Miracle-dz/UniFAR-FTUs huggingface dataset:
Conductance of a molecular junction mediated by unconventional metal-induced gap states

The conductance of a molecular junction is commonly determined by either charge-transfer doping, where alignment of the Fermi energy to the molecular levels is achieved, or tunnelling through the tails of molecular resonances within the highest-occupied and lowest-unoccupied molecular-orbital gap. Here, we present an alternative mechanism where electron transport is dominated by electrode surface states. They give rise to metallization of the molecular bridge and additional, pronounced conductance resonances allowing for substantial tailoring of its electronic properties via, e.g., a gate voltage. This is demonstrated in a field-effect geometry of a fullerene bridge between two metallic carbon nanotubes.
Genome-wide studies of telomere biology in budding yeast

Telomeres are specialized DNA-protein structures at the ends of eukaryotic chromosomes. Telomeres are essential for chromosomal stability and integrity, as they prevent chromosome ends from being recognized as double strand breaks. In rapidly proliferating cells, telomeric DNA is synthesized by the enzyme telomerase, which copies a short template sequence within its own RNA moiety, thus helping to solve the “end-replication problem”, in which information is lost at the ends of chromosomes with each DNA replication cycle. The basic mechanisms of telomere length, structure and function maintenance are conserved among eukaryotes. Studies in the yeast Saccharomyces cerevisiae have been instrumental in deciphering the basic aspects of telomere biology. In the last decade, technical advances, such as the availability of mutant collections, have allowed carrying out systematic genome-wide screens for mutants affecting various aspects of telomere biology. In this review we summarize these efforts, and the insights that this Systems Biology approach has produced so far.
Fostering Reconnection and Resilience in Complexly Traumatized Youth: Integration of Play into Empirically Supported Treatment

Incorporating play therapy into empirically supported, trauma-informed treatments, such as trauma-focused cognitive behavioral therapy (TF-CBT), permits complexly traumatized youth to engage in therapeutic work within the context of play-based activities and provides a curative experience within the therapeutic dyad. Trauma-informed care with youth involves three tiers: safety and stabilization, trauma processing, and reconnection to family and community. This article focuses on the third and final phase of integrative treatment, which involves reconnecting traumatized children with aspects of themselves and others, working toward life goals, developing acceptance and forgiveness, and ending with therapeutic termination. This article presents therapists with interventions aimed at increasing self-regulation, creating a positive potential future, and reconnecting with self and others.
A post-processing strategy for SVM learning from unbalanced data

Standard learning algorithms may perform poorly when learning from unbalanced datasets. Based on the Fisher’s discriminant analysis, a post-processing strategy is introduced to deal datasets with significant imbalance in the data distribution. A new bias is defined, which reduces skew towards the minority class. Empirical results from experiments for a learned SVM model on twelve UCI datasets indicates that the proposed solution improves the original SVM, and they also improve those reported when using a z-SVM, in terms of g-mean and sensitivity.
A logic of appropriation: enacting national testing (NAPLAN) in Australia

This paper explores how the strong policy push to improve students’ results on national literacy and numeracy tests – the National Assessment Program, Literacy and Numeracy (NAPLAN) – in the Australian state of Queensland influenced schooling practices, including teachers’ learning. The paper argues the focus upon improved test scores on NAPLAN within schools was the result of sustained policy pressure for increased attention to such foci at national and state levels, and a broader political context in which rapid improvement in test results was considered imperative. However, implementation, (or what this paper describes more accurately as ‘enactment’) of the policy also revealed NAPLAN as providing evidence of students’ learning, as useful for grouping students to help improve their literacy and numeracy capabilities, and as a stimulus for teacher professional development. Drawing upon the sociology of Pierre Bourdieu, the paper argues that even as more political concerns about comparing NAPLAN results with other states were recognised by educators, the field of schooling practices was characterised by a logic of active appropriation of political concerns about improved test scores by teachers, for more educative purposes. In this way, policy enactment in schools is characterised by competing interests, and involving not just interpretation, translation and critique but active appropriation of political concerns by teachers.
Classifier Combination for Capturing Musical Variation

At its heart, music information retrieval is characterized by the need to find the similarity between pieces of music. However, “similar” does not mean “the same”. Therefore, techniques for approximate matching are crucial to the development of good music information retrieval systems. Yet as one increases the level of approximation, one finds not only additional similar, relevant music, but also a larger number of not-as-similar, non-relevant music. The purpose of this work is to show that if two different retrieval systems do approximate matching in different manners, and both give decent results, they can be combined to give results better than either system individually. One need not sacrifice accuracy for the sake of flexibility.
Associated with Human Hepatocellular Carcinoma-bis-sulfate ) , 3 IV 3 Cer-II 4 ( GgOseB 1 aGlycosphingolipid , S Monoclonal Antibodies Directed to a Disulfated Updated

Two murine monoclonal antibodies, 2H6G5 (IgM) and 4A9E10 (IK<M), were obtained by using either cultured human hepatocellular carcinoma cells (PLC/PRF/5) or the acidic glycolipid mixture prepared from the same cells as immunogens. The antigen in PLC/PRF/5 cell membranes recognized by both antibodies was identified as a disulfated acidic gly colipid, GgOse4Cer-II3IVJ-ftM-sulfate(SBi.). Both antibodies reacted spe cifically with SBI. , and no significant reactivity was noted with other sulfated glycolipids or gangliosides except that the antibody 2H6G5 showed a weak cross-reactivity with LacCer-H3-sulfate (SM1). another sulfated glycolipid which partly shares the same carbohydrate structure as SBI. The SBI. antigen is a relatively minor glycolipid in PLC/PRF/5 cells, but it was strongly expressed at the surface of PLC/PRF/5 cells as ascertained by cytofluorometry using both antibodies. A significant amount of SBI. antigen was present in 3 of the acidic glycolipid fractions isolated from 15 human hepatocellular carcinoma tissues as well as in the acidic glycolipid fraction prepared from PLC/PRF/5 cells, while all the acidic glycolipid fractions prepared from cirrhotic livers and a normal liver were essentially negative for SBIÂ» as ascertained by both solid phase enzyme immunoassay and the thin-layer chromatography-immunostaining method. These results strongly suggest that the Sm, antigen as defined by these new monoclonal antibodies is associated with human hepatocel lular carcinoma.
Bypassing the Embedding: Approximation schemes and Compact Representations for Low Dimensional Metrics

The doubling dimension of a metric is the smallest k such that any ball of radius 2r can be covered using 2 k balls of radius r. This concept for abstract metrics has been proposed as a natural analog to the dimension of a Euclidean space. If we could embed metrics with low doubling dimension into low dimensional Euclidean spaces, they would inherit several algorithmic and structural properties of the Euclidean spaces. Unfortunately however, such a restriction on dimension does not suce to guarantee embeddibility in a normed space. In this paper we explore the option of bypassing the embedding. In particular we show the following for low dimensional metrics:
The nature of characters in interactive worlds and the oz project

Traditional storytelling media, such as the novel, cinema, and television, draw much of their emotional power from characters and story. The greatest impact of interactive media will arise only when they too exhibit these characteristics. However, rich interactive characters and rich interactive story are unfamiliar concepts. The Oz Project is trying to bring together writers, artists, and artiicial intelligence researchers to produce fundamental technology that can support this new form of art and entertainment. We discuss these ideas, argue for the essential role AI has to play in interactive media, and present a non-technical introduction to the construction of interactive characters. The views and conclusions contained in this document are those of the authors and should not be interpreted as representing the oocial policies, either expressed or implied, of any other parties.
Polynomial detection of matrix subalgebras

The double Capelli polynomial of total degree 2t is Σ{(sgστ)x σ(1) y τ(1) x σ(2) y τ(2) . x σ(t) y τ(t) σ, τ ∈ S t }. It was proved by Giambruno-Sehgal and Chang that the double Capelli polynomial of total degree 4n is a polynomial identity for M n (F). (Here, F is a field and M n (F) is the algebra of n x n matrices over F. ) Using a strengthened version of this result obtained by Domokos, we show that the double Capelli polynomial of total degree 4n - 2 is a polynomial identity for any proper F-subalgebra of M n (F). Subsequently, we present a similar result for nonsplit inequivalent extensions of full matrix algebras.
Effects of FSH on testicular mRNA transcript levels in the hypogonadal mouse

FSH acts through the Sertoli cell to ensure normal testicular development and function. To identify transcriptional mechanisms through which FSH acts in the testis, we have treated gonadotrophin-deficient hypogonadal (hpg) mice with recombinant FSH and measured changes in testicular transcript levels using microarrays and real-time PCR 12, 24 and 72 h after the start of treatment. Approximately 400 transcripts were significantly altered at each time point by FSH treatment. At 12 h, there was a clear increase in the levels of a number of known Sertoli cell transcripts (e.g. Fabp5, Lgals1, Tesc, Scara5, Aqp5). Additionally, levels of Leydig cell transcripts were also markedly increased (e.g. Ren1, Cyp17a1, Akr1b7, Star, Nr4a1). This was associated with a small but significant rise in testosterone at 24 and 72 h. At 24 h, androgen-dependent Sertoli cell transcripts were up-regulated (e.g. Rhox5, Drd4, Spinlw1, Tubb3 and Tsx) and this trend continued up to 72 h. By contrast with the somatic cells, only five germ cell transcripts (Dkkl1, Hdc, Pou5f1, Zfp541 and 1700021K02Rik) were altered by FSH within the time-course of the experiment. Analysis of canonical pathways showed that FSH induced a general decline in transcripts related to formation and regulation of tight junctions. Results show that FSH acts directly and indirectly to induce rapid changes in Sertoli cell and Leydig cell transcript levels in the hpg mouse but that effects on germ cell development must occur over a longer time-span.
Disambiguation of single noun translations extracted from bilingual comparable corpora

Bilingual machine readable dictionaries are important and indispensable resources of information for cross-language information retrieval, and machine translation. Recently, these cross-language informational activities have begun to focus on specific academic or technological domains. In this paper, we describe a bilingual dictionary acquisition system which extracts translations from non-parallel but comparable corpora of a specific academic domain and disambiguates the extracted translations. The proposed method is two-fold. At the first stage, candidate terms are extracted from a Japanese and English corpus, respectively, and ranked according to their importance as terms. At the second stage, ambiguous translations are resolved by selecting the target language translation which is the nearest in rank to the source language term. Finally, we evaluate the proposed method in an experiment.
An energy-aware bioinformatics application for assembling short reads in high performance computing systems

Current biomedical technologies are producing massive amounts of data on an unprecedented scale. The increasing complexity and growth rate of biological data has made bioinformatics data processing and analysis a key and computationally intensive task. High performance computing (HPC) has been successfully applied to major bioinformatics applications to reduce computational burden. However, a naïve approach for developing parallel bioinformatics applications may achieve a high degree of parallelism while unnecessarily expending computational resources and consuming high levels of energy. As the wealth of biological data and associated computational burden continues to increase, there has become a need for the development of energy efficient computational approaches in the bioinformatics domain. To address this issue, we have developed an energy-aware scheduling (EAS) model to run computationally intensive applications that takes both deadline requirements and energy factors into consideration. An example of a computationally demanding process that would benefit from our scheduling model is the assembly of short sequencing reads produced by next generation sequencing technologies. Next generation sequencing produces a very large number of short DNA reads from a biological sample. Multiple overlapping fragments must be aligned and merged into long stretches of contiguous sequence before any useful information can be gathered. The assembly problem is extremely difficult due to the complex nature of underlying genome structure and inherent biological error present in current sequencing technologies. We apply our EAS model to a newly proposed assembly algorithm called Merge and Traverse, giving us the ability to generate speedup profiles. Our EAS model was also able to dynamically adjust the number of nodes needed to meet given deadlines for different sets of reads.
Discussing discourse modalities in argument theory: Reconsidering a paradigm

Abstract This article analyzes a statement by Blair that the conditions of interpretation of visual expression are indeterminate to a much greater degree than is the case with verbal expression. We argue that this proposition reveals a somewhat hidden paradigm about what argument theory is or should be. This currently dominant paradigm takes as its object a prototypical verbal discourse from which arguments can be “reconstructed” in a fairly straightforward way. In this article, we argue that accepting multimodal discourse as a means to convey argumentation implies the necessity of a serious amendment of this paradigm. The problem of modeling the protagonist’s commitments inevitably requires our having to deal more with indeterminate, “raw” discourse formats, not to be replaced by verbal reconstructions. It requires our incorporating multimodal semiotics as an integrated element of argumentation theory; and it requires our accepting that argumentative commitments are deliberately underspecified and negotiable.
A view model which accounts for the spatial fields of hippocampal primate spatial view cells and rat place cells

Hippocampal spatial view cells found in primates respond to a region of visual space being looked at, relatively independently of where the monkey is located. Rat place cells have responses which depend on where the rat is located. We investigate the hypothesis that in both types of animal, hippocampal cells respond to a combination of visual cues in the correct spatial relation to each other. In rats, which have a wide visual field, such a combination might define a place. In primates, including humans, which have a much smaller visual field and a fovea which is directed towards a part of the environment, the same mechanism might lead to spatial view cells. A computational model in which the neurons become organized by learning to respond to a combination of a small number of visual cues spread within an angle of a 30° receptive field resulted in cells with visual properties like those of primate spatial view cells. The same model, but operating with a receptive field of 270°, produced cells with visual properties like those of rat place cells. Thus a common hippocampal mechanism operating with different visual receptive field sizes could account for some of the visual properties of both place cells in rodents and spatial view cells in primates. Hippocampus 2001;11:699–706. © 2001 Wiley‐Liss, Inc.
Isomorphic Game Interaction Technique Patterns for Single Button: Definition and Evaluation

Awkward control schemes or nonsense button-mashing are common complaints from gamers worldwide. Assigning actions to buttons can be a complicated task for the game designer due to the limited quantity of buttons available on the joystick used in the current generation of video games. Along the years, the industry has increased the number of buttons in the controllers, but despite this a more permanent solution is still required as one cannot simply keep adding new buttons. Note that there are only ten fingers to operate them, Therefore, studying new ways for game designers to make intelligent use of the available buttons and analog sticks is required in order to create more enjoyable interactions for games. In this paper, we investigate third-person view games with a humanoid avatar and propose an isomorphic approach with the objective of increasing the connection between the player and his character. We established three categories of action and, by crossing these; we created eight isomorphic interaction technique patterns. In addition to these, we also developed two prototypes. The first one applies the identified usage patterns whereas the second one presents a hybrid version. Next, we perform preference tests jointly with users in order to investigate the impact of our approach on user perception of the two games. The results have shown a higher level of approval towards the prototype that applied the patterns.
Complete Sequencing of Five Araliaceae Chloroplast Genomes and the Phylogenetic Implications

Background The ginseng family (Araliaceae) includes a number of economically important plant species. Previously phylogenetic studies circumscribed three major clades within the core ginseng plant family, yet the internal relationships of each major group have been poorly resolved perhaps due to rapid radiation of these lineages. Recent studies have shown that phyogenomics based on chloroplast genomes provides a viable way to resolve complex relationships. Methodology/Principal Findings We report the complete nucleotide sequences of five Araliaceae chloroplast genomes using next-generation sequencing technology. The five chloroplast genomes are 156,333–156,459 bp in length including a pair of inverted repeats (25,551–26,108 bp) separated by the large single-copy (86,028–86,566 bp) and small single-copy (18,021–19,117 bp) regions. Each chloroplast genome contains the same 114 unique genes consisting of 30 transfer RNA genes, four ribosomal RNA genes, and 80 protein coding genes. Gene size, content, and order, AT content, and IR/SC boundary structure are similar among all Araliaceae chloroplast genomes. A total of 140 repeats were identified in the five chloroplast genomes with palindromic repeat as the most common type. Phylogenomic analyses using parsimony, likelihood, and Bayesian inference based on the complete chloroplast genomes strongly supported the monophyly of the Asian Palmate group and the Aralia-Panax group. Furthermore, the relationships among the sampled taxa within the Asian Palmate group were well resolved. Twenty-six DNA markers with the percentage of variable sites higher than 5% were identified, which may be useful for phylogenetic studies of Araliaceae. Conclusion The chloroplast genomes of Araliaceae are highly conserved in all aspects of genome features. The large-scale phylogenomic data based on the complete chloroplast DNA sequences is shown to be effective for the phylogenetic reconstruction of Araliaceae.
A SIMULATION MODEL FOR AUTOMATED CONTAINER TERMINALS

In order to accommodate the growing intercontinental container transport, port facilities have to be up-scaled drastically. The challenge is to develop facilities that can handle a new generation of ships, the jumbo container vessels, with a capacity of 8,000 TEU (Twenty-foot Equivalent Unit) or more. The total in-port time to serve these jumbos is set at 24 hours. This amounts to almost double the loading/unloading flows that can be achieved at present. These flows cannot be met by the present quay transport. In this study the modeling of a quay transport system which is carried out by automated guided vehicles (AGVs) is described. The model is applied to the current Delta Sealand container terminal (DSL) of ECT Rotterdam to obtain some degree of reference. The developed model is used for extensive validation experiments and experiments to determine the sensitivity concerning a number of parameters like number of AGVs, maximum AGV speed, crane capacity and stack capacity. It can be concluded that the performance of the simulated model matches the performance of the actual terminal. Therefore, the model is suited for future research.
Maximum mipmaps for fast, accurate, and scalable dynamic height field rendering

This paper presents a GPU-based, fast, and accurate dynamic height field rendering technique that scales well to large scale height fields. Current real-time rendering algorithms for dynamic height fields employ approximate ray-height field intersection methods, whereas accurate algorithms require pre-computation in the order of seconds to minutes and are thus not suitable for dynamic height field rendering. We alleviate this problem by using maximum mipmaps, a hierarchical data structure supporting accurate and efficient rendering while simultaneously lowering the pre-computation costs to negligible levels. Furthermore, maximum mipmaps allow for view-dependent level-of-detail rendering. In combination with hierarchical ray-stepping this results in an efficient intersection algorithm for large scale height fields.
Microscopic simulation for virtual worlds with self-driving avatars

Virtual worlds are a good platform to perform driving behavior experiments among a big group of people at low cost and high level of realism. Since driving behavior is highly influenced by the behavior of surrounding vehicles it is crucial to establish a realistic environment for the driving experiment. Thus, the avatars' vehicle needs to be recognized by the simulation and hence by the other simulated vehicles. In this paper we are introducing a microscopic simulation model that has this feature and allows users to anticipate as drivers in the simulation. Using virtual worlds with self driving avatars allows studying driving behavior in various situations under stable laboratory conditions. The virtual environment, allows the recreation of various scenarios from highways to city traffic under various traffic and environmental conditions.
Design and research on a shape memory alloy-actuated single-port laparoscopic surgical robot

With the development of minimally invasive techniques as well as surgical robotics, there has been an urgent demand for laparoscopic surgical robots that are small, low-cost and adaptable. This paper proposes a new design of minimally invasive surgical robot based on shape memory alloy (SMA)-actuated system which can provide flexible movement, large work space and powerful output. In the end, the performance of the robot system is conducted in vitro and in vivo tests.