Cited by 762Genomics and Chromatin DynamicsNuclear Structure and FunctionChromatin Remodeling and Cancer

The DOI matches its Crossref record; 120 of the 120 references it cites were found in a registry or an index.

The 4D nucleome project

Open access

the 4D Nucleome Network, Dekker, Job, Belmont, Andrew S., Guttman, Mitchell, Leshyk, Victor O., Lis, John T., Lomvardas, Stavros, Mirny, Leonid A., O’Shea, Clodagh C., Park, Peter J., Ren, Bing, Politz, Joan C. Ritland, Shendure, Jay, Zhong, Sheng·2017·Nature

DOI 10.1038/nature23884PMC PMC5617335

Published version of a preprint

Open this paper in CoChat — free account Open PDF

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.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Integrity signals

Registry

Crossref · 10.1038/nature23884

Cites

120 of 120 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

An integrated encyclopedia of DNA elements in the human genome
The ENCODE Project Consortium (2012) · Nature · doi:10.1038/nature11247 · Cited by 18,072
Self-citation
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Rao, S. S. P., Huntley, M. H., Durand, N. C., Stamenova, E. K., Bochkov, I. D., Robinson, J. T., Sanborn, A. L., Machol, I., Omer, A. D., Lander, E. S., et al. (2014) · Cell · doi:10.1016/j.cell.2014.11.021 · Cited by 9,212
Imaging Intracellular Fluorescent Proteins at Nanometer Resolution
Betzig, E., Patterson, G. H., Sougrat, R., Lindwasser, O. W., Olenych, S. G., Bonifacino, J. S., Davidson, M. W., Lippincott‐Schwartz, J., & Hess, H. F. (2006) · Science · doi:10.1126/science.1127344 · Cited by 8,941
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., et al. (2009) · Science · doi:10.1126/science.1181369 · Cited by 8,898
Self-citation
Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM)
Rust, M., Bates, M., & Zhuang, X. (2006) · Nature Methods · doi:10.1038/nmeth929 · Cited by 7,823
Topological domains in mammalian genomes identified by analysis of chromatin interactions
Dixon, J. R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J. S., & Ren, B. (2012) · Nature · doi:10.1038/nature11082 · Cited by 6,829
Self-citation
Integrative analysis of 111 reference human epigenomes
Roadmap Epigenomics Consortium, Kundaje, A., Meuleman, W., Ernst, J., Bilenky, M., Yen, A., Heravi-Moussavi, A., Kheradpour, P., Zhang, Z., Wang, J., et al. (2015) · Nature · doi:10.1038/nature14248 · Cited by 6,368
Self-citation
Systematic Localization of Common Disease-Associated Variation in Regulatory DNA
Maurano, M. T., Humbert, R., Rynes, E., Thurman, R. E., Haugen, E., Wang, H., Reynolds, A. P., Sandstrom, R., Qu, H., Brody, J., et al. (2012) · Science · doi:10.1126/science.1222794 · Cited by 3,716
Ultra-High Resolution Imaging by Fluorescence Photoactivation Localization Microscopy
Hess, S. T., Girirajan, T. P. K., & Mason, M. D. (2006) · Biophysical Journal · doi:10.1529/biophysj.106.091116 · Cited by 3,684
Capturing Chromosome Conformation
Dekker, J., Rippe, K., Dekker, M., & Kleckner, N. (2002) · Science · doi:10.1126/science.1067799 · Cited by 3,652
Self-citation

Show all 118 references

Sorted by citations

Items 701–762 of 762

Additional file 8 of An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Shah, P. P., Keough, K. C., Gjoni, K., Santini, G. T., Abdill, R. J., Wickramasinghe, N. M., Dundes, C. E., Karnay, A. M., Chen, A. C., Salomon, R. E. A., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26563465
Additional file 2 of HiCognition: a visual exploration and hypothesis testing tool for 3D genomics
Langer, C. C. H., Mitter, M., Stocsits, R. R., & Gerlich, D. W. (2023) · Figshare · doi:10.6084/m9.figshare.23632650
Additional file 2 of Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation
Ardakany, A. R., Gezer, H. T., Lonardi, S., & Ay, F. (2020) · Figshare · doi:10.6084/m9.figshare.13031600
Additional file 4 of Depletion of lamins B1 and B2 promotes chromatin mobility and induces differential gene expression by a mesoscale-motion-dependent mechanism
Pujadas-Liwag, E. M., Wei, X., Acosta, N., Carter, L. M., Yang, J., Almassalha, L. M., Jain, S., Daneshkhah, A., Rao, S. S. P., Seker-Polat, F., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26696604
Additional file 5 of Epiphany: predicting Hi-C contact maps from 1D epigenomic signals
Yang, R., Das, A., Gao, V. R., Karbalayghareh, A., Noble, W. S., Bilmes, J. A., & Leslie, C. S. (2024) · Figshare · doi:10.6084/m9.figshare.26594555
Additional file 2 of An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Shah, P. P., Keough, K. C., Gjoni, K., Santini, G. T., Abdill, R. J., Wickramasinghe, N. M., Dundes, C. E., Karnay, A. M., Chen, A. C., Salomon, R. E. A., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26563450
Additional file 10 of An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Shah, P. P., Keough, K. C., Gjoni, K., Santini, G. T., Abdill, R. J., Wickramasinghe, N. M., Dundes, C. E., Karnay, A. M., Chen, A. C., Salomon, R. E. A., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26563471
Additional file 1 of HiCognition: a visual exploration and hypothesis testing tool for 3D genomics
Langer, C. C. H., Mitter, M., Stocsits, R. R., & Gerlich, D. W. (2023) · Figshare · doi:10.6084/m9.figshare.23632647
Additional file 1 of Depletion of lamins B1 and B2 promotes chromatin mobility and induces differential gene expression by a mesoscale-motion-dependent mechanism
Pujadas-Liwag, E. M., Wei, X., Acosta, N., Carter, L. M., Yang, J., Almassalha, L. M., Jain, S., Daneshkhah, A., Rao, S. S. P., Seker-Polat, F., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26696595
Additional file 1 of Normalization and de-noising of single-cell Hi-C data with BandNorm and scVI-3D
Zheng, Y., Shen, S., & Keleş, S. (2022) · Figshare · doi:10.6084/m9.figshare.21351407
Additional file 2 of Identifying quantitatively differential chromosomal compartmentalization changes and their biological significance from Hi-C data using DARIC
Kai, Y., Liu, N., Orkin, S. H., & Yuan, G. (2024) · Figshare · doi:10.6084/m9.figshare.24310003
Additional file 3 of Epiphany: predicting Hi-C contact maps from 1D epigenomic signals
Yang, R., Das, A., Gao, V. R., Karbalayghareh, A., Noble, W. S., Bilmes, J. A., & Leslie, C. S. (2024) · Figshare · doi:10.6084/m9.figshare.26594549
Additional file 5 of Depletion of lamins B1 and B2 promotes chromatin mobility and induces differential gene expression by a mesoscale-motion-dependent mechanism
Pujadas-Liwag, E. M., Wei, X., Acosta, N., Carter, L. M., Yang, J., Almassalha, L. M., Jain, S., Daneshkhah, A., Rao, S. S. P., Seker-Polat, F., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26696607
Additional file 1 of An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Shah, P. P., Keough, K. C., Gjoni, K., Santini, G. T., Abdill, R. J., Wickramasinghe, N. M., Dundes, C. E., Karnay, A. M., Chen, A. C., Salomon, R. E. A., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26563447
Additional file 1 of Diurnal RNAPII-tethered chromatin interactions are associated with rhythmic gene expression in rice
Deng, L., Gao, B., Zhao, L., Zhang, Y., Zhang, Q., Guo, M., Yang, Y., Wang, S., Xie, L., Lou, H., et al. (2022) · Figshare · doi:10.6084/m9.figshare.17982473
Additional file 9 of An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Shah, P. P., Keough, K. C., Gjoni, K., Santini, G. T., Abdill, R. J., Wickramasinghe, N. M., Dundes, C. E., Karnay, A. M., Chen, A. C., Salomon, R. E. A., et al. (2024) · Figshare · doi:10.6084/m9.figshare.26563468
Additional file 7 of Inferring time series chromatin states for promoter-enhancer pairs based on Hi-C data
Miko, H., Qiu, Y., Gaertner, B., Sander, M., & Ohler, U. (2021) · Figshare · doi:10.6084/m9.figshare.13662660
Additional file 1 of BIND&MODIFY: a long-range method for single-molecule mapping of chromatin modifications in eukaryotes
Weng, Z., Ruan, F., Chen, W., Chen, Z., Xie, Y., Luo, M., Xie, Z., Zhang, C., Wang, J., Sun, Y., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22623490
Additional file 3 of Inferring time series chromatin states for promoter-enhancer pairs based on Hi-C data
Miko, H., Qiu, Y., Gaertner, B., Sander, M., & Ohler, U. (2021) · Figshare · doi:10.6084/m9.figshare.13662636
Additional file 1 of SPIN reveals genome-wide landscape of nuclear compartmentalization
Wang, Y., Zhang, Y., Zhang, R., van Schaik, T., Zhang, L., Sasaki, T., Peric‐Hupkes, D., Chen, Y., Gilbert, D. M., van Steensel, B., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13579155
Self-citation
Additional file 6 of Epiphany: predicting Hi-C contact maps from 1D epigenomic signals
Yang, R., Das, A., Gao, V. R., Karbalayghareh, A., Noble, W. S., Bilmes, J. A., & Leslie, C. S. (2024) · Figshare · doi:10.6084/m9.figshare.26594558
TAD boundaries and gene activity are uncoupled
Almansour, F., Fursova, N. A., Keikhosravi, A., Reed, K. S. M., Larson, D. R., Pegoraro, G., & Misteli, T. (2026) · eLife · doi:10.7554/elife.110197.3
Homotypic Transposable Element Pairing May Drive Coherent Chromatin Folding
Myakishev-Rempel, M. (2025) · Genes · doi:10.3390/genes17010043
A wavelet-based approach generates quantitative, scale-free and hierarchical descriptions of 3D genome structures and new biological insights
Pellow, R., & Comeron, J. M. (2026) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1013887 · Cited by 1
HiChIA-Rep quantifies the similarity between enrichment-based chromatin interactions datasetsPreprint
Kim, S., Jackson, J. T., Zhang, H. B., & Kim, M. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.02.01.703086
EpiExpr: Predicting gene expression using epigenetic data and chromatin interactionsPreprint
Bhattacharyya, S., & Ay, F. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.02.06.704509
TAD boundary architecture and gene activity are uncoupledPreprint
Almansour, F., Fursova, N. A., Keikhosravi, A., Reed, K. S. M., Larson, D. R., Pegoraro, G., & Misteli, T. (2026) · eLife · doi:10.7554/elife.110197.1
Deep learning framework ChIANet predicts protein-mediated chromatin architecture across functional contextsPreprint
Luo, H., Wen, R., Tang, L., Chen, L., Tang, K., & Li, M. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.02.24.707640
TEffectBayes: a nextflow pipeline for exploring the potential effect of transposable elements in gene regulatory network with multi-omic Bayesian network model
Kutlu, N. K., Güner, H., & Karakülah, G. (2026) · Molecular Genetics and Genomics · doi:10.1007/s00438-026-02365-8
A latent interaction landscape inferred from Micro-C encodes chromatin regulatory identity and conformational diversity beyond contact frequencyPreprint
Mittal, R., Keshava, K. P., & Bhattacherjee, A. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.19.712829
TAD boundaries and gene activity are uncoupledPreprint
Almansour, F., Fursova, N. A., Keikhosravi, A., Reed, K. S. M., Larson, D. R., Pegoraro, G., & Misteli, T. (2026) · eLife · doi:10.7554/elife.110197.2
Nouvelles méthodes pour l’apprentissage non-supervisé en grandes dimensions.
ali, H. T. (2018) · doi:10.70675/2b76e3c1z098az4087z908bzcce01a801c80
Analysis of the composition and the function of oocyte-specific TBP2-containing transcription machinery during mouse oogenesis
Yu, C. (2018) · theses.fr (ABES) · doi:10.70675/93ad781cz0d7cz440czaed3z0903df442723
Entre silence, naissance et dégradation : vers la caractérisation de nouveaux mécanismes relatifs à la biologie des ARN de transfert et assurant l'homéostasie de la cellule végétale.
Hummel, G. (2019) · theses.fr (ABES) · doi:10.70675/c349f8ecz721ez40f7z8ff6zd0754e9a03eb
Voluntary cocaine or sugar intake induce neuroadaptations of the endocannabinoid system in reward-related brain regions
Nogueira, D. D. S. (2019) · theses.fr (ABES) · doi:10.70675/d429d5dbz5001z4e60z9622z4f636e667f17
Exploring the genomic complexity of bacterial infection in 3D
Matthey-Doret, C. (2021) · theses.fr (ABES) · doi:10.70675/4303e26ezb6baz423dz92ffz3a3ca67a8ef4
Étude de la forme sporadique de la maladie d'Alzheimer à partir de modèles in vivo et de neurones humains reprogrammés
Thiberge, C. (2023) · theses.fr (ABES) · doi:10.70675/de2fa338z7aecz4991za94eze8b7694a0d22
CRM-TI: an enhanced pipeline for computationally assigning the target genes of cis-regulatory modules by considering comprehensive long-range regulation mechanisms
Yu, Y.-Q., He, G.-L., & Yang, T.-H. (2026) · BioData Mining · doi:10.1186/s13040-026-00555-z
Deep learning enabled prediction of nuclear lamina-associated chromatin
Das, P., & Lee, J. T. (2026) · Patterns · doi:10.1016/j.patter.2026.101545
Antenatal diagnosis and maternal sirolimus treatment of polyhydramnios, megalencephaly, and symptomatic epilepsy (PMSE) syndrome
Macedonia, C. R., Carson, V. J., Morton, D. H., Blakemore, K. J., Evans, M. I., & Crino, P. B. (2026) · Pregnancy · doi:10.1002/pmf2.70297
Deep learning cell type classification using nuclear DNA patternsPreprint
Sugimoto, K., Tanaka, H., & Saito, T. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.04.28.721280
Transcription and cohesin direct domain boundary spatial positioning and are linked to Friedreich’s ataxia
Karnay, A. M., Linares-Saldana, R., Wang, Q., Gardner, Z., Liang, J. A., Santini, G. T., Haridhasapavalan, K. K., Nguyen, S. C., Hugelier, S., Shewale, B., et al. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.04.019 · Cited by 1
UniversalEPI: robust prediction of cell type-specific and differential chromatin interactions from DNA sequence and chromatin accessibility
Grover, A., Zhang, L., Muser, T., Häfliger, S., Wang, M., Yates, J., Indilewitsch, M.-C., Wang, Y., Allen, E. M. V., Theis, F. J., et al. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag485 · Cited by 2
Gigabase-scale deletion scanning of the human genomePreprint
Koeppel, J., Keith, A., Sgrizzi, S. R., Chen, P., Daza, R. M., Quaisar, F., Anastasia, E., Song, Z., Shendure, J., & Pinglay, S. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.05.29.728882
Self-citation
GraphChIAr: genome-wide super-resolution reconstruction of protein-mediated remote chromatin interactions by augmenting hi-C interaction maps with multiple ChIP-seq profiles
Dong, H., Rao, G.-Z., Wang, H., Wu, X.-R., Xian, T., Wang, B., & Du, P.-F. (2026) · Briefings in Bioinformatics · doi:10.1093/bib/bbag305
Haplotype-resolved genome architecture mapping uncovers pervasive structural heterogeneity between human homologous chromosomesPreprint
Markowski, J., Kukalev, A., Robens, C., Thieme, C. J., Streck, A., Mao, H. Z., Parsi, K. M., Maehr, R., Pombo, A., & Schwarz, R. F. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.06.16.732681
From molecular motors to chromosome architecture
Zhang, B. (2026) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2616706123
The future objectives of the International Mouse Phenotyping Consortium (IMPC): functional evaluation of human disease-relevant cis-regulatory elements in the mouse genome
Kubo, N., Oguchi, A., Masuya, H., Amano, T., Sakashita, A., Kawaji, H., Kasukawa, T., Oki, S., Ayabe, S., Takada, T., et al. (2026) · Mammalian Genome · doi:10.1007/s00335-026-10258-9
MacroH2A2-Enriched Domains Are Largely Stable Across the Cell Cycle but Focally Displaced at Mitotic Regulatory Elements
Deng, Y., Xu, Z., Zhang, L., Liu, J., Hu, C., Shi, Z., Li, X., & Shao, Z. (2026) · International Journal of Molecular Sciences · doi:10.3390/ijms27177708
Integrative modeling of the genome structure and dynamics in fission yeast
Shinkai, S., Namba, T., Sugawara, T., Hagiwara, S., Onami, S., Haraguchi, T., Hiraoka, Y., Awazu, A., Ueno, M., & Tate, S. (2026) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2612002123
Identification of Genome-Wide Chromatin Structural Aberration in Cancer by Hi-C Analysis
Isogai, S., Okabe, A., & Kaneda, A. (2026) · Methods in molecular biology · doi:10.1007/978-1-0716-5539-9_17
3D chromatin remodeling during domestication defines novel targets for crop improvement
Huang, X., Peng, Y., Hu, X., Wang, Y., Zhang, Z., Huang, X., Luo, X., Zhang, S., Zhao, Z., Farmer, E. E., et al. (2026) · Cell · doi:10.1016/j.cell.2026.08.038
Stepwise reorganization of chromosome conformation and nuclear organization during stem cell differentiationPreprint
Huo, X., Lafontaine, D. L., Reimonn, T. M., Yang, L., Siller, R., Huey, J. D., Min, J., Galitsyna, A. A., Yilma, V., Parsi, K. M., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.09.16.752023
Self-citation
DNA Geometry Around Highly Transcribed Bacterial Genes
Joyeux, M. (2026) · Microorganisms · doi:10.3390/microorganisms14102162
Dynamic three-dimensional chromatin remodeling in lung disease: mechanistic principles, pathogenic regulatory networks, and translational challenges
Liu, T., Jiang, S., Wang, J., & Li, J. (2026) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2026.1943977
Average local nucleosome motion remains nearly constant during interphase in living human cells
Nagata, Y., Iida, S., Shimazoe, M. A., Tamura, S., Nakazato, K., Shimizu, K., Hatoyama, Y., Kanemaki, M. T., & Maeshima, K. (2026) · Journal of Cell Science · doi:10.1242/jcs.265367 · Cited by 1
Engineered regulatory states resolve context-dependent genetics in macular degenerationPreprint
Metzner, E., Guruvayurappan, K., Southard, K. M., Ardy, R. C., Dey, K. K., & Norman, T. M. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.09.758047
Evaluation of object detection neural networks to find topologically associated domains in bulk Hi-C dataPreprint
Philipp, N., Grünnagel, C. L., Janssen, S., & Meckbach, C. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.20.760189
Genome-wide chromatin reset at the onset of leg regeneration in pancrustaceansPreprint
Louvier, M., Forbes, G., Mohammed-Ali, M., Moutaux, E., Chuffart, F., Argoud, A., Girard, F., Dumont, A., Pachano, B., Swale, C., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.09.757970
Chromatin rewiring in endothelial cells upon cohesin reduction redistributes genome-wide FLI1 binding
Ray, A., Pandey, R., Chrisenberry, D. B., Murray, J. D., Stelloh, C. T., Liu, P., Liu, Y., Qiu, Q., Meyer, A. E., Tutaj, M., et al. (2026) · Epigenetics · doi:10.1080/15592294.2026.2749250
EpiInsula: calibrated regression of the Hi-C insulation score from cell-type-specific epigenomic signal
Jin, Y., Chen, T., Gao, J., Tong, M., Xu, G., 张雪玉, Liu, W., & Shen, Y. (2026) · Briefings in Bioinformatics · doi:10.1093/bib/bbag589
STRIDE: A Sequencing Depth Robust Metric for Sparse Chromosome Conformation Capture Data Comparison
Xu, B., Gao, X., Tao, W., Zhang, Z., & Li, F. (2026) · Advanced Science · doi:10.1101/2025.10.08.681271

Authors: the 4D Nucleome Network, Dekker, J., Belmont, A. S., Guttman, M., Leshyk, V. O., Lis, J. T., Lomvardas, S., Mirny, L. A., O’Shea, C. C., Park, P. J., Ren, B., Politz, J. C. R., Shendure, J., & Zhong, S.
Affiliations: Howard Hughes Medical Institute (US)
California Institute of Technology (US)
Cornell University (US)
Mortimer B. Zuckerman Mind Brain Behavior Institute (US)
Salk Institute for Biological Studies (US)
Harvard University (US)
University of California San Diego (US)
Corresponding author: Dekker, Job
ORCID: Dekker, Job
Belmont, Andrew S.
Guttman, Mitchell
Lis, John T.
Lomvardas, Stavros
Mirny, Leonid A.
O’Shea, Clodagh C.
Park, Peter J.
Ren, Bing
Politz, Joan C. Ritland
Shendure, Jay
Zhong, Sheng
Venue: Nature
Publisher: Springer Science and Business Media LLC
Published: 2017-09-14
Volume: 549
Issue: 7671
Pages: 219-226
ISSN: 0028-0836 (ISSN-L)
1476-4687
DOI: 10.1038/nature23884
PMC: PMC5617335
OpenAlex: W2584394140
Cited by: 732
References: 118
Citations by year: 2026: 63 · 2025: 74 · 2024: 81 · 2023: 74 · 2022: 96 · 2021: 110 · 2020: 82 · 2019: 73 · 2018: 65 · 2017: 13
FWCI: 26.04
Type: journal article
Language: en
Update notices: erratum (2017-11-22)
Open access: bronze
doi.org
Licence: www.springer.com/tdm (tdm)
www.springer.com/tdm (vor)
Locations: Nature (publishedVersion)
bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
PubMed (publishedVersion)
PubMed Central (acceptedVersion)
eScholarship (California Digital Library) (submittedVersion)
eScholarship@UMassChan (submittedVersion, cc-by-nc-nd)
UWA Profiles and Research Repository (UWA) (submittedVersion)
ReIn UW (University of Warsaw) (submittedVersion, cc-by-nc-nd)
Funders: National Institutes of Health
National Heart, Lung, and Blood Institute (U01HL129998, U01HL129958)
National Institute on Drug Abuse (U01DA040582)
NIH Office of the Director
National Cancer Institute (U01CA200060)
National Institute on Deafness and Other Communication Disorders (R01DC013560)
National Institute of General Medical Sciences (P50GM085764)
National Institute of Diabetes and Digestive and Kidney Diseases (U54DK107977, U54DK107965, U54DK107980, U54DK107979)
National Institute of Biomedical Imaging and Bioengineering (U01EB021223)
Common Fund (1U01DA040709)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
Keywords: 3D genome organization, nuclear organization, gene expression regulation, single-cell genomics, human genome, mouse genome, chromatin dynamics
MeSH terms: Animals, Cell Line, Cell Nucleus, Chromatin, Chromosomes, Goals, Humans, Models, Biological, Models, Molecular, Reproducibility of Results, Genome, Genomics, Information Dissemination, Mice, Molecular Imaging, Single-Cell Analysis, Spatio-Temporal Analysis

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

The 4D nucleome project

Abstract

Overview

Integrity signals

Verification

Claims the paper makes

Claims other papers make about this one

Self-check

Citations

Cites

Cited by

Related

Metadata

Record

About these checks