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Article
Accelerating minimap2 for long-read sequencing applications on modern CPUs
Long-read sequencing is now routinely used at scale for genomics and transcriptomics applications. Map** long reads or a draft genome assembly to a reference sequence is often one of the most time-consuming ...
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Article
Open AccessmuBLASTP: database-indexed protein sequence search on multicore CPUs
The Basic Local Alignment Search Tool (BLAST) is a fundamental program in the life sciences that searches databases for sequences that are most similar to a query sequence. Currently, the BLAST algorithm utili...
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Article
Reforms set to seep into India's schools
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Chapter and Conference Paper
Dtree: Dynamic Task Scheduling at Petascale
Irregular applications are challenging to scale on supercomputers due to the difficulty of balancing load across large numbers of nodes. This challenge is exacerbated by the increasing heterogeneity of modern ...
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Article
Open AccessAccelerating pairwise statistical significance estimation for local alignment by harvesting GPU's power
Pairwise statistical significance has been recognized to be able to accurately identify related sequences, which is a very important cornerstone procedure in numerous bioinformatics applications. However, it i...
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Chapter and Conference Paper
Mining Protein Interactions from Text Using Convolution Kernels
As the sizes of biomedical literature databases increase, there is an urgent need to develop intelligent systems that automatically discover Protein-Protein interactions from text. Despite resource-intensive e...
