SArKS: de novo discovery of gene expression regulatory motif sites and domains by suffix array kernel smoothing.
Dennis C. WylieHans A HofmannBoris V. ZemelmanPublished in: Bioinform. (2019)
Keyphrases
- transcription factors
- gene expression
- motif discovery
- binding sites
- suffix array
- component analysis
- regulatory elements
- microarray
- gene regulation
- dna binding
- sequence data
- gene expression data
- dna sequences
- biological processes
- genome wide
- regulatory networks
- microarray data
- string matching
- space efficient
- computational biology
- gene expression patterns
- data structure
- biological sequences
- transcription factor binding sites
- high throughput
- human genome
- feature space
- similarity measurement
- gene expression analysis
- biomedical literature
- differentially expressed genes
- machine learning
- protein families
- molecular biology
- inverted file
- suffix tree
- data model
- information retrieval systems
- semantic similarity
- gene selection
- pattern discovery
- data compression