Skip to main content

Table 1 Differences in the population means of DNA nt and PhyChem features of HVR1 and correlation to the R/C classes§

From: Identification of recent cases of hepatitis C virus infection using physical-chemical properties of hypervariable region 1 and a radial basis function neural network classifier

Featuresa

t-value (p-value)b

Means in R/C

Difference in means (95% C.I.)

R-value (95% C.I.)

Nt A

47.86 (<2.20X10−16)

0.162/0.181

0.019 (0.019, 0.020)

0.497 (0.477, 0.516)

Nt G

28.64 (<2.20X10−16)

0.322/0.313

0.009 (0.008, 0.010)

0.346 (0.323, 0.367)

Nt C

24.26 (<2.20X10−16)

0.294/0.286

0.008 (0.007, 0.008)

0.332 (0.309, 0.355)

Nt T

9.61 (<2.20X10−16)

0.218/0.215

0.003 (0.002, 0.003)

0.138 (0.112, 0.163)

Twist-tilt

43.39 (<2.20X10−16)

0.006/−0.010

0.016 (0.015, 0.017)

0.539 (0.520, 0.557)

Slide-rise

42.22 (<2.20X10−16)

−0.037/−0.058

0.021 (0.020, 0.022)

0.500 (0.480, 0.519)

Enthalpy

41.01 (<2.20X10−16)

−0.206/−0.250

0.044 (0.041, 0.045)

0.497 (0.477, 0.516)

Breslauer-dH

41.01 (<2.20X10−16)

−0.184/−0.231

0.047 (0.044, 0.048)

0.494 (0.474, 0.513)

Breslauer-dG

40.17 (<2.20X10−16)

−0.298/−0.273

0.025 (0.024, 0.026)

0.477 (0.457, 0.497)

Protein-DNA twist

37.96 (<2.20X10−16)

−0.326/−0.381

0.055 (0.051, 0.057)

0.472 (0.451, 0.492)

Slide-2

36.90 (<2.20X10−16)

−0.380/−0.448

0.068 (0.064, 0.072)

0.471 (0.450, 0.490)

SE-ZDNAc

36.46 (<2.20X10−16)

−0.264/−0.313

0.049 (0.045, 0.050)

0.468 (0.447, 0.488)

Twist-1

36.91 (<2.20X10−16)

−0.302/−0.358

0.056 (0.052, 0.058)

0.462 (0.442, 0.483)

G-content

37.79 (<2.20X10−16)

−0.375/−0.434

0.059 (0.056, 0.062)

0.457 (0.436, 0.477)

Helix coil transition

34.05 (<2.20X10−16)

−0.285/−0.350

0.065 (0.062, 0.070)

0.455 (0.434, 0.475)

MGDd

35.72 (<2.20X10−16)

0.321/0.353

0.032 (0.030, 0.033)

0.454 (0.433, 0.475)

Sugimoto_dG

37.43 (<2.20X10−16)

0.502/0.462

0.040 (0.037, 0.042)

0.450 (0.429, 0.470)

Sugimoto_dS

38.17 (<2.20X10−16)

0.520/0.475

0.045 (0.043, 0.048)

0.450 (0.429, 0.471)

Propeller twist

34.58 (<2.20X10−16)

0.196/0.148

0.048 (0.045, 0.050)

0.448 (0.427, 0.469)

  1. athe four DNA-specific nt’s and the 15 DNA-specific PhyChem properties of HVR1 sequences with R-values ≥0.5 are shown. Detailed description of the DNA PhyChem features used herein is available in [6, 7]
  2. b p-value is the same for the Welch two sample t-test and Pearson’s product-moment correlation test
  3. cabbreviation for: Stabilizing Energy of Z DNA
  4. dabbreviation for: Minor Groove Distance
  5. §R-values, t-values and differences in means are reported as absolute values
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us