Naslov
Visualizing genomic data: The mixing perspective

Autori
Seitz, William ; Kirwan, A.D. ; Brčić-Kostić, Krunoslav ; Mitrikeski, Petar Tomev ; Seitz, P.K.

Izvornik
Biosystems (0303-2647) 224 (2023); 104839, 7

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Mixing ; Genome models ; Randomness ; Majorization ; Partial order

Sažetak
We report on a novel way to visualize genomic data. By considering genome coding sequences, cds, as sets of the 𝑁 = 61 non-stop codons, one obtains a partition of the total number of codons in each cds. Partitions exhibit a statistical property known as mixing character which characterizes how mixed the partition is. Mixing characters have been shown mathematically to exhibit a partial order known as majorization (Ruch, 1975). In previous work (Seitz and Kirwan, 2022) we developed an approach that combined mixing and entropy that is visualized as a scatter plot. If we consider all 1, 121, 505 partitions of 61 codons, this produces a plot we call the theoretical mixing space, TGMS. A normalization procedure is developed here and applied to real genomic data to produce the genome mixing signature, GMS. Example GMS’s of 19 species, including Homo sapiens, are shown and discussed.

Izvorni jezik
Engleski

Znanstvena područja
Matematika, Biologija

POVEZANOST RADA