ArticleNucleic acids research2020
The Bitome: digitized genomic features reveal fundamental genome organization.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- Disentangling factors affecting bacterial transcriptional regulatory network inference.iScience · 2026Article
- A live bacteria enzyme assay for identification of human disease mutations and drug screening.Nature biomedical engineering · 2025Article
- Article
- Article
- Inferred regulons are consistent with regulator binding sequences in E. coli.PLoS computational biology · 2024Article
- The Escherichia coli Fur pan-regulon has few conserved but many unique regulatory targets.Nucleic acids research · 2023Article
- Review
- proChIPdb: a chromatin immunoprecipitation database for prokaryotic organisms.Nucleic acids research · 2022Article
- From the reference human genome to human pangenome: Premise, promise and challenge.Frontiers in genetics · 2022Article
- The Expanding Computational Toolbox for Engineering Microbial Phenotypes at the Genome Scale.Microorganisms · 2020Review
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
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.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.