A Memory-Efficient Accelerator for DNA Sequence Alignment with Two-Piece Affine Gap Tracebacks.
Jing-Ping WuYi-Chien LinYing-Wei WuShih-Wei HsiehChing-Hsuan TaiYi-Chang LuPublished in: ISCAS (2021)
Keyphrases
- memory efficient
- sequence alignment
- binding sites
- multiple sequence alignment
- sequence databases
- comparative genomics
- pairwise
- dna sequences
- multiple alignment
- protein sequences
- external memory
- dynamic programming
- phylogenetic analysis
- gene expression
- transcription factors
- smith waterman
- dna computing
- sequence data
- biological sequences
- iterative deepening
- gpu accelerated
- sequence analysis
- integral image
- pattern growth
- parallel implementation
- amino acids
- protein structure
- secondary structure
- computational biology
- gene clusters
- image registration
- search algorithm
- genetic algorithm
- machine learning