Yeast Chromosome Conformation Data from Polymer Modeling

Imene Lassadi's 2019 dataset provides 3D positional data for three fluorescently tagged DNA loci on yeast chromosome 3, derived from live-cell imaging. The data enables analysis of cell-type-specific chromosome folding, revealing distinct conformations in MATα and MATa cells. A mathematical polymer model estimates the relative physical constraint between the three linked loci, linking chromatin structure to cellular identity.

Use Cases

• Apply the polymer model to estimate the relative physical constraint between the three fluorescently tagged loci for different cell types.
• Analyze positional combinations of the three loci to classify chromosome conformations specific to MATα versus MATa yeast cells.
• Use the 3D positional data to identify dynamic or transient chromosome folding events not captured by average models.
• Predict functional consequences of chromatin alterations by analyzing constraint variations in asf1 and recombination enhancer deletion mutants.

Strengths

• Data is derived from a novel method using 3D live-cell imaging of three specific DNA loci, providing direct spatial measurements.
• The mathematical model offers a first-time estimate of relative physical constraint between three linked loci, a unique quantitative feature.
• Dataset is associated with a peer-reviewed publication demonstrating its application to predict functional consequences in mutant cells.

Limitations

• Data scope is limited to three specific loci on yeast chromosome 3, not a genome-wide conformation profile.
• The sample size (number of cells or observations imaged) is not specified, limiting assessment of statistical power.
• Findings are specific to yeast (Saccharomyces cerevisiae) and mating-type cells, with uncertain generalizability to other organisms.

Provenance

Source

Dryad digital repository.

Collection Method

Positions determined from 3D imaging of fluorescently tagged DNA loci in living yeast cells, analyzed via a mathematical polymer model.

Freshness

Last updated in July 2019.