A three-dimensional map of the human genome at kilobase resolution reveals prinicples of chromatin looping
Suhas Rao
2014
2014/12/11
United States, Cabin John
Baylor College of Medicine
数据描述
We use in situ Hi-C to probe the three-dimensional architecture of genomes, constructing haploid and diploid maps of nine cell types. The densest, in human lymphoblastoid cells, contains 4.9 billion contacts, achieving 1-kilobase resolution. We find that genomes are partitioned into local domains, which are associated with distinct patterns of histone marks and segregate into six subcompartments. We identify ~10,000 loops. These loops frequently link promoters and enhancers, correlate with gene activation, and show conservation across cell types and species. Loop anchors typically occur at domain boundaries and bind CTCF. CTCF sites at loop anchors occur predominantly (>90%) in a convergent orientation, with the asymmetric motifs ‘facing’ one another. The inactive X-chromosome splits into two massive domains and contains large loops anchored at CTCF-binding repeats.
数据列表
96SOFT formatted family file(s)
格式SOFT
MINiML formatted family file(s)
格式MINiML
Series Matrix File(s)
格式TXT
GSE63525_CH12-LX_Arrowhead_domainlist.txt.gz
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GSE63525_CH12-LX_HiCCUPS_looplist.txt.gz
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大小167.3 Kb
GSE63525_CH12-LX_HiCCUPS_looplist_with_motifs.txt.gz
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大小231.0 Kb
GSE63525_CH12-LX_README.rtf
格式RTF
大小8.8 Kb
GSE63525_CH12-LX_combined.hic
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大小8.6 Gb
GSE63525_CH12-LX_combined_30.hic
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大小6.0 Gb
GSE63525_CH12-LX_interchromosomal_contact_matrices.tar.gz
格式TAR
大小4.9 Gb
GSE63525_CH12-LX_intrachromosomal_contact_matrices.tar.gz
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大小1.8 Gb
GSE63525_CH12_combined_30.hic
格式HIC
大小163.8 Mb
GSE63525_GM12878_HiCCUPS_chrX_superloop_list.txt.gz
格式TXT
大小2.0 Kb
GSE63525_GM12878_SNPs.txt.gz
格式TXT
大小7.4 Mb
GSE63525_GM12878_combined_README.rtf
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大小13.4 Kb
GSE63525_GM12878_combined_interchromosomal_contact_matrices.tar.gz
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大小35.0 Gb
GSE63525_GM12878_combined_intrachromosomal_contact_matrices.tar.gz
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大小23.2 Gb
GSE63525_GM12878_dilution_combined.hic
格式HIC
大小10.9 Gb
GSE63525_GM12878_dilution_combined_30.hic
格式HIC
大小7.8 Gb
GSE63525_GM12878_diploid_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小1.5 Gb
GSE63525_GM12878_diploid_maternal.hic
格式HIC
大小1.3 Gb
GSE63525_GM12878_diploid_paternal.hic
格式HIC
大小1.3 Gb
GSE63525_GM12878_insitu_DpnII_combined.hic
格式HIC
大小6.8 Gb
GSE63525_GM12878_insitu_DpnII_combined_30.hic
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大小4.4 Gb
GSE63525_GM12878_insitu_noXlink_combined.hic
格式HIC
大小5.5 Gb
GSE63525_GM12878_insitu_noXlink_combined_30.hic
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大小4.4 Gb
GSE63525_GM12878_insitu_primary+replicate_combined.hic
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大小51.0 Gb
GSE63525_GM12878_insitu_primary+replicate_combined_30.hic
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大小37.2 Gb
GSE63525_GM12878_insitu_primary.hic
格式HIC
大小31.9 Gb
GSE63525_GM12878_insitu_primary_30.hic
格式HIC
大小23.5 Gb
GSE63525_GM12878_insitu_replicate.hic
格式HIC
大小29.1 Gb
GSE63525_GM12878_insitu_replicate_30.hic
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大小21.1 Gb
GSE63525_GM12878_primary+replicate_Arrowhead_domainlist.txt.gz
格式TXT
大小242.3 Kb
GSE63525_GM12878_primary+replicate_HiCCUPS_looplist.txt.gz
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大小658.8 Kb
GSE63525_GM12878_primary+replicate_HiCCUPS_looplist_with_motifs.txt.gz
格式TXT
大小827.1 Kb
GSE63525_GM12878_primary_HiCCUPS_looplist.txt.gz
格式TXT
大小420.0 Kb
GSE63525_GM12878_primary_README.rtf
格式RTF
大小9.0 Kb
GSE63525_GM12878_primary_interchromosomal_contact_matrices.tar.gz
格式TAR
大小14.6 Gb
GSE63525_GM12878_primary_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小7.1 Gb
GSE63525_GM12878_replicate_HiCCUPS_looplist.txt.gz
格式TXT
大小372.5 Kb
GSE63525_GM12878_replicate_README.rtf
格式RTF
大小8.9 Kb
GSE63525_GM12878_replicate_interchromosomal_contact_matrices.tar.gz
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大小13.5 Gb
GSE63525_GM12878_replicate_intrachromosomal_contact_matrices.tar.gz
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大小6.5 Gb
GSE63525_GM12878_subcompartments.bed.gz
格式BED
大小31.1 Kb
GSE63525_HMEC_Arrowhead_domainlist.txt.gz
格式TXT
大小104.0 Kb
GSE63525_HMEC_HiCCUPS_looplist.txt.gz
格式TXT
大小304.9 Kb
GSE63525_HMEC_HiCCUPS_looplist_with_motifs.txt.gz
格式TXT
大小405.0 Kb
GSE63525_HMEC_README.rtf
格式RTF
大小8.7 Kb
GSE63525_HMEC_combined.hic
格式HIC
大小7.1 Gb
GSE63525_HMEC_combined_30.hic
格式HIC
大小5.0 Gb
GSE63525_HMEC_interchromosomal_contact_matrices.tar.gz
格式TAR
大小3.8 Gb
GSE63525_HMEC_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小1.7 Gb
GSE63525_HUVEC_Arrowhead_domainlist.txt.gz
格式TXT
大小107.7 Kb
GSE63525_HUVEC_HiCCUPS_looplist.txt.gz
格式TXT
大小203.5 Kb
GSE63525_HUVEC_HiCCUPS_looplist_with_motifs.txt.gz
格式TXT
大小279.3 Kb
GSE63525_HUVEC_README.rtf
格式RTF
大小8.7 Kb
GSE63525_HUVEC_combined.hic
格式HIC
大小8.9 Gb
GSE63525_HUVEC_combined_30.hic
格式HIC
大小6.8 Gb
GSE63525_HUVEC_interchromosomal_contact_matrices.tar.gz
格式TAR
大小4.8 Gb
GSE63525_HUVEC_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小2.4 Gb
GSE63525_HeLa_Arrowhead_domainlist.txt.gz
格式TXT
大小114.2 Kb
GSE63525_HeLa_HiCCUPS_looplist.txt.gz
格式TXT
大小163.6 Kb
GSE63525_HeLa_HiCCUPS_looplist_with_motifs.txt.gz
格式TXT
大小219.0 Kb
GSE63525_IMR90_Arrowhead_domainlist.txt.gz
格式TXT
大小195.3 Kb
GSE63525_IMR90_HiCCUPS_looplist.txt.gz
格式TXT
大小513.8 Kb
GSE63525_IMR90_HiCCUPS_looplist_with_motifs.txt.gz
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大小657.7 Kb
GSE63525_IMR90_README.rtf
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大小8.7 Kb
GSE63525_IMR90_combined.hic
格式HIC
大小12.8 Gb
GSE63525_IMR90_combined_30.hic
格式HIC
大小8.9 Gb
GSE63525_IMR90_interchromosomal_contact_matrices.tar.gz
格式TAR
大小5.9 Gb
GSE63525_IMR90_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小3.8 Gb
GSE63525_K562_Arrowhead_domainlist.txt.gz
格式TXT
大小151.9 Kb
GSE63525_K562_HiCCUPS_looplist.txt.gz
格式TXT
大小362.6 Kb
GSE63525_K562_HiCCUPS_looplist_with_motifs.txt.gz
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大小472.9 Kb
GSE63525_K562_README.rtf
格式RTF
大小8.7 Kb
GSE63525_K562_combined.hic
格式HIC
大小12.1 Gb
GSE63525_K562_combined_30.hic
格式HIC
大小9.1 Gb
GSE63525_K562_interchromosomal_contact_matrices.tar.gz
格式TAR
大小6.4 Gb
GSE63525_K562_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小3.3 Gb
GSE63525_KBM7_Arrowhead_domainlist.txt.gz
格式TXT
大小126.7 Kb
GSE63525_KBM7_HiCCUPS_looplist.txt.gz
格式TXT
大小141.9 Kb
GSE63525_KBM7_README.rtf
格式RTF
大小8.7 Kb
GSE63525_KBM7_combined.hic
格式HIC
大小13.9 Gb
GSE63525_KBM7_combined_30.hic
格式HIC
大小10.2 Gb
GSE63525_KBM7_interchromosomal_contact_matrices.tar.gz
格式TAR
大小8.5 Gb
GSE63525_KBM7_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小2.9 Gb
GSE63525_NHEK_Arrowhead_domainlist.txt.gz
格式TXT
大小152.9 Kb
GSE63525_NHEK_HiCCUPS_looplist.txt.gz
格式TXT
大小234.3 Kb
GSE63525_NHEK_HiCCUPS_looplist_with_motifs.txt.gz
格式TXT
大小319.0 Kb
GSE63525_NHEK_README.rtf
格式RTF
大小8.7 Kb
GSE63525_NHEK_combined.hic
格式HIC
大小11.3 Gb
GSE63525_NHEK_combined_30.hic
格式HIC
大小8.1 Gb
GSE63525_NHEK_interchromosomal_contact_matrices.tar.gz
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大小6.8 Gb
GSE63525_NHEK_intrachromosomal_contact_matrices.tar.gz
格式TAR
大小2.3 Gb
GSE63525_OVERALL_README.rtf
格式RTF
大小98.1 Kb
GSE63525_RAW.tar
格式TAR (of HIC, TXT)
大小1.0 Tb
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Topologically associating domains (TADs) are structural units of chromatin organization. Their definition and identification rely on computational analyses of chromosome conformation capture data. Here we systematically assessed and compared 43 TAD identification strategies, none of which excelled i...
Computational biology and bioinformaticsEpigeneticsSoftware
10.1038/S41592-026-03100-2
ISSN:1548-7091
rRNA biogenesis regulates mouse 2C-like state by 3D structure reorganization of peri-nucleolar heterochromatin
Yu Hua•Sun Zhen•Tan Tianyu•Pan Hongru•Zhao Jing等 20 人
Nature Communications
2021
•2021/11/9
•Vol.12 No.1 p.1-21
The nucleolus is the organelle for ribosome biogenesis and sensing various types of stress. However, its role in regulating stem cell fate remains unclear. Here, we present evidence that nucleolar stress induced by interfering rRNA biogenesis can drive the 2-cell stage embryo-like (2C-like) program ...
Cell biologyDevelopmental biology
10.1038/S41467-021-26576-2
ISSN:2041-1723
Three-dimensional genome structures of single mammalian sperm
Heming Xu•Yi Chi•Changjian Yin•Cheng Li•Yujie Chen等 13 人
Nature Communications
2025
•2025/4/23
•Vol.16 No.1 p.1-14
The three-dimensional (3D) organization of chromosomes is crucial for packaging a large mammalian genome into a confined nucleus and ensuring proper nuclear functions in somatic cells. However, the packaging of the much more condensed sperm genome is challenging to study with traditional imaging or ...
Chromatin structureEpigenomicsSpermatogenesis
10.1038/S41467-025-59055-Z
ISSN:2041-1723
Disruption of NIPBL/Scc2 in Cornelia de Lange Syndrome provokes cohesin genome-wide redistribution with an impact in the transcriptome
Garcia Patricia•Fernandez-Hernandez Rita•Cuadrado Ana•Coca Ignacio•Gomez Antonio等 16 人
Nature Communications
2021
•2021/7/27
•Vol.12 No.1 p.1-15
Cornelia de Lange syndrome (CdLS) is a rare disease affecting multiple organs and systems during development. Mutations in the cohesin loader, NIPBL/Scc2, were first described and are the most frequent in clinically diagnosed CdLS patients. The molecular mechanisms driving CdLS phenotypes are not un...
Chromosome segregationCohesionMechanisms of disease
10.1038/S41467-021-24808-Z
ISSN:2041-1723
Learning representations of chromatin contacts using a recurrent neural network identifies genomic drivers of conformation
Dsouza Kevin B.•Maslova Alexandra•Al-Jibury Ediem•Merkenschlager Matthias•Bhargava Vijay K.等 6 人
Nature Communications
2022
•2022/6/28
•Vol.13 No.1 p.1-19
Despite the availability of chromatin conformation capture experiments, discerning the relationship between the 1D genome and 3D conformation remains a challenge, which limits our understanding of their affect on gene expression and disease. We propose Hi-C-LSTM, a method that produces low-dimension...
EpigenomicsMachine learning
10.1038/S41467-022-31337-W
ISSN:2041-1723
Reconstruction of diploid higher-order human 3D genome interactions from noisy Pore-C data using Dip3D
Ying Chen•Zhuo-Bin Lin•Shao-Kai Wang•Bo Wu•Longjian Niu等 17 人
Nature Structural & Molecular Biology
2025
•2025/3/4
•00 p.1-13
Differential high-order chromatin interactions between homologous chromosomes affect many biological processes. Traditional chromatin conformation capture genome analysis methods mainly identify two-way interactions and cannot provide comprehensive haplotype information, especially for low-heterozyg...
EpigenomicsGenomic analysisGenomicsHigh-throughput screening
10.1038/S41594-025-01512-W
ISSN:1545-9993
Transcription and DNA replication collisions lead to large tandem duplications and expose targetable therapeutic vulnerabilities in cancer
Yang Yang•Michelle L. Badura•Patrick C. O’Leary•Henry M. Delavan•Troy M. Robinson等 15 人
Nature Cancer
2024
•2024/11/18
•00 p.1-17
Despite the abundance of somatic structural variations (SVs) in cancer, the underlying molecular mechanisms of their formation remain unclear. In the present study, we used 6,193 whole-genome sequenced tumors to study the contributions of transcription and DNA replication collisions to genome instab...
CancerCancer genomicsGenome informaticsGenomic instability
10.1038/S43018-024-00848-4
ISSN:2662-1347
Revealing Hi-C subcompartments by imputing inter-chromosomal chromatin interactions
Kyle Xiong•Jian Ma
Nature Communications
2019
•2019/11/7
•Vol.10 No.1 p.1-12
Higher-order genome organization and its variation in different cellular conditions remain poorly understood. Recent high-coverage genome-wide chromatin interaction mapping using Hi-C has revealed spatial segregation of chromosomes in the human genome into distinct subcompartments. However, subcompa...
Chromatin structureComputational biology and bioinformaticsEpigenomics
10.1038/S41467-019-12954-4
ISSN:2041-1723
CHESS enables quantitative comparison of chromatin contact data and automatic feature extraction
Silvia Galan•Nick Machnik•Kai Kruse•Noelia Díaz•Marc A. Marti-Renom等 6 人
Nature Genetics
2020
•2020/10/19
•Vol.52 No.11 p.1247-1255
Dynamic changes in the three-dimensional (3D) organization of chromatin are associated with central biological processes, such as transcription, replication and development. Therefore, the comprehensive identification and quantification of these changes is fundamental to understanding of evolutionar...
EpigenomicsGenomic analysisGenomicsSoftware
10.1038/S41588-020-00712-Y
ISSN:1061-4036
Topological isolation of developmental regulators in mammalian genomes
Wu Hua-Jun•Landshammer Alexandro•Stamenova Elena K.•Bolondi Adriano•Kretzmer Helene等 7 人
Nature Communications
2021
•2021/8/12
•Vol.12 No.1 p.1-19
Precise control of mammalian gene expression is facilitated through epigenetic mechanisms and nuclear organization. In particular, insulated chromosome structures are important for regulatory control, but the phenotypic consequences of their boundary disruption on developmental processes are complex...
Computational biology and bioinformaticsDevelopmental biology
10.1038/S41467-021-24951-7
ISSN:2041-1723
FreeHi-C simulates high-fidelity Hi-C data for benchmarking and data augmentation
Ye Zheng•Sündüz Keleş
Nature Methods
2019
•2019/11/11
•Vol.17 No.1 p.37-40
The ability to simulate high-throughput chromatin conformation (Hi-C) data is foundational for benchmarking Hi-C data analysis methods. Here we present a nonparametric strategy named FreeHi-C to simulate Hi-C data from the interacting genome fragments. Data from FreeHi-C exhibit high fidelity to bio...
Computational modelsSoftwareStatistical methods
10.1038/S41592-019-0624-3
ISSN:1548-7091
A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains
Jingxuan Xu•Xiang Xu•Dandan Huang•Yawen Luo•Lin Lin等 14 人
Nature Communications
2024
•2024/5/23
•Vol.15 No.1 p.1-19
Topologically associating domains (TADs), megabase-scale features of chromatin spatial architecture, are organized in a domain-within-domain TAD hierarchy. Within TADs, the inner and smaller subTADs not only manifest cell-to-cell variability, but also precisely regulate transcription and differentia...
Data integrationEpigeneticsEpigenomicsGenome informaticsSoftware
10.1038/S41467-024-48593-7
ISSN:2041-1723
Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding
Conte Mattia•Irani Ehsan•Chiariello Andrea M.•Abraham Alex•Bianco Simona等 7 人
Nature Communications
2022
•2022/7/13
•Vol.13 No.1 p.1-13
Loop-extrusion and phase-separation have been proposed as mechanisms that shape chromosome spatial organization. It is unclear, however, how they perform relative to each other in explaining chromatin architecture data and whether they compete or co-exist at the single-molecule level. Here, we compa...
Biological physicsChromatin structure
10.1038/S41467-022-31856-6
ISSN:2041-1723
Revisiting the use of structural similarity index in Hi-C
Hanjun Lee•Bruce Blumberg•Michael S. Lawrence•Toshihiro Shioda
Nature Genetics
2023
•2023/12/5
•00 p.1-4
Computational biology and bioinformaticsEpigenomicsGenomics
10.1038/S41588-023-01594-6
ISSN:1061-4036
EmbedTAD Using Graph Embedding and Unsupervised Learning to Identify TADs from High-Resolution Hi-C Data
H. M. A. Mohit Chowdhury•Oluwatosin Oluwadare
Communications Biology
2025
•2025/12/9
0Topologically Associating Domains (TADs) serve a functional purpose as self-interacting regions whose boundaries are enriched with various proteins. Identifying these TAD regions is essential for examining several biological characteristics, including immune system function and chromosome organizati...
Data miningMachine learning
10.1038/S42003-025-09224-Z
ISSN:2399-3642
A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants
Shi Guang•Thirumalai D.
Nature Communications
2023
•2023/3/1
•Vol.14 No.1 p.1-14
The principles that govern the organization of genomes, which are needed for an understanding of how chromosomes are packaged and function in eukaryotic cells, could be deciphered if the three-dimensional (3D) structures are known. Recently, single-cell imaging techniques have been developed to dete...
Biological physicsComputational biophysics
10.1038/S41467-023-36412-4
ISSN:2041-1723
Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes
Choudhary Mayank N. K.•Quaid Kara•Xing Xiaoyun•Schmidt Heather•Wang Ting
Nature Communications
2023
•2023/2/6
•Vol.14 No.1 p.1-12
Transposable elements (TEs) are major contributors of genetic material in mammalian genomes. These often include binding sites for architectural proteins, including the multifarious master protein, CTCF, which shapes the 3D genome by creating loops, domains, compartment borders, and RNA-DNA interact...
EpigenomicsGene regulation
10.1038/S41467-023-36364-9
ISSN:2041-1723
Dynamic network-guided CRISPRi screen identifies CTCF-loop-constrained nonlinear enhancer gene regulatory activity during cell state transitions
Renhe Luo•Jielin Yan•Jin Woo Oh•Wang Xi•Dustin Shigaki等 20 人
Nature Genetics
2023
•2023/7/24
•00 p.1-11
Comprehensive enhancer discovery is challenging because most enhancers, especially those contributing to complex diseases, have weak effects on gene expression. Our gene regulatory network modeling identified that nonlinear enhancer gene regulation during cell state transitions can be leveraged to i...
Gene regulationHigh-throughput screeningMutagenesisStem cellsSystems analysis
10.1038/S41588-023-01450-7
ISSN:1061-4036
Evaluating the role of the nuclear microenvironment in gene function by population-based modeling
Asli Yildirim•Nan Hua•Lorenzo Boninsegna•Yuxiang Zhan•Guido Polles等 10 人
Nature Structural & Molecular Biology
2023
•2023/8/14
•00 p.1-14
The nuclear folding of chromosomes relative to nuclear bodies is an integral part of gene function. Here, we demonstrate that population-based modeling—from ensemble Hi-C data—provides a detailed description of the nuclear microenvironment of genes and its role in gene function. We define the microe...
ChromatinChromatin analysisChromatin structureComputational biology and bioinformaticsNuclear organization
10.1038/S41594-023-01036-1
ISSN:1545-9993
Two distinct chromatin modules regulate proinflammatory gene expression
Isabelle Seufert•Irene Gerosa•Vassiliki Varamogianni-Mamatsi•Anastasiya Vladimirova•Ezgi Sen等 14 人
Nature Cell Biology
2025
•2025/12/24
•00 p.1-15
Gene activation and coregulation have been attributed to different mechanisms, such as enhancer–promoter interactions via chromatin looping or the accumulation of transcription factors into hubs or condensates. However, genome-wide studies exploring mechanistic differences in endogenous gene regulat...
Gene regulationGene regulatory networksNuclear organization
10.1038/S41556-025-01819-2
ISSN:1465-7392
Pioneer transcription factors direct tissue-specific cohesin chromatin entry and three-dimensional genome organization
Song Wang•Xianglin Zhang•Tianwei Jia•Wenzheng Wang•Xiaoyu Liu等 18 人
Nature Genetics
2026
•2026/7/16
•00 p.1-12
Cohesin organizes three-dimensional genome architecture by extruding DNA loops, but the mechanisms specifying its chromatin entry sites remain unclear. Here we show that the cohesin loader NIPBL is prepositioned at highly tissue-specific sites, largely distinct from the broadly conserved binding pro...
EpigenomicsProstate cancer
10.1038/S41588-026-02688-7
ISSN:1061-4036
Refining breast cancer genetic risk and biology through multi-ancestry fine-mapping analyses of 192 risk regions
Guochong Jia•Zhishan Chen•Jie Ping•Qiuyin Cai•Ran Tao等 70 人
Nature Genetics
2025
•2025/1/3
•Vol.57 No.1 p.80-87
Genome-wide association studies have identified approximately 200 genetic risk loci for breast cancer, but the causal variants and target genes are mostly unknown. We sought to fine-map all known breast cancer risk loci using genome-wide association study data from 172,737 female breast cancer cases...
Breast cancerEpidemiology
10.1038/S41588-024-02031-Y
ISSN:1061-4036
Epromoters function as a hub to recruit key transcription factors required for the inflammatory response
Santiago-Algarra David•Souaid Charbel•Singh Himanshu•Dao Lan T. M.•Hussain Saadat等 11 人
Nature Communications
2021
•2021/11/18
•Vol.12 No.1 p.1-18
Gene expression is controlled by the involvement of gene-proximal (promoters) and distal (enhancers) regulatory elements. Our previous results demonstrated that a subset of gene promoters, termed Epromoters, work as bona fide enhancers and regulate distal gene expression. Here, we hypothesized that ...
Gene regulationInflammation
10.1038/S41467-021-26861-0
ISSN:2041-1723
CGMega: explainable graph neural network framework with attention mechanisms for cancer gene module dissection
Hao Li•Zebei Han•Yu Sun•Fu Wang•Pengzhen Hu等 14 人
Nature Communications
2024
•2024/7/17
•Vol.15 No.1 p.1-15
Cancer is rarely the straightforward consequence of an abnormality in a single gene, but rather reflects a complex interplay of many genes, represented as gene modules. Here, we leverage the recent advances of model-agnostic interpretation approach and develop CGMega, an explainable and graph attent...
Acute myeloid leukaemiaBreast cancerComputational modelsData miningMachine learning
10.1038/S41467-024-50426-6
ISSN:2041-1723