The Bitome: digitized genomic features reveal fundamental genome organization
| Autor: | Bernhard O. Palsson, Anand V. Sastry, Byung-Kwan Cho, Cameron R. Lamoureux, Zachary A. King, Patrick V. Phaneuf, Donghui Choe, Kumari Sonal Choudhary, Ye Gao, Troy E. Sandberg |
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| Rok vydání: | 2020 |
| Předmět: |
0303 health sciences
Mutation Escherichia coli K12 AcademicSubjects/SCI00010 Computational Biology Genomics Computational biology Biology medicine.disease_cause Genome 03 medical and health sciences 0302 clinical medicine Intergenic region Narese/24 Genetics medicine Gene Formal representation 030217 neurology & neurosurgery Genome Bacterial 030304 developmental biology Genomic organization Coding (social sciences) Narese/7 |
| Zdroj: | Nucleic Acids Research Lamoureux, C R, Choudhary, K S, King, Z A, Sandberg, T E, Gao, Y, Sastry, A V, Phaneuf, P V, Choe, D, Cho, B-K & Palsson, B O 2020, ' The Bitome: digitized genomic features reveal fundamental genome organization ', Nucleic Acids Research, vol. 48, no. 18, gkaa774, pp. 10157-10163 . https://doi.org/10.1093/nar/gkaa774 |
| ISSN: | 1362-4962 |
| Popis: | A genome contains the information underlying an organism's form and function. Yet, we lack formal framework to represent and study this information. Here, we introduce the Bitome, a matrix composed of binary digits (bits) representing the genomic positions of genomic features. We form a Bitome for the genome of Escherichia coli K-12 MG1655. We find that: (i) genomic features are encoded unevenly, both spatially and categorically; (ii) coding and intergenic features are recapitulated at high resolution; (iii) adaptive mutations are skewed towards genomic positions with fewer features; and (iv) the Bitome enhances prediction of adaptively mutated and essential genes. The Bitome is a formal representation of a genome and may be used to study its fundamental organizational properties. |
| Databáze: | OpenAIRE |
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