Miracle-dz/UniFAR-FTUs huggingface dataset:
Genome-Wide Modeling of Transcription Preinitiation Complex Disassembly Mechanisms using ChIP-chip Data

Apparent occupancy levels of proteins bound to DNA in vivo can now be routinely measured on a genomic scale. A challenge in relating these occupancy levels to assembly mechanisms that are defined with biochemically isolated components lies in the veracity of assumptions made regarding the in vivo system. Assumptions regarding behavior of molecules in vivo can neither be proven true nor false, and thus is necessarily subjective. Nevertheless, within those confines, connecting in vivo protein-DNA interaction observations with defined biochemical mechanisms is an important step towards fully defining and understanding assembly/disassembly mechanisms in vivo. To this end, we have developed a computational program PathCom that models in vivo protein-DNA occupancy data as biochemical mechanisms under the assumption that occupancy levels can be related to binding duration and explicitly defined assembly/disassembly reactions. We exemplify the process with the assembly of the general transcription factors (TBP, TFIIB, TFIIE, TFIIF, TFIIH, and RNA polymerase II) at the genes of the budding yeast Saccharomyces. Within the assumption inherent in the system our modeling suggests that TBP occupancy at promoters is rather transient compared to other general factors, despite the importance of TBP in nucleating assembly of the preinitiation complex. PathCom is suitable for modeling any assembly/disassembly pathway, given that all the proteins (or species) come together to form a complex.
Organisational commitment levels of faculty members in sport education institutions in Turkey

This study aimed to reveal the organisational commitment levels of faculty members to teaching at higher education institutions in Turkey. To be able to obtain participants’ views, the organisational commitment scale developed by Allen and Meyer in 1990 was used and data was analysed by means of the SPSS 17.0 program. A significant difference was found in the sub-components of affective commitment in terms of tenure related differences and tenure in job status in the organisation. Some significant differences were reported in age, education status and academic rank variables of continuance commitment. No significant differences were seen in any of the normative commitment variables. In addition, a significant positive, medium-level and linear relationship was found between affective commitment and normative commitment. Also a significant positive and linear but low level relationship was obtained between continuance commitment and normative commitment. Keywords: Higher education; Sport schools; Organisational commitment; Faculty members South African Journal for Research in Sport, Physical Education and Recreation , 2013, 35(2): 141-152
Question Answering Based on Semantic Structures

The ability to answer complex questions posed in Natural Language depends on (1) the depth of the available semantic representations and (2) the inferential mechanisms they support. In this paper we describe a QA architecture where questions are analyzed and candidate answers generated by 1) identifying predicate argument structures and semantic frames from the input and 2) performing structured probabilistic inference using the extracted relations in the context of a domain and scenario model. A novel aspect of our system is a scalable and expressive representation of actions and events based on Coordinated Probabilistic Relational Models (CPRM). In this paper we report on the ability of the implemented system to perform several forms of probabilistic and temporal inferences to extract answers to complex questions. The results indicate enhanced accuracy over current state-of-the-art Q/A systems.
Structural Decomposition Trees

Researchers and analysts in modern industrial and academic environments are faced with a daunting amount of multi‐dimensional data. While there has been significant development in the areas of data mining and knowledge discovery, there is still the need for improved visualizations and generic solutions. The state‐of‐the‐art in visual analytics and exploratory data visualization is to incorporate more profound analysis methods while focusing on fast interactive abilities. The common trend in these scenarios is to either visualize an abstraction of the data set or to better utilize screen‐space.
Iterative Speech Enhancement using a Non-Linear Dynamic State Model of Speech and its Parameters

A marginalized particle filter is proposed for performing single channel speech enhancement with a non-linear dynamic state model. The system consists of a particle filter for tracking line spectral pair (LSP) parameters and a Kalman filter per particle for speech enhancement. The state model for the LSPs has been learnt on clean speech training data. In our approach parameters and speech samples are processed at different time scales by assuming the parameters to be constant for small blocks of data. Further enhancement is obtained by an iteration which can be applied on these small blocks. The experiments show that similar SNR gains are obtained as with the Kalman-LM-iterative algorithm. However better values of the noise level and the log-spectral distance are achieved
Exposing ACE up the sleeve....

There is unequivocal evidence that an excess of angiotensin-converting enzyme (ACE), a transmembrane dipeptidyl peptidase enzyme that generates angiotensin II and increases bradykinin and other peptide substrates of as yet unclear significance, has a potent adverse effect on the heart and the vascular system. Increased levels of ACE and other components of the renin–angiotensin system have consistently been found in patients with myocardial infarction, patients with myocardial infarction in transition to heart failure through the process of ventricular remodeling, and patients
3-? Multi-Pulse Ac To Dc Converter Through Zig Zag Transformer

This paper deals with the reduction of Total Harmonic Distortion (THD) by using Multi-pulse AC to DC Conversion technique. The three-phase multi-pulse AC to DC conversion system have a phase-shifting transformer and a three-phase source. Every such type of converter provides a 6-pulse AC to DC conversion system, that’s why in order to produce more sets of 6-pulse systems, a uniform phase-shift is required and hence with proper phase-shifting angle, 12, 18, 24, 30, 36 and higher pulse systems have been produced. The performance improvement of multi-pulse converter is achieved for total harmonics distortion (THD) in supply current, DC voltage ripples and form factor. This paper presents the discussion of multi-pulse improved power quality ac-dc converter (IPQC) configuration, comparative factors and selection of specific.
Amniotic fluid hormone profiles during normal and abnormal pregnancy.

Amniotic fluid (AF) and maternal serum (MS) chorionic gonadotropin (HCG), placental lactogen (HPL), pregnancy-specific beta 1-glycoprotein (SP1), total estrogens (ET), alpha-fetoprotein (AFP) and prolactin (PRL) were measured by enzyme-immunoassays, in 50 normal (A) and in 37 abnormal (B) pregnancies, from 16th to 40th weeks. A: the proteins HCG, AFP and PRL showed a similar decreasing trend after the 20th week, while HPL and SP1 rose progressively throughout the 2nd trimester, thereafter remaining constant. On the contrary ET showed an increasing pattern until term. Chorionic gonadotropin HPL and SP1 in MS were higher than in AF, while AF values of AFP and PRL were higher than in MS, but the ratio MS/AF of all hormone values increased significantly from the 2nd to the 3rd trimester (p < 0.005-p < 0.000001). Estrogens had about the same concentration in AF and MS during the 2nd trimester, but at term of pregnancy, their AF values were double those of MS. B: in polyhydramnios, elevated AF placental hormones were found, while PRL was very low. In erythroblastosis and diabetes, AFP was very low, but placental hormones, PRL and ET were both high and low. In toxemia, SP1, hCG and PRL were elevated, while HPL and ET were very low. In anencephaly and hydrocephaly with spina bifida, AFP was markedly elevated and ET were very low, but in simple hydrocephalus, very low AFP was found. In chromosomal anomalies very high placental hormones and very low AFP and ET were found. (ABSTRACT TRUNCATED AT 250 WORDS)
Principles of Visual Attention: Linking Mind and Brain

1. Introduction PART I - THE PSYCHOLOGY OF VISUAL ATTENTION 2. Psychological research on visual attention 3. A psychological theory of visual attention (TVA) 4. Explaining divided attention by TVA 5. Explaining focused attention by TVA PART II - THE NEUROPHYSIOLOGY OF VISUAL ATTENTION 6. Effects of visual attention in single neurons 7. A neural theory of visual attention (NTVA) 8. Explaining attentional effects in single neurons by NTVA PART III - THE ANATOMY OF VISUAL ATTENTION 9. Brain imaging of visual attention 10. Disturbances of visual attention 11. TVA-based assessment CONCLUSION 12. A unified theory of visual attention
Vascular Endothelial Growth Factor-A and Platelet-Derived Growth Factor-B Combination Gene Therapy Prolongs Angiogenic Effects via Recruitment of Interstitial Mononuclear Cells and Paracrine Effects Rather Than Improved Pericyte Coverage of Angiogenic Vessels

Vessel stabilization and the inhibition of side effects such as tissue edema are essential in angiogenic gene therapy. Thus, combination gene transfers stimulating both endothelial cell and pericyte proliferation have become of interest. However, there is currently little data to support combination gene transfer in large animal models. In this study, we evaluated the potential advantages of such a strategy by combining the transfer of adenoviral (Ad) vascular endothelial growth factor (VEGF)-A and platelet-derived growth factor (PDGF)-B into rabbit hindlimb skeletal muscle. AdLacZ alone or in combination with AdVEGF-A were used as controls. Contrast-enhanced ultrasound, modified Miles assay, and immunohistology were used to quantify perfusion, vascular permeability, and capillary size, respectively. Confocal microscopy was used in the assessment of pericyte-coverage. The transfer of AdPDGF-B alone and in combination with AdVEGF-A induced prominent proliferation of &agr;-smooth muscle actin–, CD31-, RAM11-, HAM56-, and VEGF- positive cells. Although, pericyte recruitment to angiogenic vessels was not improved, combination gene transfer induced a longer-lasting increase in perfusion in both intact and ischemic muscles than AdVEGF-A gene transfer alone. In conclusion, intramuscular delivery of AdVEGF-A and AdPDGF-B, combined, resulted in a prolonged angiogenic response. However, the effects were most likely mediated via paracrine mechanisms rather than an increase in vascular pericyte coverage.
Learning benefits evolution if sex gives pleasure

In this paper the effects of individual learning on an evolving population of situated agents are investigated. We work with a novel type of system where agents can decide autonomously (by their controllers) if/when they reproduce and the bias in the agent controllers for the mating action is adaptable by individual learning. Our experiments show that in such a system reinforcement learning with the straightforward rewards system based on energy makes the agents lose their interest in mating. In other words, we see that learning frustrates evolution, killing the whole population on the long run. This effect can be counteracted by introducing a specially designated positive mating reward, pretty much like an orgasm in Nature. With this twist individual learning becomes a positive force. It can make the otherwise disappearing population viable by keeping agents alive that did not yet learn the task at hand. This hiding effect proves positive for it provides a smooth road for the population to adapt and learn the task with a lower risk of extinction.
Adaptive Tolerance Algorithm for Distributed Top-K Monitoring with Bandwidth Constraints

Distributed top-k monitoring is an important task that is being performed almost everywhere in the Internet today, and has applications in DDoS prevention, website access detection, and many other areas. In the past decade distributed top-k algorithms have emerged which limit bandwidth usage by applying constraints and only communicating when those constraints are violated. However, these algorithms don’t perform efficiently when the data set is consistently oscillating, which can result in highly variable bandwidth usage. We propose an adaptive tolerance based system, which varies the amount of error to achieve a consistent bandwidth usage. This approach achieves the accuracy of the original top-k implementation when bandwidth is high and can achieve constant bandwidth even when the distribution of top-k objects is highly variable.
Renal function with cyclosporine C2 monitoring, enteric‐coated mycophenolate sodium and basiliximab: a 12‐month randomized trial in renal transplant recipients

Abstract: Background: Cyclosporine exposure, as estimated by the area under the curve (AUC), predicts outcomes in renal transplantation. Cyclosporine concentration at two h post‐dose (C2) has been shown to be the most reliable, single‐point surrogate marker for AUC. The objective of this study was to measure renal function beyond month 2 post‐transplant using two different C2 maintenance targets in combination with enteric‐coated mycophenolate sodium (EC‐MPS), corticosteroids, and basiliximab induction.
Constructing transformations: , a learning strategy for the metaverse

This text will attempt to delineate the premises of an immersive learning approach relating to the creative fields. This proposed strategy is specifically designed for implementation in online, three dimensional synthetic builder’s worlds, also known as the Metaverse. Deviating from the prevalent practice of replicating physical art studio teaching strategies within a virtual environment, the author proposes instead to apply the fundamental principles of the “Groundcourse”, developed and taught by Roy Ascott during the 1960’s in England. While the educational philosophy of the Groundcourse does provide the backbone of the author’s proposition; further aggregations of Ascott’s cybernetic approach with educational strategies such as Jack Mezirow’s Transformative Learning is also deliberated upon. Online, socially interactive virtual worlds provide their users with novel creative affordances, operating in an environment with its own unique conditions. Beyond the novelty of the learning environment itself, these worlds seem to cater to special user groups, with well defined goals and interests. Thus an examination of what it is that a metaverse can contribute to learning in the creative fields would also appear to be called for. It has been the observation of the author that one of the major avenues of creative investigation in three dimensional, socially interactive virtual worlds is the acquisition and enactment of novel identities and indeed multiple identities for the purposes of Role Play. During the Groundcourse, with its emphasis on behavioral change as a founding principle for art education, Ascott also utilized the creation of new personalities as a major part of the learning process. It would thus appear that much insight can be attained from a critical examination and adaptation of the Groundcourse’s strategies as a pedagogical model for art education in a metaverse, specifically in relation to the deliberate construction of ‘identity’ as a means for creative enablement.
Are Self-regarding Subjects More Strategic ?

To investigate the relationship between the depth of strategic thinking and social preferences we ask subjects in an experiment to perform dictator games and a guessing game. The guessing game measures depth of strategic thinking while dictator games control for social preferences. When performing a comparison within the same degree of strategic reasoning, self-regarding subjects show more strategic sophistication than other subjects.
Notice of RetractionKnowledge transfer and learning race in strategic alliance

This article reviews the classic literature on knowledge transfer in the strategic alliance first. Then it inspects the factors and obstacles that influence the efficiency of inter-firm knowledge transfer. On this basis we analyze the phenomenon of learning race, expecting to give some constructive inspirations of how to manage the knowledge transfer in strategic alliances effectively.
Catecholamine‐ and indoleamine‐ containing neurons in the turtle retina

We identified a population of presumed dopaminergic amacrine cells and populations of presumed serotonergic bipolar and amacrine cells in the retina of the turtle Pseudemys scripta elegans by a combination of autoradiographic, fluorescence, and immunocytochemical techniques. Antisera directed against the dopamine‐synthesizing enzyme, tyrosine hydroxylase (TOH), stained perikarya located at the border of inner nuclear (INL) and inner plexiform (IPL) layers. Processes emitted by these cells arborized in sublaminae 1, 3, and 5 of the IPL. Incubation of retinas in 10−6 M 3H‐dopamine yielded a labeling pattern identical to the staining pattern achieved with TOH antisera, but when the concentration of 3H‐dopamine was increased 25‐fold, both amacrine and bipolar cells are labeled. Following intraocular injection of dopamine, fluorescence micrography revealed both stained amacrine and bipolar cells. The bipolar cells had Landolt's clubs, pyriform perikarya located in the distal portion of the INL, and axons that coursed horizontally in the INL, then entered the IPL, and ramified in both its superficial and deeper layers. Although no fluorescent neuronal profiles were revealed following injection of serotonin (5HT), bipolar cells identical to those described were visualized with 5HT antisera. The intensity of bipolar cell staining with 5HT antisera was improved by preinjection of the eye with exogenous 5HT. We suggest that the bipolar cell is serotonergic, but that it also can actively accumulate dopamine. The 5HT antisera also stained a population of large amacrine cells whose processes ramified in IPL sublaminae 1, 4, and 5. The same populations of presumed serotonergic bipolar and amacrine cells were labeled following incubation of the eyecup in 10−6 M 3H‐5HT.
A combination of enhancer/silencer modules regulates spatially restricted expression of cadherin‐7 in neural epithelium

The spatially restricted expression of cadherin‐7 to the intermediate domain of the neural epithelium and in migrating neural crest cells during early neural development is potentially regulated by multiple signaling inputs. To identify the regulatory modules involved in regulation of cadherin‐7, evolutionary conserved non‐coding sequences in the cadherin‐7 locus were analyzed. This led to the identification of an evolutionary conserved region of 606 bp (ECR1) that together with the cadherin‐7 promoter recapitulates endogenous cadherin‐7 expression in intermediate neural tube, spinal motor neurons, interneurons, and dorsal root ganglia. Deletion analysis of ECR1 revealed a 19‐bp block that is essential for ECR1 enhancer activity, while two separate blocks of 10 and 12 bp were found to be essential for ECR1 silencer activity in the dorsal and ventral neural epithelium, respectively. Together, these data provide an insight into tissue‐specific regulatory regions that might be involved in regulation of cadherin‐7 gene expression. Developmental Dynamics 240:1756–1768, 2011. © 2011 Wiley‐Liss, Inc.
Body Pose Tracking From Uncalibrated Camera Using Supervised Manifold Learning

We present a framework to estimate 3D body configuration and view point from a single uncalibrated camera. We model shape deformations corresponding to both view point and body configuration changes through the motion. Such observed shapes present a product space (different configurations × different views) and therefore lie on a two dimensional manifold in the visual input space. The approach we introduce here is based on learning the visual observation manifold in a supervised manner. Instead of learning an embedding of the manifold, we learn the geometric deformation between an ideal manifold (conceptual equivalent topological structure) and a twisted version of the manifold (the data). For the case of a walking motion, we use a torus manifold to represent the data. In our experiment, we learned the torus manifold from synthetic data and estimated view and body configuration for circular walking sequence in HUMANEVA-I data set. 3D body pose was inferred from estimated body configuration parameter using only one training 3D body pose cycle in each subject. Experimental results show accurate estimation of 3D body pose and view from a single camera.
Cost effective and scalable sensor network for intelligent building monitoring

Conventional sensor networks for building monitoring lack smart means to exploit collected environmental data to support relevant knowledge generation. Explicit domain knowledge plays the key role for software units to execute relevant tasks autonomously, which in turn can ease the increasing complexity embedded in the contemporary building management process. In many cases, the cost of multi-functional sensor networks is still high and the sensor system deployment still requires special expertise, which hinders their wider adoption for the existing or new buildings. This paper presents a cost-effective hardware design for multi-functional ZigBee sensor unit, which compactly integrates several different types of sensors. Together with a supporting multiagent software framework, the application described herein can provide real time and smart building monitoring through querying the modelled domain knowledge. The contribution of the developed sensor network lies in its compact assembly, easy deployment, and the intelligence provided by elaborating the explicit building domain knowledge through the use of autonomous software agents. The ongoing testing shows a promising building monitoring network with the original intentions to identify wasted energy consumption in buildings, and further suggest better usage of building spaces.
The Impact of Personal Attributes on Corporate Insider Trading

We analyze the importance of personal attributes in explaining the performance of reported share transactions by corporate insiders. While prior literature has focused on observable firm and trade characteristics, little effort has been made to understand how individual attributes, such as skills, abilities, or personality, impact upon post-trade abnormal returns. We document that personal attributes explain up to a third of the variability in insider trading performance and dominate unobservable and observable firm and trade characteristics by a sizeable margin. Personal attributes are correlated with the insider's year of birth, education and gender, and matter more in companies with greater information asymmetry and when outsiders are inattentive to public information. We shed also new light on the significance of executive hierarchy and regulations in explaining insider trading performance and highlight the importance of controlling for individual fixed effects in insider trading research to avoid omitted variable bias in estimated regression coefficients.