Dynamic load balancing for the distributed mining of molecular structures

In molecular biology, it is often desirable to find common properties in large numbers of drug candidates. One family of methods stems from the data mining community, where algorithms to find frequent graphs have received increasing attention over the past years. However, the computational complexity of the underlying problem and the large amount of data to be explored essentially render sequential algorithms useless. In this paper, we present a distributed approach to the frequent subgraph mining problem to discover interesting patterns in molecular compounds. This problem is characterized by a highly irregular search tree, whereby no reliable workload prediction is available. We describe the three main aspects of the proposed distributed algorithm, namely, a dynamic partitioning of the search space, a distribution process based on a peer-to-peer communication framework, and a novel receiverinitiated load balancing algorithm. The effectiveness of the distributed method has been evaluated on the well-known National Cancer Institute’s HIV-screening data set, where we were able to show close-to linear speedup in a network of workstations. The proposed approach also allows for dynamic resource aggregation in a non dedicated computational environment. These features make it suitable for large-scale, multi-domain, heterogeneous environments, such as computational grids

Efficient mining of discriminative molecular fragments

Frequent pattern discovery in structured data is receiving an increasing attention in many application areas of sciences. However, the computational complexity and the large amount of data to be explored often make the sequential algorithms unsuitable. In this context high performance distributed computing becomes a very interesting and promising approach. In this paper we present a parallel formulation of the frequent subgraph mining problem to discover interesting patterns in molecular compounds. The application is characterized by a highly irregular tree-structured computation. No estimation is available for task workloads, which show a power-law distribution in a wide range. The proposed approach allows dynamic resource aggregation and provides fault and latency tolerance. These features make the distributed application suitable for multi-domain heterogeneous environments, such as computational Grids. The distributed application has been evaluated on the well known National Cancer Institute’s HIV-screening dataset

Semi-Trusted Mixer Based Privacy Preserving Distributed Data Mining for Resource Constrained Devices

In this paper a homomorphic privacy preserving association rule mining algorithm is proposed which can be deployed in resource constrained devices (RCD). Privacy preserved exchange of counts of itemsets among distributed mining sites is a vital part in association rule mining process. Existing cryptography based privacy preserving solutions consume lot of computation due to complex mathematical equations involved. Therefore less computation involved privacy solutions are extremely necessary to deploy mining applications in RCD. In this algorithm, a semi-trusted mixer is used to unify the counts of itemsets encrypted by all mining sites without revealing individual values. The proposed algorithm is built on with a well known communication efficient association rule mining algorithm named count distribution (CD). Security proofs along with performance analysis and comparison show the well acceptability and effectiveness of the proposed algorithm. Efficient and straightforward privacy model and satisfactory performance of the protocol promote itself among one of the initiatives in deploying data mining application in RCD.Comment: IEEE Publication format, International Journal of Computer Science and Information Security, IJCSIS, Vol. 8 No. 1, April 2010, USA. ISSN 1947 5500, http://sites.google.com/site/ijcsis

High performance subgraph mining in molecular compounds

Structured data represented in the form of graphs arises in several fields of the science and the growing amount of available data makes distributed graph mining techniques particularly relevant. In this paper, we present a distributed approach to the frequent subgraph mining problem to discover interesting patterns in molecular compounds. The problem is characterized by a highly irregular search tree, whereby no reliable workload prediction is available. We describe the three main aspects of the proposed distributed algorithm, namely a dynamic partitioning of the search space, a distribution process based on a peer-to-peer communication framework, and a novel receiver-initiated, load balancing algorithm. The effectiveness of the distributed method has been evaluated on the well-known National Cancer Institute’s HIV-screening dataset, where the approach attains close-to linear speedup in a network of workstations