snu-aidas/HVMap-dataset huggingface dataset:
Community Structure Detection for Overlapping Modules through Mathematical Programming in Protein Interaction Networks

Community structure detection has proven to be important in revealing the underlying properties of complex networks. The standard problem, where a partition of disjoint communities is sought, has been continually adapted to offer more realistic models of interactions in these systems. Here, a two-step procedure is outlined for exploring the concept of overlapping communities. First, a hard partition is detected by employing existing methodologies. We then propose a novel mixed integer non linear programming (MINLP) model, known as OverMod, which transforms disjoint communities to overlapping. The procedure is evaluated through its application to protein-protein interaction (PPI) networks of the rat, E. coli, yeast and human organisms. Connector nodes of hard partitions exhibit topological and functional properties indicative of their suitability as candidates for multiple module membership. OverMod identifies two types of connector nodes, inter and intra-connector, each with their own particular characteristics pertaining to their topological and functional role in the organisation of the network. Inter-connector proteins are shown to be highly conserved proteins participating in pathways that control essential cellular processes, such as proliferation, differentiation and apoptosis and their differences with intra-connectors is highlighted. Many of these proteins are shown to possess multiple roles of distinct nature through their participation in different network modules, setting them apart from proteins that are simply 'hubs', i.e. proteins with many interaction partners but with a more specific biochemical role.
A Fast Computational Algorithm for the Discrete Cosine Transform

After his military service he joined N. V. Philips' Gloeilampenfabrieken, Eindhoven, where he worked in the fields of electronic design of broadcast radio sets, integrated circuits and optical character recognition. Since 1970 he has been at the Philips Research Laboratories , where he is now working on digital communication systems. Mr. Roza is a member of the Netherlands Electronics and Radio Society. he worked in the field of data transmission and on the synchronizationaspects of a videophone system. Since 1972 he has been engaged in system design and electronics of high speed digital transmission. Abstruct-A Fast Discrete Cosine Transform algorithm has been developed which provides a factor of six improvement in computational complexity when compared to conventional Discrete Cosine Transform algorithms using the Fast Fourier Transform. The algorithm is derived in the form of matrices and illustrated by a signal-flow graph, which may be readily translated to hardware or software implementations.
Deep Machine Learning and Neural Networks: An Overview

Received Feb 10, 2017 Revised Apr 14, 2017 Accepted May 23, 2017 Deep learning is a technique of machine learning in artificial intelligence area. Deep learning in a refined "machine learning" algorithm that far surpasses a considerable lot of its forerunners in its capacities to perceive syllables and picture. Deep learning is as of now a greatly dynamic examination territory in machine learning and example acknowledgment society. It has increased colossal triumphs in an expansive zone of utilizations, for example, speech recognition, computer vision and natural language processing and numerous industry item. Neural network is used to implement the machine learning or to design intelligent machines. In this paper brief introduction to all machine learning paradigm and application area of deep machine learning and different types of neural networks with applications is discussed. Keyword:
Outline for a Logical Theory of Adaptive Systems

The purpose of this paper is to outline a theory of automata appropriate to the properties, requirements and questions of adaptation. The conditions that such a theory should satisfy come from not one but several fields: It should be possible to formulate, at least in an abstract version, some of the key hypotheses and problems from relevant parts of biology, particularly the areas concerned with molecular control and neurophysiology. The work in theoretical genetics initiated by R. A. Fisher [5] and Sewall Wright [24] should find a natural place in the theory. At the same time the rigorous methods of automata theory should be brought to bear (particularly those parts concerned with growing automata [1, 2, 3, 7, 8, 12, 15, 18, 23]). Finally the theory should include among its models abstract counterparts of artificial adaptive systems currently being studied, systems such as Newell-Shaw-Simon's "General Problem Solver" [13], Selfridge's "Pandemonium" [17], von Neumann's self-reproducing automata [22] and Turing's morphogenetic systems [19, 20]. The theory outlined here (which is intended as a theory and not the theory) is presented in four main parts. Section 2 discusses the study of adaptation via generation procedures and generated populations. Section 3 defines a continuum of generation procedures realizable in a reasonably direct fashion. Section 4 discusses the realization of generation procedures as populations of interacting programs in an iterative circuit computer. Section 5 discusses the process of adaptation in the context of the earlier sections. The paper concludes with a discussion of the nature of the theorems of this theory. Before entering upon the detailed discussion, one general feature of the theory should be noted. The interpretations or models of the theory divide into two broad categories: "complete" models and "incomplete" models. The "complete" models comprise the artificial systems--systems with properties and specifications completely delimited at the outset (cf. the rules of a game). One set of "complete" models for the theory consists of various programmed parallel computers. The "incomplete" models encompass natural systems. Any natural system involves an unlimited number of factors and, inevitably, the theory can handle only a selected few of these. Because there will always be variables which do not have explicit counterparts in the theory, the derived statements must be approximate relative to natural systems. For this reason it helps greatly that
Self-Assembling Machine

This letter describes dynamic self-assembly of two-component rotors floating at the interface between liquid and air into simple, reconfigurable mechanical systems ~‘‘machines’’!. The rotors are powered by an external, rotating magnetic field, and their positions within the interface are controlled by:~i! repulsive hydrodynamic interactions between them and ~ii ! by localized magnetic fields produced by an array of small electromagnets located below the plane of the interface. The mechanical functions of the machines depend on the spatiotemporal sequence of activation of the electromagnets. ©2004 American Institute of Physics. @DOI: 10.1063/1.1664019 #
The dark side of smartphone usage: Psychological traits, compulsive behavior and technostress

0747-5632/$ see front matter 2013 Elsevier Ltd. All rights reserved. http://dx.doi.org/10.1016/j.chb.2013.10.047 ⇑ Corresponding author. Address: Department of Business Management, National Sun Yat-sen University, No. 70, Lianhai Rd., Gushan District, Kaohsiung City 804, Taiwan, Tel.: +886 7 525 2000x4627. E-mail address: ctchang@faculty.nsysu.edu.tw (C.-T. Chang). Yu-Kang Lee, Chun-Tuan Chang ⇑, You Lin, Zhao-Hong Cheng
Innovation and practice of continuous auditing

Article history: Received 27 August 2010 Received in revised form 23 December 2010 Accepted 6 January 2011 The traditional audit paradigm is outdated in the real time economy. Innovation of the traditional audit process is necessary to support real time assurance. Practitioners and academics are exploring continuous auditing as a potential successor to the traditional audit paradigm. Using technology and automation, continuous auditing methodology enhances the efficiency and effectiveness of the audit process to support real time assurance. This paper defines how continuous auditing methodology introduces innovation to practice in seven dimensions and proposes a four-stage paradigm to advance future research. In addition, we formulate a set of methodological propositions concerning the future of assurance for practitioners and academic researchers. © 2011 Elsevier Inc. All rights reserved.
A survey of vertical handover decision algorithms in Fourth Generation heterogeneous wireless networks

1389-1286/$ see front matter 2010 Elsevier B.V doi:10.1016/j.comnet.2010.02.006 * Corresponding author. Tel.: +61 3 99053503; fa E-mail address: ASekerci@ieee.org (Y. Ahmet S ek Vertical handover decision (VHD) algorithms are essential components of the architecture of the forthcoming Fourth Generation (4G) heterogeneous wireless networks. These algorithms need to be designed to provide the required Quality of Service (QoS) to a wide range of applications while allowing seamless roaming among a multitude of access network technologies. In this paper, we present a comprehensive survey of the VHD algorithms designed to satisfy these requirements. To offer a systematic comparison, we categorize the algorithms into four groups based on the main handover decision criterion used. Also, to evaluate tradeoffs between their complexity of implementation and efficiency, we discuss three representative VHD algorithms in each group. 2010 Elsevier B.V. All rights reserved.
Markov Random Field model for single image defogging

Fog reduces contrast and thus the visibility of vehicles and obstacles for drivers. Each year, this causes traffic accidents. Fog is caused by a high concentration of very fine water droplets in the air. When light hits these droplets, it is scattered and this results in a dense white background, called the atmospheric veil. As pointed in [1], Advanced Driver Assistance Systems (ADAS) based on the display of defogged images from a camera may help the driver by improving objects visibility in the image and thus may lead to a decrease of fatality and injury rates. In the last few years, the problem of single image defogging has attracted attention in the image processing community. Being an ill-posed problem, several methods have been proposed. However, a few among of these methods are dedicated to the processing of road images. One of the first exception is the method in [2], [1] where a planar constraint is introduced to improve the restoration of the road area, assuming an approximately flat road. The single image defogging problem being ill-posed, the choice of the Bayesian approach seems adequate to set this problem as an inference problem. A first Markov Random Field (MRF) approach of the problem has been proposed recently in [3]. However, this method is not dedicated to road images. In this paper, we propose a novel MRF model of the single image defogging problem which applies to all kinds of images but can also easily be refined to obtain better results on road images using the planar constraint. A comparative study and quantitative evaluation with several state-of-the-art algorithms is presented. This evaluation demonstrates that the proposed MRF model allows to derive a new algorithm which produces better quality results, in particular in case of a noisy input image.
The Life Satisfaction Advantage of Being Married and Gender Specialization

This investigation examined whether the life satisfaction advantage of married over unmarried persons decreased over the last three decades, and whether the changes in the contextual gender specialization explained this trend. The author used representative data from the World Values Survey–European Values Study (WVS–EVS)-integrated data set for 87 countries (N = 292,525) covering a period of 29 years. Results showed that the life satisfaction advantage of being married decreased among men but not among women. The analysis did not support the hypothesis that contextual gender specialization shaped the observed trend. Only in developed countries the declining contextual specialization correlated with smaller life satisfaction advantage of being married. This evidence suggests that the advantages of marriage are greater under conditions that support freedom of choice rather than economic necessity. (130 words)
Modeling narrative discourse

Modeling Narrative Discourse
Health risks in areas close to urban solid waste landfill sites.

OBJECTIVE
To evaluate the association between living close to solid waste landfill sites and occurrences of cancer and congenital malformations among populations in their vicinity.


METHODS
Deaths among people living in the municipality of São Paulo, Southeastern Brazil, between 1998 and 2002 were selected and geocoded, according to selected causes. Over the period evaluated, there were 351 deaths due to liver cancer, 160 due to bladder cancer and 224 due to leukemia, among adults, 25 due to childhood leukemia and 299 due to congenital malformation, in areas close to landfill sites. Buffer zones of radius 2 km around the 15 sites delimited the areas exposed. Standardized mortality ratios for each outcome were analyzed in Bayesian spatial models.


RESULTS
In a general manner, the highest values for the standardized mortality ratios were found in more central areas of the municipality, while the landfill sites were located in more peripheral areas. The standardized mortality ratios did not indicate any excess risk for people living in areas close to solid waste landfill sites in the municipality of São Paulo. For landfill sites in operation, there was a greater risk of bladder and liver cancer, and death due to congenital malformation, but without statistical significance.


CONCLUSIONS
No increase in the risk of cancer or congenital malformations was found in areas in the vicinity of urban waste dumps in the municipality of São Paulo. The weak associations and the imprecision of the estimates obtained did not allow any causal relationship to be established.
FAST CALCULATION OF HARALICK TEXTURE FEATURES

It is our aim in this research to optimize the numerical computation of the Haralick texture features [1] that consists of two steps. Haralick texture features are used as a primary component to discern between different protein structures in microscopic bio-images. The first of these two parts is the construction of the co-occurrence matrix. Upon completion of this implementation, we will attempt to optimize the code using a novel recursive blocking algorithm. We will also use standard practices of optimizing code such as scalar replacement and unrolling. The second part, feature calculation, will be optimized by putting to use information about the data that we will be working with and eliminating any redundancies in the code. We will also apply the practices of unrolling and scalar replacement. With these optimizations in place, we will show that we reduce the runtime by a20% in the co-occurrence construction phase and by a factor of20 in the feature calculation phase of computation.
Cloudlet deployment in local wireless networks: Motivation, architectures, applications, and open challenges

In past few years, advancement in mobile applications and their integration with Cloud computing services has introduced a new computing paradigm known as Mobile Cloud Computing. Although Cloud services support a wide range of mobile applications, access to these services suffers from several performance issues such as WAN latency, jitter, and packet losses. Cloudlet frameworks are proposed to overcome these performance issues. More specifically, Cloudlets aim to bring the Cloud or a specific part of the Cloud closer to the mobile device by utilizing proximate computing resources to perform compute-intensive tasks. This paper presents a comprehensive survey on the state-of-the-art mobile Cloudlet architectures. We also classify the state-of-the-art Cloudlet solutions by presenting a hierarchical taxonomy. Moreover, the areas of Cloudlet applications are also identified and presented. Cloudlet discovery, resource management, data security, mobility, application offloading, and most importantly incentives to deploy a Cloudlet are areas that still needs to be investigated by the research community. The critical aspects of the current Cloudlet frameworks in Mobile Cloud Computing are analyzed to determine the strengths and weaknesses of the frameworks. The similarities and differences of the frameworks based on the important parameters, such as scalability, mobility support, Internet dependency, dynamic configuration, energy savings, and execution cost, are also investigated. The requirements for deploying the Cloudlet in a Local Wireless Network are also highlighted and presented. We also discuss open research challenges that Cloudlet deployments face in Local Wireless Networks. & 2015 Elsevier Ltd. All rights reserved.
Comparison of direct and iterative artificial neural network forecast approaches in multi-periodic time series forecasting

Artificial neural network is a valuable tool for time series forecasting. In the case of performing multiperiodic forecasting with artificial neural networks, two methods, namely iterative and direct, can be used. In iterative method, first subsequent period information is predicted through past observations. Afterwards, the estimated value is used as an input; thereby the next period is predicted. The process is carried on until the end of the forecast horizon. In the direct forecast method, successive periods can be predicted all at once. Hence, this method is thought to yield better results as only observed data is utilized in order to predict future periods. In this study, forecasting was performed using direct and iterative methods, and results of the methods are compared using grey relational analysis to find the method which gives a better result. 2008 Elsevier Ltd. All rights reserved.
Prospective outcomes of young and middle-aged adults with medial compartment osteoarthritis treated with a proximal tibial opening wedge osteotomy.

PURPOSE
The purpose of this study was to conduct a prospective outcome analysis of proximal tibial opening wedge osteotomies performed in young and middle-aged patients (aged <55 years) for the treatment of symptomatic medial compartment osteoarthritis of the knee.


METHODS
A consecutive series of young and middle-aged adults who underwent proximal tibial opening wedge osteotomies for symptomatic medial compartment osteoarthritis and genu varus alignment were prospectively followed up. Patients were evaluated with preoperative and postoperative modified Cincinnati Knee Scores and International Knee Documentation Committee objective knee subscores for knee effusions and the single-leg hop. Calculations were made of the preoperative and postoperative long-leg radiographic mechanical weight-bearing axis, patellar height (Insall-Salvati index), and tibial slope. A separate cohort of asymptomatic patients was used to quantify tibial plateau anatomy to provide an objective description of the lower extremity mechanical axis.


RESULTS
There were 47 patients, with a mean age of 40.5 years, with a minimum of 2 years' follow-up, who formed this patient cohort. Modified Cincinnati Knee Scores improved significantly from 42.9 preoperatively to 65.1 at a mean of 3.6 years of follow-up. Radiographic analysis of a separate cohort showed the medial tibial eminence to be located at the 41% point along the tibial plateau from medial (0%) to lateral (100%). There was a significant improvement in malalignment: the mean mechanical axis passed through the tibial plateau at 23% of the distance along the proximal tibia preoperatively versus 54% postoperatively. The Insall-Salvati index decreased from 1.03 to 0.95 (P < .05), and posterior tibial slope increased from 9.4° to 11.7° (P < .05). Of the osteotomies, 3 (6%) were considered failures, defined by revision of the osteotomy or conversion to total knee arthroplasty.


CONCLUSIONS
Performing proximal tibial opening wedge osteotomies to treat symptomatic medial compartment osteoarthritis in carefully selected patients leads to a significant improvement in subjective and objective clinical outcome scores with correction of malalignment at a mean of 3.6 years postoperatively.


LEVEL OF EVIDENCE
Level IV, therapeutic case series.
E-ethical leadership for virtual project teams

This paper presents a review of current literature on ethical theories as they relate to ethical leadership in the virtual business environment (e-ethics) and virtual project leadership. Ethical theories are reviewed in relation to virtual project management, such as participative management, Theory Y, and its relationship to utilitarianism; Kantian ethics, motivation, and trust; communitarian ethics, ethic of care and egalitarianism; Stakeholder Theory; and the use of political tactics. Challenges to e-ethical leadership are presented and responses to these issues discussed. The conclusion presents four propositions for future research. The purpose of this paper is to identify secondary literature on e-ethics and how this new area of business ethics may affect the leaders of virtual project teams. 2008 Elsevier Ltd and IPMA. All rights reserved.
Idle sense: an optimal access method for high throughput and fairness in rate diverse wireless LANs

We consider wireless LANs such as IEEE 802.11 operating in the unlicensed radio spectrum. While their nominal bit rates have increased considerably, the MAC layer remains practically unchanged despite much research effort spent on improving its performance. We observe that most proposals for tuning the access method focus on a single aspect and disregard others. Our objective is to define an access method optimized for throughput and fairness, able to dynamically adapt to physical channel conditions, to operate near optimum for a wide range of error rates, and to provide equal time shares when hosts use different bit rates.We propose a novel access method derived from 802.11 DCF [2] (Distributed Coordination Function) in which all hosts use similar values of the contention window CW to benefit from good short-term access fairness. We call our method Idle Sense, because each host observes the mean number of idle slots between transmission attempts to dynamically control its contention window. Unlike other proposals, Idle Sense enables each host to estimate its frame error rate, which can be used for switching to the right bit rate. We present simulations showing how the method leads to high throughput, low collision overhead, and low delay. The method also features fast reactivity and time-fair channel allocation.