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BLAST is a popular toolset for protein and nucleotide sequence comparison. Recent estimates show that these databases of protein and nucleotide sequences are set to grow exponentially and as a result local BLAST searches on single PCs cannot satisfy recent data processing requirements. Traditional approaches for the parallelisation of BLAST are focused on utilising clusters. However, scaling clusters...
In eukaryotic cells, genomic DNAs wrap around beadlike molecules, called nucleosomes, so as to pack more compactly in the nucleus of the cell. The nucleosome is made up of four pairs of histone proteins (H2A, H2B, H3, and H4) who share a very similar structural motif. The positioning of nucleosomes as well as the modifications of various sites of histone proteins (such as acetylation) plays important...
This work evaluates the bondability and the reliability tests for the stacked-chip TFBGA wire bond packaging with the Sn-4.0Ag-0.5Cu lead-free solder ball. The bonding-over-active-circuit (BOAC) pad is the top test chip and the normal pad is the bottom test chip and are combined in the stacked-chip packaging. Both test chips are 90 nm low-K dielectric with six copper layers and one layer aluminum...
Simulated annealing has been one of the most popular stochastic optimization methods used in the VLSI CAD field in the past two decades. Recently, a new Monte Carlo and optimization method, named dynamic weighting Monte Carlo [WL97], has been introduced and successfully applied to the traveling salesman problem, neural network training [WL97], and spin-glasses simulation [LW99]. In this paper, we...
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