Geodesic
2-words: their graphs and matrices
Zapiski Nauchnykh Seminarov POMI, Computational methods and algorithms. Part XXXII, Tome 482 (2019), pp. 45-72

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Double-occurrence words play an important role in genetics for describing epigenetic genome rearrangements. A useful geometric representation for double-occurrence words is given by the so-called assembly graphs. The paper investigates properties of the incidence matrices that correspond to assembly graphs. An explicit matrix characterization for simple assembly graphs of a given structure and series of constructions, using these graphs and important for genetic investigations, are provided. 
@article{ZNSL_2019_482_a3,
     author = {A. E. Guterman and E. M. Kreines and N. V. Ostroukhova},
     title = {2-words: their graphs and matrices},
     journal = {Zapiski Nauchnykh Seminarov POMI},
     pages = {45--72},
     publisher = {mathdoc},
     volume = {482},
     year = {2019},
     language = {ru},
     url = {http://geodesic.mathdoc.fr/item/ZNSL_2019_482_a3/}
}
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A. E. Guterman; E. M. Kreines; N. V. Ostroukhova. 2-words: their graphs and matrices. Zapiski Nauchnykh Seminarov POMI, Computational methods and algorithms. Part XXXII, Tome 482 (2019), pp. 45-72. http://geodesic.mathdoc.fr/item/ZNSL_2019_482_a3/