Nanopore sequencing technology has the potential to render other sequencing
technologies obsolete with its ability to generate long reads and provide portability …

Aligning sequencing reads onto a reference is an essential step of the majority of genomic
analysis pipelines. Computational algorithms for read alignment have evolved in …

Modern computing systems are overwhelmingly designed to move data to computation. This
design choice goes directly against at least three key trends in computing that cause …

Many important applications trigger bulk bitwise operations, ie, bitwise operations on large
bit vectors. In fact, recent works design techniques that exploit fast bulk bitwise operations to …

Genome sequence analysis has enabled significant advancements in medical and scientific
areas such as personalized medicine, outbreak tracing, and the understanding of evolution …

Large volumes of videos are continuously recorded from cameras deployed for traffic control
and surveillance with the goal of answering “after the fact” queries: identify video frames with …

Many modern and emerging applications must process increasingly large volumes of data.
Unfortunately, prevalent computing paradigms are not designed to efficiently handle such …

In this paper, we propose BioHD, a novel genomic sequence searching platform based on
Hyper-Dimensional Computing (HDC) for hardware-friendly computation. BioHD transforms …

Read mapping is a fundamental step in many genomics applications. It is used to identify
potential matches and differences between fragments (called reads) of a sequenced …

Background Seed location filtering is critical in DNA read mapping, a process where billions
of DNA fragments (reads) sampled from a donor are mapped onto a reference genome to …