{"id":"https://openalex.org/W2134598314","doi":"https://doi.org/10.1109/cibcb.2007.4221214","title":"Geometrical probability approach for analysis of 3D chromatin structure in interphase cell nuclei","display_name":"Geometrical probability approach for analysis of 3D chromatin structure in interphase cell nuclei","publication_year":2007,"publication_date":"2007-04-01","ids":{"openalex":"https://openalex.org/W2134598314","doi":"https://doi.org/10.1109/cibcb.2007.4221214","mag":"2134598314"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2007.4221214","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2007.4221214","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2007 IEEE Symposium on Computational Intelligence and Bioinformatics and Computational Biology","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070897424","display_name":"Evgeny Gladilin","orcid":"https://orcid.org/0000-0002-6153-727X"},"institutions":[{"id":"https://openalex.org/I17937529","display_name":"German Cancer Research Center","ror":"https://ror.org/04cdgtt98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I17937529"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"E. Gladilin","raw_affiliation_strings":["Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","Theor. Bioinformatics, German Cancer Res. Center, Heidelberg"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]},{"raw_affiliation_string":"Theor. Bioinformatics, German Cancer Res. Center, Heidelberg","institution_ids":["https://openalex.org/I17937529"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038565479","display_name":"Sandra Goetze","orcid":"https://orcid.org/0000-0001-6880-8020"},"institutions":[{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"S. Goetze","raw_affiliation_strings":["Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I887064364"]},{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055055714","display_name":"Julio Mateos\u2010Langerak","orcid":"https://orcid.org/0000-0003-1579-0773"},"institutions":[{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"J. Mateos-Langerak","raw_affiliation_strings":["Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I887064364"]},{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110185221","display_name":"Roel van Driel","orcid":null},"institutions":[{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"R. van Driel","raw_affiliation_strings":["Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I887064364"]},{"raw_affiliation_string":"Swammerdam Institute for Life Sciences, University of Amsterdam, BioCentrum Amsterdam, Kruislaan 318, 1098 SM Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105834383","display_name":"K. Rohr","orcid":null},"institutions":[{"id":"https://openalex.org/I17937529","display_name":"German Cancer Research Center","ror":"https://ror.org/04cdgtt98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I17937529"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"K. Rohr","raw_affiliation_strings":["Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","German Cancer Research Center, Theoretical Bioinformatics, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]},{"raw_affiliation_string":"German Cancer Research Center, Theoretical Bioinformatics, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044191947","display_name":"Roland Eils","orcid":"https://orcid.org/0000-0002-0034-4036"},"institutions":[{"id":"https://openalex.org/I17937529","display_name":"German Cancer Research Center","ror":"https://ror.org/04cdgtt98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I17937529"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"R. Eils","raw_affiliation_strings":["Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","German Cancer Research Center, Theoretical Bioinformatics, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Theoretical Bioinformatics, German Cancer Research Center, Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]},{"raw_affiliation_string":"German Cancer Research Center, Theoretical Bioinformatics, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"6144","issue":null,"first_page":"127","last_page":"134"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11369","display_name":"Genetic factors in colorectal cancer","score":0.9740999937057495,"subfield":{"id":"https://openalex.org/subfields/2734","display_name":"Pathology and Forensic Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11591","display_name":"NF-\u03baB Signaling Pathways","score":0.9476000070571899,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/interphase","display_name":"Interphase","score":0.781697154045105},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.6807020306587219},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.6622461080551147},{"id":"https://openalex.org/keywords/chromosome","display_name":"Chromosome","score":0.5046900510787964},{"id":"https://openalex.org/keywords/probability-density-function","display_name":"Probability density function","score":0.45976725220680237},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.44217047095298767},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.4131626486778259},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.40008744597435},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3409011960029602},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2986563742160797},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22140032052993774},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2068462073802948},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.12866032123565674},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.10907739400863647},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10197821259498596}],"concepts":[{"id":"https://openalex.org/C29452124","wikidata":"https://www.wikidata.org/wiki/Q835950","display_name":"Interphase","level":2,"score":0.781697154045105},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.6807020306587219},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.6622461080551147},{"id":"https://openalex.org/C30481170","wikidata":"https://www.wikidata.org/wiki/Q37748","display_name":"Chromosome","level":3,"score":0.5046900510787964},{"id":"https://openalex.org/C197055811","wikidata":"https://www.wikidata.org/wiki/Q207522","display_name":"Probability density function","level":2,"score":0.45976725220680237},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.44217047095298767},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.4131626486778259},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.40008744597435},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3409011960029602},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2986563742160797},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22140032052993774},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2068462073802948},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.12866032123565674},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.10907739400863647},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10197821259498596},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2007.4221214","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2007.4221214","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2007 IEEE Symposium on Computational Intelligence and Bioinformatics and Computational Biology","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":8,"referenced_works":["https://openalex.org/W1951165114","https://openalex.org/W1964010516","https://openalex.org/W2012842652","https://openalex.org/W2025125384","https://openalex.org/W2076028631","https://openalex.org/W2086681171","https://openalex.org/W2102999073","https://openalex.org/W2169941328"],"related_works":["https://openalex.org/W4251242566","https://openalex.org/W4309325029","https://openalex.org/W2000623749","https://openalex.org/W236998941","https://openalex.org/W2586882807","https://openalex.org/W1992830050","https://openalex.org/W1994525023","https://openalex.org/W1980054129","https://openalex.org/W1968813707","https://openalex.org/W2077871972"],"abstract_inverted_index":{"Investigation":[0],"of":[1,14,20,24,45,63,78,81,100,122,128,132,139,159,163],"3D":[2,22,36,134,164],"chromatin":[3,135,165],"structure":[4],"in":[5,30,33,60,167],"interphase":[6,168],"cell":[7,169],"nuclei":[8,170],"is":[9,41,111,149],"important":[10],"for":[11,106,120],"the":[12,21,25,52,71,145,157],"understanding":[13],"genome":[15],"function.":[16],"For":[17,76],"a":[18,94],"reconstruction":[19],"architecture":[23],"human":[26,72],"genome,":[27],"systematic":[28],"fluorescent":[29],"situ":[31],"hybridization":[32],"combination":[34],"with":[35],"confocal":[37],"laser":[38],"scanning":[39],"microscopy":[40],"applied.":[42],"The":[43],"position":[44],"two":[46],"or":[47],"three":[48],"genomic":[49],"loci":[50,67],"plus":[51],"overall":[53],"nuclear":[54],"shape":[55,131],"were":[56],"simultaneously":[57],"recorded,":[58],"resulting":[59,88],"statistical":[61,79],"series":[62],"pair":[64],"and":[65,125,130,155],"triple":[66],"combinations":[68],"probed":[69,133],"along":[70],"chromosome":[73],"1":[74],"q-arm.":[75],"interpretation":[77],"distributions":[80],"geometrical":[82,101],"features":[83],"(e.g.":[84],"distances,":[85],"angles,":[86],"etc.)":[87],"from":[89],"finite":[90],"point":[91],"sampling":[92],"experiments,":[93],"Monte-Carlo-based":[95],"approach":[96],"to":[97,151],"numerical":[98,141,147],"computation":[99],"probability":[102],"density":[103],"functions":[104],"(PDFs)":[105],"arbitrarily-shaped":[107],"confined":[108,160],"spatial":[109],"domains":[110],"developed.":[112],"Simulated":[113],"PDFs":[114,124],"are":[115],"used":[116],"as":[117],"bench":[118],"marks":[119],"evaluation":[121],"experimental":[123,153],"quantitative":[126],"analysis":[127],"dimension":[129],"regions.":[136],"Preliminary":[137],"results":[138],"our":[140],"simulations":[142],"show":[143],"that":[144],"proposed":[146],"model":[148],"capable":[150],"reproduce":[152],"observations,":[154],"support":[156],"assumption":[158],"random":[161],"folding":[162],"fiber":[166]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}