ArticleGenome research2013
High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast.
Article in Genome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
39 citing papers in PubMed, 71 citations in OpenAlex.
- Dbf4-dependent kinase finetunes Ino80 function at chromosome replication origins.Nature communications · 2026Article
- A FLOE-related protein regulates the two-dimensional to three-dimensional growth transition in the moss Physcomitrium patens.Development (Cambridge, England) · 2025Article
- Integrative Omics reveals changes in the cellular landscape of peroxisome-deficientMicrobial cell (Graz, Austria) · 2025Article
- Article
- Decoding biology with massively parallel reporter assays and machine learning.Genes & development · 2024Review
- MCM2-7 loading-dependent ORC release ensures genome-wide origin licensing.Nature communications · 2024Article
- Current limitations in predicting mRNA translation with deep learning models.Genome biology · 2024Article
- Identification of 1600 replication origins ineLife · 2024Article
- A chromatinized origin reduces the mobility of ORC and MCM through interactions and spatial constraint.Nature communications · 2023Article
- Article
- A Versatile Toolset for Genetic Manipulation of the Wine YeastInternational journal of molecular sciences · 2023Article
- DNA replication timing: Biochemical mechanisms and biological significance.BioEssays : news and reviews in molecular, cellular and developmental biology · 2022Article
- Design of a novel switchable antibody display system in Pichia pastoris.Applied microbiology and biotechnology · 2022Article
- An in vivo gene amplification system for high level expression in Saccharomyces cerevisiae.Nature communications · 2022Article
- Exceptional origin activation revealed by comparative analysis in two laboratory yeast strains.PloS one · 2022Article
- Chromatin loading of MCM hexamers is associated with di-/tri-methylation of histone H4K20 toward S phase entry.Nucleic acids research · 2021Article
- DNA replication origins retain mobile licensing proteins.Nature communications · 2021Article
- Evolution of DNA replication origin specification and gene silencing mechanisms.Nature communications · 2020Article
- In vivo chromatin organization on native yeast telomeric regions is independent of a cis-telomere loopback conformation.Epigenetics & chromatin · 2020Article
- Logomaker: beautiful sequence logos in Python.Bioinformatics (Oxford, England) · 2020Article
Corrections and comments
- Commented on by
Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
DNA replication origins are necessary for the duplication of genomes. In addition, plasmid-based expression systems require DNA replication origins to maintain plasmids efficiently. The yeast autonomously replicating sequence (ARS) assay has been a valuable tool in dissecting replication origin structure and function. However, the dearth of information on origins in diverse yeasts limits the availability of efficient replication origin modules to only a handful of species and restricts our understanding of origin function and evolution. To enable rapid study of origins, we have developed a sequencing-based suite of methods for comprehensively mapping and characterizing ARSs within a yeast genome. Our approach finely maps genomic inserts capable of supporting plasmid replication and uses massively parallel deep mutational scanning to define molecular determinants of ARS function with single-nucleotide resolution. In addition to providing unprecedented detail into origin structure, our data have allowed us to design short, synthetic DNA sequences that retain maximal ARS function. These methods can be readily applied to understand and modulate ARS function in diverse systems.
Indexed as
Identifiers
What OpenQuestion holds
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.