Miracle-dz/UniFAR-FTUs huggingface dataset:
An Ontology-Based Tool for Collaborative and Social Sensemaking

Sensemaking activities of social networks involve network exploration and representation so, visual tools are designed to support these two activities. Existing social network analysis tools are usually weak in supporting complex analytical tasks and also in providing a collaborative environment for interaction. The analysis of data using a visual tool is rarely a task done in isolation, it tends to be part of a wider goal: that of making sense of the current situation, often to support decision-making. This paper discusses the storytelling design of a software environment to support organizations in sense-making activities and to support accidents investigation. A case study ACR-C describes petroleum industry employees investigating the root cause of an accident issue observed in one (or more) platforms. It is used throughout the paper as an example of human computer interaction where the ontology becomes a tool with domain knowledge to assist expert persons building a root cause tree leading to accidents. The framework will also provide with a collaborative recommendation module assuming that the users build up clusters based on their similar analysis in rating of items. A case study ACR-C describes petroleum industry employees investigating the root cause of an accident issue observed in one (or more) platforms. It is used throughout the paper as an example of human computer interaction where the ontology becomes a tool with domain knowledge to assist expert persons buildind a root cause tree leading to accidents. This paper reports the experience gained in ACR-C, a project that aims to support knowledge manage∗(Produces the permission block, and copyright information). †Corresponding author. Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. To copy otherwise, to republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. WOODSTOCK ’97 El Paso, Texas USA Copyright 20XX ACM X-XXXXX-XX-X/XX/XX . $15.00. ment (KM), sharing and reuse across different media in oil & gas industry. We report the storytelling design approach adopted and the design phases that led to the first prototype. A user interface was designed to assess how different levels of data, information and knowledge were mapped using alternative visual tools. The results show that a clear separation of the visual data analysis from other sense-making subtasks helps users in focussing their attention and comprehension of root causes of the problem. Further work is needed to develop more fully intuitive visualizations that exploit the richer information and make the multiple connections between data more easily accessible.
Timing of identification among children with an autism spectrum disorder: findings from a population-based surveillance study.

OBJECTIVE At what age are children with an autism spectrum disorder (ASD) identified by community providers? What factors influence the timing of when children are identified with ASDs? This study examined the timing of when children with ASDs are identified. METHOD Data came from 13 sites participating in the Centers for Disease Control and Prevention's 2002 multisite ongoing autism surveillance program, the Autism and Developmental Disabilities Monitoring Network. Survival analysis was used to examine factors that influence the timing of community-based identification and diagnosis. RESULT Data from health and education records reveal that the median age of identification was 5.7 years (SE 0.08 years). Parametric survival models revealed that several factors were associated with a younger age of identification: being male, having an IQ of 70 or lower, and having experienced developmental regression. Significant differences in the age of identification among the 13 sites were also discovered. CONCLUSIONS The large gap between the age at which children can be identified and when they actually are identified suggests a critical need for further research, innovation, and improvement in this area of clinical practice.
Minimum-delay link determination in networked control systems using Asexual Reproduction Optimization

Networked control systems (NCS) have gained an increasing attention in recent years due to their flexibility and cost reduction. The two main problems affecting stability and performance of closed-loop NCS are packet delay and drop. The problem of delay is severe in large scale NCS where the sensor-controller-actuator are connected via a network with large number of switches and routers. In this paper, we propose a real time optimization algorithm, called Asexual Reproduction Optimization (ARO) which is inspired by asexual reproduction, to find the least delay link in the control loop. Simulation results reveal that the proposed algorithm remarkably outperforms the recently cited Genetic Algorithm (GA) in finding the minimum delay link.
Effort , Success , and Non-use 2 Determine Arm Choice

Nicolas Schweighofer*, Yupeng Xiao*, Sujin Kim, Toshinori Yoshioka, James Gordon, 4 Rieko Osu 5 1. Biokinesiology and Physical Therapy, University of Southern California, Los Angeles, CA 6 2. Neuroscience Graduate Program, University of Southern California, Los Angeles, CA 7 3. ATR Computational Neuroscience Laboratories, Kyoto, Japan 8 9 10 *These authors contributed equally to this work. 11 12 Running head: Effort, success, and non-use determine arm choice 13 14 15 Correspondence should be addressed to: 16 Nicolas Schweighofer 17 University of Southern California, Biokinesiology and Physical Therapy, 18 CHP 155, 1540 Alcazar Street, Los Angeles CA 90089, USA 19 email: schweigh@usc.edu 20 Articles in PresS. J Neurophysiol (May 6, 2015). doi:10.1152/jn.00593. 2014
N2Cloud: Cloud based neural network simulation application

We present N2Cloud, a novel Cloud-based neural network simulation system, which provides and exchanges neural network knowledge and simulation resources to and between arbitrary users on a world-wide basis following the Web 2.0 principle. N2Cloud enables the exchange of knowledge, as neural network objects and paradigms, by a virtual organization environment and delivers ample resources by exploiting the Cloud computing principle. The system provides a transparent environment to allow even naive users to exploit the resources of this simulation system. N2Cloud uses standard protocols and is based on a pure service oriented approach. Hereby it integrates into the up-to-date service stack (SaaS, PaaS, and IaaS) of service oriented architectures.
A Genetic Algorithm Framework for Benchmarking Parallel Computer Architectures ( November 2006 )

—Genetic algorithms are a heuristic search method for global optimization problems. Comparing the performance figures of disparate genetic algorithms studies is difficult due to different underlying parallel computer architectures. This paper introduces a benchmarking program that can measure the execution time of common genetic algorithm problems by scaling the number of processors used. New genetic algorithms can also be plugged into the program to extend its capabilities to provide a tool for evaluating the relative performance of new studies.
American Needle Upon Remand

For over ten years, since 2002, the NFL has designated exclusive licensee(s), such as Reebok and Nike, for licensed apparel of the 32 NFL teams. In 2008, American Needle Inc, one of the former apparel manufactures precluded from the football licensing business, brought an Antitrust lawsuit; alleging that the NFL teams’ agreement to market its intellectual property collectively, in tandem with the NFL’s practice of designating an exclusive licensee, violates § 1 of the Sherman Act. In 2010, the Supreme Court found merit in such arguments; remanding to the lower courts to conduct a proper Sherman Act analysis. This Article, using a variety of metrics, including a determination of market power, the quick-look analysis, and the full-blown rule of reason, will argue that the anticompetitive harms emanating from NFL’s collectivity and exclusivity agreements are sufficient to sustain a Sherman Act violation.
Aberrant Growth and Differentiation of Oligodendrocyte Progenitors in Neurofibromatosis Type 1 Mutants

Neurofibromatosis type 1 (NF1) patients are predisposed to learning disabilities, macrocephaly, and brain tumors as well as abnormalities on magnetic resonance imaging that are postulated to result from abnormal myelination. Here we show that Nf1+/- spinal cords in adult mice have more than twofold-increased numbers of NG2+ progenitor cells. Nf1-/- embryonic spinal cords have increased numbers of Olig2+ progenitors. Also, cultures from Nf1 mutant embryos with hemizygous and biallelic Nf1 mutations have dramatically increased numbers of CNS oligodendrocyte progenitor cells. In medium that allows growth of neuroepithelial cells and glial progenitors, mutant cells hyper-respond to FGF2, have increased basal and FGF-stimulated Ras-GTP, and fail to accumulate when treated with a farnesyltransferase inhibitor. Cell accumulation results in part from increased proliferation and decreased cell death. In contrast to wild-type cells, Nf1-/- progenitors express the glial differentiation marker O4 while retaining expression of the progenitor marker nestin. Nf1 mutant progenitors also abnormally coexpress the glial differentiation markers O4 and GFAP. Importantly, Nf1-/- spinal cord-derived oligodendrocyte progenitors, which are amplified 12-fold, retain the ability to form oligodendrocytes after in vivo transplantation. The data reveal a key role for neurofibromin and Ras signaling in the maintenance of CNS progenitor cell pools and also suggest a potential role for progenitor cell defects in the CNS abnormalities of NF1 patients.
Stochastic Dynamic Pricing and Advertising in Isoelastic Oligopoly Models

In this paper we analyze stochastic dynamic pricing and advertising differential games in special oligopoly markets with constant price and advertising elasticities. We consider the sale of perishable as well as durable goods and include adoption effects in the demand. For the individual firms we derive solution formulas of the value function and of the optimal feedback policies. Furthermore, efficient simulation techniques are used to evaluate optimally controlled sales processes over time. This way the evolution of optimal controls as well as the firm’s profit distributions are analyzed. Moreover, we show that the market power of the competing firms is exactly the same as in the deterministic version of the model. We also find that as soon as saturation effects in the demand are involved, the optimal profits of the deterministic model can be dominated by the optimal expected profits of the stochastic model.
Chained displays: configurations of public displays can be used to influence actor-, audience-, and passer-by behavior

Most interactive public displays currently rely on flat screens. This form factor impacts how users (1) notice the public display (2) develop motivation and (3) (socially) interact with the public display. In this paper, we present Chained Displays, a combination of several screens to create different form factors for interactive public displays. We also present a design space based on two complementary concepts, Focus and Nimbus, to describe and compare chained display configurations. Finally, we performed a field study comparing three chained displays: Flat, Concave, and Hexagonal. Results show that Flat triggers the strongest honeypot effect, Hexagonal causes low social learning, and Concave triggers the smallest amount of simultaneously interacting users among other findings.
Control of multi-affine systems on rectangles with applications to hybrid biomolecular networks

Given a multi-affine system on an N-dimensional rectangle, the problem of reaching a particular facet, using multiaffine state feedback is studied. Necessary conditions and sufficient conditions for the existence of a solution are derived in terms of linear inequalities on the input vectors at the vertices of the rectangle, and a method for constructing a multi-affine state feedback solution is presented. The technique is applied to the control of hybrid models of bioregulatory networks.
Chlamydia trachomatis Co-opts GBF1 and CERT to Acquire Host Sphingomyelin for Distinct Roles during Intracellular Development

The obligate intracellular pathogen Chlamydia trachomatis replicates within a membrane-bound inclusion that acquires host sphingomyelin (SM), a process that is essential for replication as well as inclusion biogenesis. Previous studies demonstrate that SM is acquired by a Brefeldin A (BFA)-sensitive vesicular trafficking pathway, although paradoxically, this pathway is dispensable for bacterial replication. This finding suggests that other lipid transport mechanisms are involved in the acquisition of host SM. In this work, we interrogated the role of specific components of BFA-sensitive and BFA-insensitive lipid trafficking pathways to define their contribution in SM acquisition during infection. We found that C. trachomatis hijacks components of both vesicular and non-vesicular lipid trafficking pathways for SM acquisition but that the SM obtained from these separate pathways is being utilized by the pathogen in different ways. We show that C. trachomatis selectively co-opts only one of the three known BFA targets, GBF1, a regulator of Arf1-dependent vesicular trafficking within the early secretory pathway for vesicle-mediated SM acquisition. The Arf1/GBF1-dependent pathway of SM acquisition is essential for inclusion membrane growth and stability but is not required for bacterial replication. In contrast, we show that C. trachomatis co-opts CERT, a lipid transfer protein that is a key component in non-vesicular ER to trans-Golgi trafficking of ceramide (the precursor for SM), for C. trachomatis replication. We demonstrate that C. trachomatis recruits CERT, its ER binding partner, VAP-A, and SM synthases, SMS1 and SMS2, to the inclusion and propose that these proteins establish an on-site SM biosynthetic factory at or near the inclusion. We hypothesize that SM acquired by CERT-dependent transport of ceramide and subsequent conversion to SM is necessary for C. trachomatis replication whereas SM acquired by the GBF1-dependent pathway is essential for inclusion growth and stability. Our results reveal a novel mechanism by which an intracellular pathogen redirects SM biosynthesis to its replicative niche.
Deciphering the Influence of Product Shape on Consumer Judgments Through Geometric Abstraction

ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on %ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on %ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on %ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on %ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on %ion Re co gn iti on % 1 2 3 4 5 6 7 8 9 10 0 25 50 75 100 Abstraction Re co gn iti on % FM DBion Re co gn iti on % FM DB
Languages for Learning and Mining

Applying machine learning and data mining to novel applications is cumbersome. This observation is the prime motivation for the interest in languages for learning and mining. This note provides a gentle introduction to three types of languages that support machine learning and data mining: inductive query languages, which extend database query languages with primitives for mining and learning, modelling languages, which allow to declaratively specify and solve mining and learning problems, and programming languages, that support the learning of functions and subroutines. It uses an example of each type of language to introduce the underlying ideas and puts them into a common perspective. This then forms the basis for a short analysis of the state-of-the-art.
A Taxonomy of Time in Databases March , 1985 · '

Tlae need/or 1upporting time t~aruing information in 4ataba•e• Aa• 6een recognized/or pite 10me time. Manr autlao, Aat~e prop01e~ numeroa 1elaeme• to 1ati•/11 tlail nee4 6r ineor· porating one or ttDo time ·attribute• in tAe tlatda1e. Un/ortunatel,, tAere Au 6een eonfu· •ion concerning tAe terminologr anti definition of tAe1e time . affri6ute1. TAi• paper propOle• a netD la~onomr of tlaree lime• for ••e in 4ata6au•, one tAat i• more cleanly tlefinetl, that may 6e coneeplualizetl in a pietorialfulaion, anti llaal define• 1et1eral iintl• oftlalabau• tlifferenliatetl 611 tAeir ability to repre•ent temporal in/ormation. Tlae paper iltpel that fu· lure tlataba1e management •y•tem• 1Aoultl 1upport aU tlaree time• to /uUy capture time fiG,. ing 6elaaflior.
WinBioinfTools: Bioinformatics Tools for Windows High Performance Computing Server 2008

Open source bioinformatics tools running under MS Windows are rare to find, and those running under Windows HPC cluster are almost non-existing. This is despite the fact that the Windows is the most popular operating system used among life scientists. Therefore, we introduce in this initiative WinBioinfTools, a toolkit containing a number of bioinformatics tools running under Windows High Performance Computing Server 2008. It is an open source code package, where users and developers can share and add to. We currently start with three programs from the area of sequence analysis: 1) CoCoNUT for pairwise genome comparison, 2) parallel BLAST for biological database search, and 3) parallel global pairwise sequence alignment. In this report, we focus on technical aspects concerning how some components of these tools were ported from Linux/Unix environment to run under Windows. We also show the advantages of using the Windows HPC Cluster 2008. We demonstrate by experiments the performance gain achieved when using a computer cluster against a single machine. Furthermore, we show the results of comparing the performance of WinBioinfTools on the Windows and Linux Cluster.
Association of Metformin Use with Outcomes in Advanced Endometrial Cancer Treated with Chemotherapy

There is increasing evidence that metformin, a commonly used treatment for diabetes, might have the potential to be repurposed as an economical and safe cancer therapeutic. The aim of this study was to determine whether stage III-IV or recurrent endometrial cancer patients who are using metformin during treatment with chemotherapy have improved survival. To test this we analyzed a retrospective cohort of subjects at two independent institutions who received chemotherapy for stage III-IV or recurrent endometrial cancer from 1992 to 2011. Diagnosis of diabetes, metformin use, demographics, endometrial cancer clinico-pathologic parameters, and survival duration were abstracted. The primary outcome was overall survival. The final cohort included 349 patients, 31 (8.9%) had diabetes and used metformin, 28 (8.0%) had diabetes but did not use metformin, and 291 (83.4%) did not have diabetes. The results demonstrate that the median overall survival was 45.6 months for patients with diabetes who used metformin compared to 12.5 months for patients with diabetes who did not use metformin and 28.5 months for patients without diabetes (log-rank test comparing the three groups P = 0.006). In a model adjusted for confounders, the difference in survival between the three groups remained statistically significant (P = 0.023). The improvement in survival among metformin users was not explained by better baseline health status or more aggressive use of chemotherapy. Overall, the findings in this retrospective cohort of endometrial cancer patients with stage III-IV or recurrent disease treated with chemotherapy indicate that patients with diabetes who were concurrently treated with metformin survived longer than patients with diabetes who did not use metformin.
Therapeutic stem cell plasticity orchestrates tissue plasticity.

In ischaemic stroke, recanalizing and neuroprotective therapeutic strategies have failed, so far, adequately to prevent or reverse tissue damage. The sudden and unpredictable onset (Roger et al ., 2011) and the local tissue complexity (Lo, 2008) are the main limiting factors. Nevertheless, tissue damage and loss of function can—for a definite period after stroke—be constrained by a ‘plastic’ reaction that the brain is capable of setting in place, which acts to reconstruct neuronal circuits. The fundamental premise of the idea of brain plasticity in stroke was inferred by Paul Broca (1824–80) in 1865. While studying autoptic cases of aphasic patients, he hypothesized that a lost cortical function (namely speech) can be sustained by another brain area, even localized in the contralateral hemisphere (Broca, 1865). Since then, many scientists have investigated, at both macroscopic and microscopic levels, the mechanisms underlying CNS remodelling after injury and, nowadays, there is no uncertainty that the nervous tissue is endowed with a very considerable degree of plasticity (Payne and Lomber, 2001). The rapid and massive structural changes occurring at synaptic (e.g. strength of connectivity, synaptogenesis), dendritic and axonal levels (e.g. sprouting, branching), during both physiological and pathological conditions, are the most striking examples of this phenomenon. In recent years, the possibility that the nervous system can also achieve change in structures that alter networks of functional connectivity (Paillard, 1976) has been reinforced by the discovery of another adaptive mechanism termed neurogenesis (Altman and Das, 1965). The adult CNS naturally replaces extruded or worn out cells through generation of new elements of neuronal and glial lineages from neural stem and progenitor cells. The discovery of adult neuro(glio)genesis has fostered the development of therapies based on neural progenitor cell transplantation for acute and chronic neurodegenerative disorders, including stroke (Lindvall and Kokaia, 2010). However, it is still not …
Extraction from Biomedical Literature Using Predicate-Argument Structure Patterns

In this paper, we propose an open information extraction (Open IE) system, which attempts to extract relations (or facts) of any type from biomedical literature. What distinguishes our system from existing Open IE systems is that it uses predicateargument structure patterns to detect the candidates of possible biomedical facts. We have manually evaluated the output of our system and found that it is reasonably accurate (50% precision). We have also applied our system to the whole MEDLINE and revealed that the relations between ‘Amino Acid, Peptide, or Protein’ entities are the most frequently described type of relations.