Mendeley | Further Information

{"title"=>"Inferential Structure Determination of Chromosomes from Single-Cell Hi-C Data", "type"=>"journal", "authors"=>[{"first_name"=>"Simeon", "last_name"=>"Carstens", "scopus_author_id"=>"55489103700"}, {"first_name"=>"Michael", "last_name"=>"Nilges", "scopus_author_id"=>"7006940093"}, {"first_name"=>"Michael", "last_name"=>"Habeck", "scopus_author_id"=>"7005882876"}], "year"=>2016, "source"=>"PLoS Computational Biology", "identifiers"=>{"sgr"=>"85007553283", "doi"=>"10.1371/journal.pcbi.1005292", "isbn"=>"1111111111", "pmid"=>"28027298", "issn"=>"15537358", "scopus"=>"2-s2.0-85007553283", "pui"=>"613954242"}, "id"=>"c355c570-8692-33a0-b407-b2c05b6b6ff9", "abstract"=>"Author Summary Spatial interactions between distant genomic regions are of fundamental importance in gene regulation and other nuclear processes. Recent chromatin crosslinking (“Hi-C”) experiments probe the spatial organization of chromosomes on a genome-wide scale to an extent that was previously unattainable. These experiments report on contacting loci and thus provide information about the three-dimensional structure of the genome. Unfortunately, the data are noisy and do not determine the structure uniquely. There is also little quantitative prior knowledge about the large-scale organization of chromosomes. Here, we address these challenges by developing a Bayesian statistical approach that combines a minimalist polymer model with chromosome size measurements and conformation capture data. Our method generates statistical ensembles of chromosome structures from extremely sparse single-cell Hi-C data. We remove potential bias by learning modeling parameters from the experimental data and apply model comparison techniques to investigate which among a set of alternative models is most supported by the Hi-C data. Our method also allows for modeling with ambiguous contact data obtained on polyploid chromosomes, which is an important step towards three-dimensional modeling of whole genomes.", "link"=>"http://www.mendeley.com/research/inferential-structure-determination-chromosomes-singlecell-hic-data-1", "reader_count"=>36, "reader_count_by_academic_status"=>{"Student > Doctoral Student"=>1, "Researcher"=>11, "Student > Ph. D. Student"=>9, "Other"=>5, "Student > Master"=>7, "Professor"=>3}, "reader_count_by_user_role"=>{"Student > Doctoral Student"=>1, "Researcher"=>11, "Student > Ph. D. Student"=>9, "Other"=>5, "Student > Master"=>7, "Professor"=>3}, "reader_count_by_subject_area"=>{"Biochemistry, Genetics and Molecular Biology"=>16, "Agricultural and Biological Sciences"=>15, "Physics and Astronomy"=>2, "Computer Science"=>3}, "reader_count_by_subdiscipline"=>{"Physics and Astronomy"=>{"Physics and Astronomy"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>15}, "Computer Science"=>{"Computer Science"=>3}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>16}}, "reader_count_by_country"=>{"Belgium"=>1, "United States"=>1, "China"=>1, "Italy"=>1, "France"=>1}, "group_count"=>0}

CrossRef

• http://doi.org/10.1126/science.aat5641
• http://doi.org/10.1093/nar/gky065
• http://doi.org/10.1021/acs.jpclett.8b02439
• http://doi.org/10.1016/j.sbi.2017.07.001
• http://doi.org/10.1002/wsbm.1435
• http://doi.org/10.1016/j.cell.2019.01.020
• http://doi.org/10.3389/fmolb.2017.00015

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• {"year"=>2018, "month"=>9, "doi"=>"10.1371/journal.pcbi.1005292", "f1000_id"=>"727146656", "url"=>"https://f1000.com/prime/727146656", "score"=>2, "classifications"=>["technical_advance"], "updated_at"=>"2018-09-24T08:41:21Z"}
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• {"year"=>2018, "month"=>11, "doi"=>"10.1371/journal.pcbi.1005292", "f1000_id"=>"727146656", "url"=>"https://f1000.com/prime/727146656", "score"=>2, "classifications"=>["technical_advance"], "updated_at"=>"2018-11-26T09:41:25Z"}
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• {"year"=>2019, "month"=>1, "doi"=>"10.1371/journal.pcbi.1005292", "f1000_id"=>"727146656", "url"=>"https://f1000.com/prime/727146656", "score"=>2, "classifications"=>["technical_advance"], "updated_at"=>"2019-01-28T09:41:25Z"}
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• {"year"=>2019, "month"=>3, "doi"=>"10.1371/journal.pcbi.1005292", "f1000_id"=>"727146656", "url"=>"https://f1000.com/prime/727146656", "score"=>2, "classifications"=>["technical_advance"], "updated_at"=>"2019-03-18T08:41:25Z"}