130 citations · 304 across the 4 of their papers we have counts for
4 papers
GRIM-Filter: Fast Seed Location Filtering in DNA Read Mapping Using Processing-in-Memory Technologies
Jeremie S. Kim, Damla Senol Cali, Hongyi Xin +7
Motivation: 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 id…
GRIM-filter: fast seed filtering in read mapping using emerging memory technologies
Jeremie S Kim, Damla Senol, Hongyi Xin +7
Motivation: Seed 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 identify ge…
GateKeeper: A New Hardware Architecture for Accelerating Pre-Alignment in DNA Short Read Mapping
Mohammed Alser, Hasan Hassan, Hongyi Xin +3
Motivation: High throughput DNA sequencing (HTS) technologies generate an excessive number of small DNA segments -- called short reads -- that cause significant computational burde…
Optimal Seed Solver: Optimizing Seed Selection in Read Mapping
Hongyi Xin, Richard Zhu, Sunny Nahar +5
Motivation: Optimizing seed selection is an important problem in read mapping. The number of non-overlapping seeds a mapper selects determines the sensitivity of the mapper while t…