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Updated: May 28, 2026

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions
Published on: June 28, 2018
Comment on "SCS: signal, context, and structure features for genome-wide human promoter recognition"
Denise Fagundes-Lima1, Gerald Weber
1Federal University of Ouro Preto, Ouro Preto.
Abstract:
We comment on the flexibility profiles calculated by Zeng et al., and show that these profiles do not represent the local flexibility of the DNA molecule. If one takes into account the physics of elasticity, the averaged flexibility profile show an additional peak which is missed in the original calculation. We show that it is not possible to calculate the flexibility of a 6-mer using tetranucleotide elastic constants, the shortest sequence is a 7-mer. For 6-mers, dinucleotide or trinucleotide parameters are needed. We present calculations for dinucleotide flexibility parameters and show that the same additional peak is present for both 7-mers and 6-mers.
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