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Accelerating Group Fusion for Ligand-Based Virtual Screening on Multi-core and Many-core Platforms
( Mohd-norhadri Mohd-hilmi ),( Marwah Haitham Al-laila ),( Nurul Hashimah Ahamed Hassain Malim ) 한국정보처리학회 2016 Journal of information processing systems Vol.12 No.4
The performance issues of screening large database compounds and multiple query compounds in virtual screening highlight a common concern in Chemoinformatics applications. This study investigates these problems by choosing group fusion as a pilot model and presents efficient parallel solutions in parallel platforms, specifically, the multi-core architecture of CPU and many-core architecture of graphical processing unit (GPU). A study of sequential group fusion and a proposed design of parallel CUDA group fusion are presented in this paper. The design involves solving two important stages of group fusion, namely, similarity search and fusion (MAX rule), while addressing embarrassingly parallel and parallel reduction models. The sequential, optimized sequential and parallel OpenMP of group fusion were implemented and evaluated. The outcome of the analysis from these three different design approaches influenced the design of parallel CUDA version in order to optimize and achieve high computation intensity. The proposed parallel CUDA performed better than sequential and parallel OpenMP in terms of both execution time and speedup. The parallel CUDA was 5-10x faster than sequential and parallel OpenMP as both similarity search and fusion MAX stages had been CUDA-optimized.
Accelerating Group Fusion for Ligand-Based Virtual Screening on Multi-core and Many-core Platforms
Mohd-Hilmi, Mohd-Norhadri,Al-Laila, Marwah Haitham,Hassain Malim, Nurul Hashimah Ahamed Korea Information Processing Society 2016 Journal of information processing systems Vol.9 No.3
The performance issues of screening large database compounds and multiple query compounds in virtual screening highlight a common concern in Chemoinformatics applications. This study investigates these problems by choosing group fusion as a pilot model and presents efficient parallel solutions in parallel platforms, specifically, the multi-core architecture of CPU and many-core architecture of graphical processing unit (GPU). A study of sequential group fusion and a proposed design of parallel CUDA group fusion are presented in this paper. The design involves solving two important stages of group fusion, namely, similarity search and fusion (MAX rule), while addressing embarrassingly parallel and parallel reduction models. The sequential, optimized sequential and parallel OpenMP of group fusion were implemented and evaluated. The outcome of the analysis from these three different design approaches influenced the design of parallel CUDA version in order to optimize and achieve high computation intensity. The proposed parallel CUDA performed better than sequential and parallel OpenMP in terms of both execution time and speedup. The parallel CUDA was 5-10x faster than sequential and parallel OpenMP as both similarity search and fusion MAX stages had been CUDA-optimized.
Cyberbullying and a Mobile Game App? An Initial Perspective on an Alternative Solution
Singh, Manmeet Mahinderjit,Ng, Ping Jie,Ya, Kar Ming,Husin, Mohd Heikal,Malim, Nurul Hashimah Ahamed Hassain Korea Information Processing Society 2017 Journal of information processing systems Vol.13 No.3
Cyberbullying has been an emerging issue in recent years where research has revealed that users generally spend an increasing amount of time in social networks and forums to keep connected with each other. However, issue arises when cyberbullies are able to reach their victims through these social media platforms. There are different types of cyberbullying and like traditional bullying; it causes victims to feel overly selfconscious, increases their tendency to self-harm and generally affects their mental state negatively. Such situations occur due to security issues such as user anonymity and the lack of content restrictions in some social networks or web forums. In this paper, we highlight the existing solutions, which are Intrusion Prevention System and Intrusion Detection System from a number of researchers. However, even with such solutions, cyberbullying acts still occurs at an alarming rate. As such, we proposed an alternative solution that aims to prevent cyberbullying activities at a younger age, e.g., young children. The application would provide an alternative method to preventing cyberbullying activities among the younger generations in the future.
Cyberbullying and a Mobile Game App? An Initial Perspective on an Alternative Solution
( Manmeet Mahinderjit Singh ),( Ping Jie Ng ),( Kar Ming Yap ),( Mohd Heikal Husin ),( Nurul Hashimah Ahamed Hassain Malim ) 한국정보처리학회 2017 Journal of information processing systems Vol.13 No.3
Cyberbullying has been an emerging issue in recent years where research has revealed that users generally spend an increasing amount of time in social networks and forums to keep connected with each other. However, issue arises when cyberbullies are able to reach their victims through these social media platforms. There are different types of cyberbullying and like traditional bullying; it causes victims to feel overly self-conscious, increases their tendency to self-harm and generally affects their mental state negatively. Such situations occur due to security issues such as user anonymity and the lack of content restrictions in some social networks or web forums. In this paper, we highlight the existing solutions, which are Intrusion Prevention System and Intrusion Detection System from a number of researchers. However, even with such solutions, cyberbullying acts still occurs at an alarming rate. As such, we proposed an alternative solution that aims to prevent cyberbullying activities at a younger age, e.g., young children. The application would provide an alternative method to preventing cyberbullying activities among the younger generations in the future.
Safia Syazana Mohtar,Norasikin Saman,Ahmad Mujahid Md Noor,Tengku Nur Zulaikha Tengku Malim Busu,Nor Aida Yusoff,Hanapi Mat 한국화학공학회 2019 Korean Journal of Chemical Engineering Vol.36 No.5
Flocculation kinetics and sludge dewatering of kaolin suspension as influenced by various q-EFBC flocculant dosing were studied. In this study, 62.5mg L1 q-EFBC exhibited the highest turbidity removal efficiency of 99.53± 0.08%. The adsorption rate of kaolin towards 12.5mg L1 to 112.5mg L1 q-EFBC dosing increased rapidly for t<60 s and became gradual before completion. The mass transfer coefficient was independent of dosage. The experimental data best-fitted the non-linear pseudo-first order due to the R2>0.99 and the lowest standard deviation. The highest rate constant of particle aggregation and breakage was consistent with the highest rate constant of particle collision, which led to the highest turbidity removal at the optimal dosage. The rate-limiting steps in the flocculation process were particle collision and aggregation since their rate constant was lower than the other kinetic constants. The lower values of SRF and TTF of treated sludge as compared to the untreated one confirmed the improvement in the dewaterability characteristic. The lowest TTF (37.44±1.44 s) and SRF (1.49×1010 m kg1) was observed for 62.5mg L1 q-EFBC. The high turbidity removal and improved sludge dewaterability indicate the potential application of q-EFBC for water treatment.