The 4D Nucleome Project

Overview

Journal Nature

Specialty Science

Date 2017 Sep 15

PMID 28905911

Citations 341

Authors

Job Dekker

Andrew S Belmont

Mitchell Guttman

Victor O Leshyk

John T Lis

Stavros Lomvardas

Leonid A Mirny

Clodagh C OShea

Peter J Park

Bing Ren

Joan C Ritland Politz

Jay Shendure

Sheng Zhong

Affiliations

Soon will be listed here.

Abstract

The 4D Nucleome Network aims to develop and apply approaches to map the structure and dynamics of the human and mouse genomes in space and time with the goal of gaining deeper mechanistic insights into how the nucleus is organized and functions. The project will develop and benchmark experimental and computational approaches for measuring genome conformation and nuclear organization, and investigate how these contribute to gene regulation and other genome functions. Validated experimental technologies will be combined with biophysical approaches to generate quantitative models of spatial genome organization in different biological states, both in cell populations and in single cells.

Citing Articles

Improved cohesin HiChIP protocol and bioinformatic analysis for robust detection of chromatin loops and stripes.

Buka K, Parteka-Tojek Z, Agarwal A, Denkiewicz M, Korsak S, Chilinski M Commun Biol. 2025; 8(1):437.

PMID: 40082674 PMC: 11906747. DOI: 10.1038/s42003-025-07847-w.

Coarse-grained chromatin dynamics by tracking multiple similarly labeled gene loci.

Mader A, Rodriguez A, Yuan T, Surovtsev I, King M, Mochrie S bioRxiv. 2025; .

PMID: 40060506 PMC: 11888427. DOI: 10.1101/2025.02.27.640402.

Identification of Schizophrenia-Risk Regulatory Variant rs1399178 in the Non-coding Region With Its Impact on NRF1 Binding.

Ji L, Huang B, Ren D, Wei X, Liu L, Bi Y CNS Neurosci Ther. 2025; 31(3):e70275.

PMID: 40019038 PMC: 11868986. DOI: 10.1111/cns.70275.

Linking DNA-packing density distribution and TAD boundary locations.

Meng L, Sheong F, Luo Q Proc Natl Acad Sci U S A. 2025; 122(9):e2418456122.

PMID: 39999165 PMC: 11892626. DOI: 10.1073/pnas.2418456122.

TF2TG: an online resource mining the potential gene targets of transcription factors in .

Hu Y, Rodiger J, Liu Y, Gao C, Liu Y, Qadiri M bioRxiv. 2025; .

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