thermodynamic_gc_params: Thermodynamic parameters for GC-based Tm calculation methods

In TmCalculator: Genome-Wide Nucleic Acid Melting Temperature Profiling and Multi-Omics Integration

Thermodynamic parameters for GC-based Tm calculation methods

Description

A data frame containing coefficients and parameters for different GC-based Tm calculation methods. Each row represents a different method with its specific coefficients (A, B, C, D) and salt correction method.

Usage

thermodynamic_gc_params

Format

A data frame with 8 rows and 5 columns:

A

Intercept coefficient

B

GC content coefficient

C

Length correction coefficient

D

Mismatch coefficient

salt_correct

Associated salt correction method

Details

The methods included are: - Chester1993: Tm = 69.3 + 0.41(Percentage_GC) - 650/N - QuikChange: Tm = 81.5 + 0.41(Percentage_GC) - 675/N - Percentage_mismatch - Schildkraut1965: Tm = 81.5 + 0.41(Percentage_GC) - 675/N + 16.6 x log10[Na+] - Wetmur1991_MELTING: Tm = 81.5 + 0.41(Percentage_GC) - 500/N + Wetmur salt - - Wetmur1991_RNA: Tm = 78 + 0.7(Percentage_GC) - 500/N + Wetmur salt - - Wetmur1991_RNA/DNA: Tm = 67 + 0.8(Percentage_GC) - 500/N + Wetmur salt - - Primer3Plus: Tm = 81.5 + 0.41(Percentage_GC) - 600/N + 16.6 x log10[Na+] - vonAhsen2001: Tm = 77.1 + 0.41(Percentage_GC) - 528/N + 11.7 x log10[Na+]

TmCalculator documentation built on Aug. 28, 2026, 5:09 p.m.