In NAND Flash-based SSDs, deduplication can provide an effective resolution of three critical issues: cell lifetime, write performance, and garbage collection overhead. However, deduplication at SSD device level distinguishes itself from the one at enterprise storage systems in many aspects, whose success lies in proper exploitation of underlying very limited hardware resources and workload characteristics of SSDs. In this paper, we develop a novel deduplication framework elaborately tailored for SSDs. We first mathematically develop an analytical model that enables us to calculate the minimum required duplication rate in order to achieve performance gain given deduplication overhead. Then, we explore a number of design choices for implementing deduplication components by hardware or software. As a result, we propose two acceleration techniques: sampling-based filtering and recency-based fingerprint management. The former selectively applies deduplication based upon sampling and the latter effectively exploits limited controller memory while maximizing the deduplication ratio. We prototype the proposed deduplication framework in three physical hardware platforms and investigate deduplication efficiency according to various CPU capabilities and hardware/software alternatives. Experimental results have shown that we achieve the duplication rate ranging from 4% to 51%, with an average of 17%, for the nine workloads considered in this work. The response time of a write request can be improved by up to 48% with an average of 15%, while the lifespan of SSDs is expected to increase up to 4.1 times with an average of 2.4 times.

In this paper, we present a tele-meeting system which uses an augmented robot agent as the representation of the remote participant. In this system, we augment a 3D volume video of the remote participant over the on-site robot. The robot agent in this system represents a remote user with camera, microphone, and mobility. Using this robot agent, the remote user and the local user can show their appearances and interact with tangible interfaces. This robot agent system can be applied to various tele-meeting applications such as tele-marketing and tele-tutoring. For example, we implemented a tele-marketing system to show the feasibility of the suggested system.

BACKGROUND: Quasi-steady state approximation (QSSA) based on time-scale analysis is known to be an effective method for simplifying metabolic reaction system, but the conventional analysis becomes time-consuming and tedious when the system is large. Although there are automatic methods, they are based on eigenvalue calculations of the Jacobian matrix and on linear transformations, which have a high computation cost. A more efficient estimation approach is necessary for complex systems. RESULTS: This work derived new time-scale factor by focusing on the problem structure. By mathematically reasoning the balancing behavior of fast species, new time-scale criteria were derived with a simple expression that uses the Jacobian matrix directly. The algorithm requires no linear transformation or decomposition of the Jacobian matrix, which has been an essential part for previous automatic time-scaling methods. Furthermore, the proposed scale factor is estimated locally. Therefore, an iterative procedure was also developed to find the possible multiple boundary layers and to derive an appropriate reduced model. CONCLUSION: By successive calculation of the newly derived time-scale criteria, it was possible to detect multiple boundary layers of full ordinary differential equation (ODE) models. Besides, the iterative procedure could derive the appropriate reduced differential algebraic equation (DAE) model with consistent initial values, which was tested with simple examples and a practical example.

UNLABELLED: EcoProDB is a web-based database for comparative proteomics of Escherichia coli. The database contains information on E. coli proteins identified on 2D gels along with other resources collected from various databases and published literature, with a special feature of showing the expression levels of E. coli proteins under different genetic and environmental conditions. It also provides comparative information of subcellular localization, theoretical 2D map, experimental 2D map and integrated protein information via an interactive web interface and application such as the Map Browser. Users can also upload their own 2D gels, extract core information associated with the proteins and 2D gel results from different experiments and consequently generate new knowledge and hypotheses for further studies. AVAILABILITY: EcoProDB database system is accessible at http://eecoli.kaist.ac.kr.

SUMMARY: WebCell is a web-based environment for managing quantitative and qualitative information on cellular networks and for interactively exploring their steady-state and dynamic behaviors in response to systemic perturbations. It is designed as a user-friendly web interface, allowing users to efficiently construct, visualize, analyze and store reaction network models, thereby facilitating kinetic modeling and in silico simulation of biological systems of interest. A collected model library is also available to provide comprehensive implications for cellular dynamics of the published models.

SUMMARY: MFAML is a standard data structure designed for the formal representation and effective exchange of metabolic flux models. It allows for the explicit description of stationary states of a metabolic system by defining environmental/genetic conditions of the system, e.g. flux measurements, balancing constraints and physiological objectives as well as basic information on metabolites and reactions. In addition, a library of MFAML comprising a model parser and a converter provides an open framework for establishing the pipeline from metabolic modeling to metabolic flux analysis. AVAILABILITY: MFAML (version 1) is fully described and available at http://mbel.kaist.ac.kr/mfaml/.

Abstract Summary: BioSilico is a web-based database system that facilitates the search and analysis of metabolic pathways. Heterogeneous metabolic databases including LIGAND, ENZYME, EcoCyc and MetaCyc are integrated in a systematic way, thereby allowing users to efficiently retrieve the relevant information on enzymes, biochemical compounds and reactions. In addition, it provides well-designed view pages for more detailed summary information. BioSilico is developed as an extensible system with a robust systematic architecture. Availability: BioSilico database system is accessible at http://biosilico.kaist.ac.kr

SUMMARY: MetaFluxNet is a program package for managing information on the metabolic reaction network and for quantitatively analyzing metabolic fluxes in an interactive and customized way. It allows users to interpret and examine metabolic behavior in response to genetic and/or environmental modifications. As a result, quantitative in silico simulations of metabolic pathways can be carried out to understand the metabolic status and to design the metabolic engineering strategies. The main features of the program include a well-developed model construction environment, user-friendly interface for metabolic flux analysis (MFA), comparative MFA of strains having different genotypes under various environmental conditions, and automated pathway layout creation. AVAILABILITY: http://mbel.kaist.ac.kr/ SUPPLEMENTARY INFORMATION: A manual for MetaFluxNet is available as PDF file.