The classic methodology of inferring a phylogenetic tree from sequence data is composed of two steps. First, a multiple sequence alignment (MSA) is computed. Then, a tree is reconstructed assuming the ...

Phylogenetic analysis and DNA sequence representation are foundational pillars in modern molecular biology and bioinformatics. These approaches not only facilitate the reconstruction of evolutionary ...

Many cellular processes, including transcription and DNA replication, critically depend on chromatin structure, the three-dimensional organization of DNA that includes nucleosome positioning and ...