Article Dans Une Revue The Journal of Chemical Physics Année : 2025

Inferring interphase chromosomal structure from multiplexed fluorescence in situ hybridization data: a unified picture from human and mouse cells

Résumé

We analyze multiplexed fluorescence in situ hybridization (m-FISH) data for human and mouse cell lines. The m-FISH technique uses fluorescently-labeled single stranded probes which hybridize to specific chromosomal regions, thereby allowing the measurement of the spatial positions of up to ∼ 100 tagged sites for several thousands interphase chromosomes. Our analysis focuses on a wide range of different cell lines and two distinct organisms and provides a unified picture of chromatin structure for scales ranging from 5 kb (kilo bases) up to 2 Mb (mega bases), thus covering a genomic region of almost three orders of magnitude. Confirming recent analysis (Remini et al., Phys. Rev. E 109, 024408 ( 2024)) we show that there are two characteristic arrangements of chromatin referred to as phase α (crumpled globule) and β (looped domain) and discuss the physical properties of these phases. We show that a simple heterogeneous random walk model captures the main behavior observed in experiments and bring considerable insights on chromosomal structure.

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Dates et versions

hal-04741167 , version 1 (17-10-2024)
hal-04741167 , version 2 (06-02-2025)

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  • HAL Id : hal-04741167 , version 2

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Loucif Remini, Midas Segers, Andrea Parmeggiani, Enrico Carlon. Inferring interphase chromosomal structure from multiplexed fluorescence in situ hybridization data: a unified picture from human and mouse cells. The Journal of Chemical Physics, 2025, Chromatin Structure and Dynamics: Recent Advancements, Volume 162 (Issue 5). ⟨hal-04741167v2⟩
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