Journal article
The Bitome: digitized genomic features reveal fundamental genome organization
University of California at San Diego1
Korea Advanced Institute of Science and Technology2
Big Data 2 Knowledge, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark3
Network Reconstruction in Silico Biology, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark4
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark5
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.
Language: | English |
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Publisher: | Oxford University Press |
Year: | 2020 |
Pages: | 10157-10163 |
ISSN: | 13624962 and 03051048 |
Types: | Journal article |
DOI: | 10.1093/nar/gkaa774 |
ORCIDs: | Palsson, Bernhard O. |