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References from HiC-GNN: A generalizable model for 3D chromosome reconstruction using graph convolutional neural networks. Local targets link to admitted publications; unresolved targets remain external evidence.
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10.1016/j.cell.2007.01.028 · External reference
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10.1038/ng1896
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10.1101/gr.5571506
10.1101/gr.5571506 · External reference
Hi-C: a method to study the three-dimensional architecture of genomes
2010 · External reference
10.1101/gad.179804.111
10.1101/gad.179804.111 · External reference
10.1126/science.1181369
10.1126/science.1181369 · External reference
An overview of methods for reconstructing 3-D chromosome and genome structures from Hi-C data
10.1186/s12575-019-0094-0 · 2019 · External reference
10.1093/nar/gkw1155
10.1093/nar/gkw1155 · External reference
A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact data
10.1186/s12864-018-4546-8 · 2018 · External reference
10.1093/bioinformatics/btx271
10.1093/bioinformatics/btx271 · External reference
Hierarchical reconstruction of high-resolution 3D models of large chromosomes
10.1038/s41598-019-41369-w · 2019 · External reference
Chromosome3D: reconstructing three-dimensional chromosomal structures from Hi-C interaction frequency data using distance geometry simulated annealing
10.1186/s12864-016-3210-4 · 2016 · External reference
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10.1007/978-3-642-37195-0_31 · External reference
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10.1111/tra.12539 · External reference
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10.1038/nmeth.3104 · External reference
Chromatin 3D structure reconstruction with consideration of adjacency relationship among genomic loci
2020 · External reference
10.1093/imanum/drs019
10.1093/imanum/drs019 · External reference
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Adam: a method for stochastic optimization
2014 · External reference
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10.4161/trns.28447 · External reference
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10.1073/pnas.1204799109 · External reference
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10.1038/srep29775 · 2016 · External reference
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10.1073/pnas.0809501106 · External reference
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10.1093/nar/gkv221 · External reference
10.1145/2736277.2741093
10.1145/2736277.2741093 · External reference
Graph embedding and unsupervised learning predict genomic sub-compartments from HiC chromatin interaction data
10.1038/s41467-020-14974-x · 2020 · External reference
Procrustes problems
2004 · External reference
A generalized solution of the orthogonal procrustes problem
10.1007/bf02289451 · 1966 · External reference
A three-dimensional map of the human genome at kilobase resolution reveals principles of chromatin looping
10.1016/j.cell.2014.11.021 · 2014 · External reference
GSDB: a database of 3D chromosome and genome structures reconstructed from Hi-C data
2020 · External reference
10.1016/j.cels.2015.07.012
10.1016/j.cels.2015.07.012 · External reference
Chromatin immunoprecipitation (chip)
10.1101/pdb.prot5279 · 2009 · External reference
Chromatin interaction analysis with paired-end tag (ChIA-PET) sequencing technology and application
2014 · External reference
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10.1093/nar/gki022 · 2005 · External reference
How powerful are graph neural networks?
2018 · External reference
Dynamic graph cnn for learning on point clouds
10.1145/3326362 · 2019 · External reference
Three-dimensional modeling of chromatin structure from interaction frequency data using Markov chain Monte Carlo sampling
10.1186/1471-2105-12-414 · 2011 · External reference
Gated graph sequence neural networks
2015 · External reference
Semi-supervised classification with graph convolutional networks
2016 · External reference
Unresolved reference
External reference
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10.1109/iccv.2013.368 · External reference
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10.1371/journal.pcbi.1002893 · External reference
10.1093/bioinformatics/btu268
10.1093/bioinformatics/btu268 · External reference
HIFI: estimating DNA-DNA interaction frequency from Hi-C data at restriction-fragment resolution
10.1186/s13059-019-1913-y · 2020 · External reference
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10.1038/nrm.2016.104 · External reference
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