Name
Abstract | ||
|---|---|---|
Motifs of Transcription Factor Binding Sites (TFBS) in DNA are commonly represented by the Position Weight Matrices (PWM). Recently Alamanova et al. devised a method for creating PWMs of transcription factors using 3D structure-based computation of protein-DNA free binding energies. We modify Alamanova et al. approach using volume-fraction corrected DFIRE-based energy function (DDNA3) as a model of protein-DNA interaction. The resulting new PWM matrices for NF-kappa B family show similarity to TRANSFAC matrices and comparable predictive capabilities. Presented approach is general and applicable to any TF for which crystallographic structure of its complex with DNA is available. |
Year | Venue | Keywords |
|---|---|---|
2014 | IWBBIO | TFBS, PWM, NF-kappa B |
DocType | Citations | PageRank |
Conference | 0 | 0.34 |
References | Authors | |
0 | 4 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Marcin Pacholczyk | 1 | 1 | 1.64 |
| Karolina Smolinska | 2 | 0 | 0.34 |
| Marta Iwanaszko | 3 | 0 | 1.01 |
| Marek Kimmel | 4 | 145 | 20.47 |