, new QoS sessions originating from that subnet will experience a higher probability of being blocked needlessly. In this paper, we propose a new advance resource reservation scheme that properly constrains the amount of advance reservations in a subnet and only allows the mobile nodes with large value of session-to-mobility ratio (SMR) to make advance reservation. We evaluate the proposed scheme and the results show that our scheme can effectively reduce both active and passive reservation blocking probabilities and achieves a better utilisation of the network resources, especially when the traffic intensity is high.
Endothelial Cell Apoptosis Induced by Antibodies Against Dengue Virus Nonstructural Protein 1 Via Production of Nitric Oxide1

The onset of vascular leakage and hemorrhagic diathesis is one of the life-threatening complications occurring in dengue patients, yet the pathogenic mechanisms are not well understood. In this study, we demonstrated that Abs against dengue virus nonstructural protein 1 (NS1) generated in mice cross-reacted with human endothelial cells and mouse vessel endothelium. After binding, mouse anti-NS1 Abs induced endothelial cell apoptosis in a caspase-dependent manner. Inducible NO synthase expression could be observed; it showed a time- and dose-dependent correlation with NO production. Endothelial cell apoptosis, characterized by exposure of phosphatidylserine on the cell surface and nuclear DNA fragmentation, was blocked by treatment with the NO synthase inhibitor Nω-nitro-l-arginine methyl ester. Further studies demonstrated that the expression of Bcl-2 and Bcl-xL decreased in both mRNA and protein levels, whereas p53 and Bax increased after anti-NS1 treatment. Cytochrome c release was also observed. All of these effects could be inhibited by Nω-nitro-l-arginine methyl ester. Taken together, anti-NS1 Abs act as autoantibodies that cross-react with noninfected endothelial cells and trigger the intracellular signaling leading to the production of NO and to apoptosis. Endothelial cell damage may cause vascular leakage that contributes to the pathogenesis of dengue disease.
Human Gait Recognition for Different Viewing Angles using PCA

Human gait recognition is a developing biometric engineering now a days. It perceives the individual from its walk and above all from a distance without subject’s cooperation. As human gait recognition system is influenced by diverse view variations effects. So, in this paper we have proposed a human gait recognition strategy for the images caught from distinctive viewing edges (0, 45, 90 degree). There are two phases in this proposed work: feature extraction and recognition. Principal Component Analysis is used for feature extraction and for similitude estimation Euclidean distance is used. Experiments are performed on CASIA A gait dataset. Keywords— Euclidean Distance, Human Gait, Principal Component Analysis (PCA).
DIFFERENT CLASSES, DIFFERENT FATHERS?

This paper discusses how social class and different economic conditions influence men's parenting. The paper is based on a qualitative study of 30 Swedish couples who live together with their biological children. The study shows that, despite the generosity of the Swedish welfare state and family subsidies, both internal and external economic conditions affect the way men construct their fatherhood. This was shown most clearly in the couples’ discussions around parental leave where parents under economic pressure often distributed the leave in a gender-traditional way. It was also apparent how traditional class patterns and structures still have a strong influence on today's parenthood. Fathers in working-class households often saw fatherhood as creating meaning in their lives and saw the process of becoming a parent as an explicit aspiration to establish something ‘natural’, well known and predictable. Fathers in middle-class households, on the other hand, considered fatherhood as something new, a reflexive project or an opportunity to develop their identity and to get to know new sides of themselves. In practice, these different ways of creating meaning in fatherhood are illustrated by the finding that working-class fathers tend to take up fewer parental leave days and uphold more traditional patterns of family life than fathers in middle-class households.
Identification of single nucleotide polymorphisms in the p21 (CDKN1A) gene and correlations with longevity in the Italian population

Longevity in humans is determined by multiple environmental and genetic factors. We have investigated possible associations between longevity and Single Nucleotide Polymorphisms (SNPs) in the p21 (CDKN1A) gene, a stress-inducible senescence-associated cell cycle inhibitor, expression of which upregulates genes implicated in several age-related diseases. By sequencing the promoter and exons of p21 in genomic DNA of ten individuals over 90 years old, we have identified 30 SNPs, many of which had not been previously characterized. A cluster of minor alleles within the -4547/-3489 bp region did not alter the basal activity or p53 responsiveness of the p21 promoter. We then compared the frequency of 41 p21 SNPs between 184 centenarians and 184 younger subjects in the Italian population. Rare alleles of two exon-derived SNPs, rs1801270 and rs1059234, were significantly under-represented among the centenarians; no significant differences were found for 39 non-exonic SNPs. SNP rs1801270 causes Ser to Arg substitution at amino acid 31 and SNP rs1059234 leads to a nucleotide change in the 3'-untranslated region. Previous studies showed that the rare alleles of these two SNPs may play a role in cancer. These p21 alleles may be potentially detrimental to longevity and therefore are rare in centenarians.