E. coli promoter gene sequences (DNA)
Promoters have a region where a protein (RNA polymerase) must make contact and the helical DNA sequence must have a valid conformation so that the two pieces of the contact region spatially align. The data contains DNA sequences of promoters and non-promoters.
data(promotergene)
A data frame with 106 observations and 58 variables.
The first variable Class is a factor with levels + for a promoter gene
and - for a non-promoter gene.
The remaining 57 variables V2 to V58 are factors describing the sequence.
The DNA bases are coded as follows: a adenine c cytosine g
guanine t thymine
UCI Machine Learning data repository
ftp://ftp.ics.uci.edu/pub/machine-learning-databases/molecular-biology/promoter-gene-sequences
Towell, G., Shavlik, J. and Noordewier, M.
Refinement of Approximate Domain Theories by Knowledge-Based
Artificial Neural Networks.
In Proceedings of the Eighth National Conference on Artificial Intelligence (AAAI-90)
data(promotergene)
## Create classification model using Gaussian Processes
prom <- gausspr(Class~.,data=promotergene,kernel="rbfdot",
kpar=list(sigma=0.02),cross=4)
prom
## Create model using Support Vector Machines
promsv <- ksvm(Class~.,data=promotergene,kernel="laplacedot",
kpar="automatic",C=60,cross=4)
promsvPlease choose more modern alternatives, such as Google Chrome or Mozilla Firefox.