Identification of functional tumor necrosis factor-alpha promoter variants associated with Helicobacter pylori infection in the Sudanese population: Computational approach

Table 4 Overview of the in silico predicted tumor necrosis factor-alpha promoter regions for the respective prediction programs. The most predicted region is indicated in bold

Prediction program	Predicted promoter regions1
BDGP (NNPP version 2.2)2	-40 to +10
Promoter 2.0 Prediction Server	no promoter
FPROM	+5
TSSG3	-146
TSSW4	-140
	+6

¹All positions are relative to the tumor necrosis factor-alpha mRNA cap site[26].

²NNPP: Neural network promoter prediction; Threshold 0.80.

³Threshold for LDF- 4.00.

⁴Thresholds for TATA+ promoters - 0.45, for TATA−/enhancers - 3.70.