2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP)最新文献_第8页

MicroRNA-Target Interaction: A Parallel Approach for Computing Pairing Energy microrna -靶标相互作用:计算配对能量的并行方法

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.117

E. Ronchieri, D. D'Agostino, L. Milanesi, I. Merelli

{"title":"MicroRNA-Target Interaction: A Parallel Approach for Computing Pairing Energy","authors":"E. Ronchieri, D. D'Agostino, L. Milanesi, I. Merelli","doi":"10.1109/PDP.2016.117","DOIUrl":"https://doi.org/10.1109/PDP.2016.117","url":null,"abstract":"MicroRNAs (or miRNA) are key regulators of gene expression, but the precise mechanisms underlying their interaction with their mRNA targets are still poorly understood. Since miRNA are involved in the onset of many different diseases, the study of their interaction with the genome is very important to study. Although the experimental identification of miRNA can be performed using sequencing techniques, the characterization of their target is quite complex. Therefore, computational methods are required to focus the analysis on small set of possibilities. Unfortunately, the limited knowledge about the processes that regulate miRNA target association impairs the development of optimal algorithm for prediction of the regulated genes. This is the reason why a variety of miRNA target prediction algorithms are available, but results of their application are often inconsistent. Therefore, many miRNA targets have been computationally predicted, but only a limited number of these were experimentally validated. Different approaches can be used to recognize miRNA targets. These efforts have focused primarily on the quality of the sequence match between microRNA and target rather than on the role of the mRNA secondary structure in which the target is embedded. Nonetheless, it is known that the miRNA secondary structures contribute to target recognition, because there is an energetic cost to freeing base-pairing interactions within mRNA in order to make the target accessible for microRNA binding. This second approach can provide good results even when little is know about the conservation of the miRNA, but it has the drawback of being computationally very expensive. In this paper we propose a parallelization of PITA, which is one of the most popular algorithm that exploits energetic considerations for computing the miRNA-target predictions.","PeriodicalId":192273,"journal":{"name":"2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP)","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129889436","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

Efficient Congestion-Aware Scheme for Wireless on-Chip Networks 一种高效的无线片上网络拥塞感知方案

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.88

Amin Rezaei, M. Daneshtalab, M. Palesi, Danella Zhao

引用次数: 17

Novel Heuristic Mapping Algorithms for Design Space Exploration of Multiprocessor Embedded Architectures 多处理器嵌入式架构设计空间探索的新型启发式映射算法

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.78

Sima Sinaei, O. Fatemi

{"title":"Novel Heuristic Mapping Algorithms for Design Space Exploration of Multiprocessor Embedded Architectures","authors":"Sima Sinaei, O. Fatemi","doi":"10.1109/PDP.2016.78","DOIUrl":"https://doi.org/10.1109/PDP.2016.78","url":null,"abstract":"Electronic System level design has an important role in the multi-processor embedded system on chip design. Two important steps in this process are evaluation of a single design configuration and design space exploration. In the first part of design process, high-level simple analytical models for application mapping and evaluation are used and modified aiming at accelerating the evaluation of a single design configuration. Using the analytical model the design space is pruned and explored at high speed with low accuracy. In the second part of the design process, two Multi Objective Optimization Algorithms based on Particle Swarm Optimization and Simulated Annealing have been proposed to perform design space exploration of the pruned design space with higher accuracy taking advantages of low-level architectural simulation engines. The results obtained by proposed algorithms will provide the designer more accurate solutions within an acceptable time. Considering the MJPEG application as the case study, each of these methods produces a set of near-optimal points. Simulation results show that the proposed methods can lead to near-optimal design configurations with acceptable accuracy in reasonable time.","PeriodicalId":192273,"journal":{"name":"2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP)","volume":"31 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127066077","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 8

An Extension of Haruspex to Cover Vulnerabilities in Application Environments Haruspex的扩展以覆盖应用程序环境中的漏洞

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.54

F. Baiardi, F. Tonelli, Lorenzo Isoni

引用次数: 1

Multi-agent System with Multiple Group Modelling for Bird Flocking on GPU 利用 GPU 为鸟类成群建立多群体模型的多代理系统

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.112

Rahmat Hidayat, D. Spataro, E. D. Giorgio, W. Spataro, D. D'Ambrosio

引用次数: 1

Insights into Encrypted Network Connections: Analyzing Remote Desktop Protocol Traffic 洞察加密网络连接:分析远程桌面协议流量

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.38

M. Ussath, Feng Cheng, C. Meinel

{"title":"Insights into Encrypted Network Connections: Analyzing Remote Desktop Protocol Traffic","authors":"M. Ussath, Feng Cheng, C. Meinel","doi":"10.1109/PDP.2016.38","DOIUrl":"https://doi.org/10.1109/PDP.2016.38","url":null,"abstract":"An increasing number of network connections are encrypted to protect the confidentiality of the transferred data. Also attackers make greater use of encrypted protocols to hide from detection and to hinder investigations. Currently, most security systems (e.g., Intrusion Detection Systems (IDSs) and firewalls) cannot effectively analyze encrypted traffic. This results in \"blind spots\", which can put the security of a whole environment at risk. In this paper, we propose a system that is capable of investigating encrypted Remote Desktop Protocol (RDP) connections. In the first step the private RSA key of the RDP server is used to decrypt the TLS/SSL layer of the RDP stream. In the second step our system extracts all relevant information (e.g., keystrokes and transferred files) from the RDP connection. This information makes it possible to reconstruct the behavior and the activities of an attacker with a high accuracy. For the evaluation of our approach we performed a scan of 231,025 internet facing RDP systems and revealed that over 95 % of the RDP connections to these systems can be decrypted with our system.","PeriodicalId":192273,"journal":{"name":"2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP)","volume":"84 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126398004","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Microbenchmarks for GPU Characteristics: The Occupancy Roofline and the Pipeline Model GPU特性的微基准测试:占用屋顶线和管道模型

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.120

J. Lemeire, Jan G. Cornelis, Laurent Segers

{"title":"Microbenchmarks for GPU Characteristics: The Occupancy Roofline and the Pipeline Model","authors":"J. Lemeire, Jan G. Cornelis, Laurent Segers","doi":"10.1109/PDP.2016.120","DOIUrl":"https://doi.org/10.1109/PDP.2016.120","url":null,"abstract":"In this paper we present microbenchmarks in OpenCL to measure the most important performance characteristics of GPUs. Microbenchmarks try to measure individual characteristics that influence the performance. First, performance, in operations or bytes per second, is measured with respect to the occupancy and as such provides an occupancy roofline curve. The curve shows at which occupancy level peak performance is reached. Second, when considering the cycles per instruction of each compute unit, we measure the two most important characteristics of an instruction: its issue and completion latency. This is based on modeling each compute unit as a pipeline for computations and a pipeline for the memory access. We also measure some specific characteristics: the influence of independent instructions within a kernel and thread divergence. We argue that these are the most important characteristics for understanding the performance and predicting performance. The results for several Nvidia and AMD GPUs are provided. A free java application containing the microbenchmarks is available on www.gpuperformance.org.","PeriodicalId":192273,"journal":{"name":"2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP)","volume":"162 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114205080","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 8

A Flexible Profiling Sub-System for Reconfigurable Logic Architectures 一种可重构逻辑体系结构的柔性分析子系统

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.86

G. Valente, V. Muttillo, L. Pomante, F. Federici, M. Faccio, A. Moro, S. Ferri, Carlo Tieri

引用次数: 18

Bag-of-Tasks Load Balancing on Power-Aware Clusters 基于功率感知集群的任务袋负载均衡

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.25

G. Terzopoulos, H. Karatza

引用次数: 5

PICA: Multi-population Implementation of Parallel Imperialist Competitive Algorithms PICA:并行帝国主义竞争算法的多种群实现

2016 24th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP) Pub Date : 2016-02-01 DOI: 10.1109/PDP.2016.93

Amin Majd, S. Lotfi, Golnaz Sahebi, M. Daneshtalab, J. Plosila

引用次数: 10