From: Boosting with stumps for predicting transcription start sites
Feature list | Details |
---|---|
Core promoter elements | Score of each core element Weighted score of pairs between TATA, Inr, and CCAAT- and GC-box |
TFBSs | Weighted maximal scores for weight matrices from TRANSFAC and density of TFBS |
Mechanical properties | Weighted energy/flexibility scores around position -25 and +1 Average energy/flexibility scores Correlation with the empirical average energy/flexibility profile |
Markovian score | Likelihood ratios from homogeneous third order Markov models |
k-mer frequency | Frequency of 1- or 2-mers related to nucleotide G or C |