Nature Search

Topological digestion drives time-varying rheology of entangled DNA fluids

Understanding and controlling the rheology of polymeric complex fluids is of fundamental importance in both industry and biology. Here, Michieletto et al. show how to achieve time-dependent rheology of DNA solutions via enzymatically-driven architectural alterations by restriction endonucleases.

D. Michieletto
P. Neill
R. M. Robertson-Anderson
ResearchOpen Access28 Jul 2022
Nature Communications

Volume: 13, P: 1-13
Complex small-world regulatory networks emerge from the 3D organisation of the human genome

Gene-regulatory networks are thought to be complex, and yet perturbation of just a few transcription factors (TFs) can have major consequences. Here the authors apply DNA polymer modelling and simulations to predict how 3D genome structure and TF-DNA interactions can give rise to transcriptional regulation operating over broad genomic regions, where small perturbations can have long-reaching effects.

C. A. Brackley
N. Gilbert
D. Marenduzzo
ResearchOpen Access01 Oct 2021
Nature Communications

Volume: 12, P: 1-14
Interphase human chromosome exhibits out of equilibrium glassy dynamics

The 3D organization of chromosomes within the nuclear space is important for biological functions. Here the authors model chromosomes as self-avoiding copolymers with distinct epigenetic states, and show that the features of experimentally generated contact maps can be reproduced and their dynamics predicted.

Guang Shi
Lei Liu
D. Thirumalai
ResearchOpen Access08 Aug 2018
Nature Communications

Volume: 9, P: 1-13
Physical principles of retroviral integration in the human genome

Some retroviruses, including HIV, insert their DNA in a non-random manner in the host genome through a poorly understood selection mechanism. Here the authors develop a biophysical model of retroviral integration, identifying previously unnoticed universal principles that regulate this phenomenon.

D. Michieletto
M. Lusic
E. Orlandini
ResearchOpen Access04 Feb 2019
Nature Communications

Volume: 10, P: 1-11
Early macrophage response to obesity encompasses Interferon Regulatory Factor 5 regulated mitochondrial architecture remodelling

Interferon Regulatory Factor 5 levels have been shown to increase in adipose tissue macrophages in diet-induced obesity. Here authors show that IRF5 transcriptionally represses the Growth Hormone Inducible Transmembrane Protein gene encoding a mitochondrial protein important for oxidative respiration in macrophages, thus driving the detrimental metabolic changes observed in obesity.

L. Orliaguet
T. Ejlalmanesh
F. Alzaid
ResearchOpen Access30 Aug 2022
Nature Communications

Volume: 13, P: 1-17
Multiplexed imaging of nucleome architectures in single cells of mammalian tissue

The three-dimensional architecture of the genome affects genomic functions. Here, the authors developed Multiplexed Imaging of Nucleome Architectures to measure multiscale chromatin folding, RNA profiles, and associations of numerous genomic regions with nuclear lamina and nucleoli in the same, single cells in heterogeneous tissue.

Miao Liu
Yanfang Lu
Siyuan Wang
ResearchOpen Access09 Jun 2020
Nature Communications

Volume: 11, P: 1-14
Epigenetic Transitions and Knotted Solitons in Stretched Chromatin

D. Michieletto
E. Orlandini
D. Marenduzzo
ResearchOpen Access07 Nov 2017
Scientific Reports

Volume: 7, P: 1-12
The impact of immediate breast reconstruction on the time to delivery of adjuvant therapy: the iBRA-2 study

Rachel L O’Connell
Tim Rattay
Mohammed Mustafa
ResearchOpen Access29 Mar 2019
British Journal of Cancer

Volume: 120, P: 883-895
New clinical and biological insights from the international TARGIT-A randomised trial of targeted intraoperative radiotherapy during lumpectomy for breast cancer

Jayant S. Vaidya
Max Bulsara
Jeffrey S. Tobias
ResearchOpen Access25 May 2021
British Journal of Cancer

Volume: 125, P: 380-389

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