{"id":"https://openalex.org/W2790617659","doi":"https://doi.org/10.1371/journal.pcbi.1006030","title":"4Cin: A computational pipeline for 3D genome modeling and virtual Hi-C analyses from 4C data","display_name":"4Cin: A computational pipeline for 3D genome modeling and virtual Hi-C analyses from 4C data","publication_year":2018,"publication_date":"2018-03-09","ids":{"openalex":"https://openalex.org/W2790617659","doi":"https://doi.org/10.1371/journal.pcbi.1006030","mag":"2790617659","pmid":"https://pubmed.ncbi.nlm.nih.gov/29522512"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1006030","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006030","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006030&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006030&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5033461209","display_name":"Ibai Irastorza-Azc\u00e1rate","orcid":"https://orcid.org/0000-0001-5245-2322"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Ibai Irastorza-Azcarate","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":"https://orcid.org/0000-0001-5245-2322","affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040145590","display_name":"Rafael D. Acemel","orcid":"https://orcid.org/0000-0003-4120-0140"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Rafael D. Acemel","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":"https://orcid.org/0000-0003-4120-0140","affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041402608","display_name":"Juan J. Tena","orcid":"https://orcid.org/0000-0001-8165-7984"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Juan J. Tena","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":"https://orcid.org/0000-0001-8165-7984","affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043923183","display_name":"Ignacio Maeso","orcid":"https://orcid.org/0000-0002-6440-8457"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ignacio Maeso","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003733187","display_name":"Jos\u00e9 Luis G\u00f3mez-Sk\u00e1rmeta","orcid":"https://orcid.org/0000-0001-5125-4332"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Jos\u00e9 Luis G\u00f3mez-Skarmeta","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040059021","display_name":"Damien P. Devos","orcid":"https://orcid.org/0000-0002-9453-4753"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210111405","display_name":"Centro Andaluz de Biolog\u00eda del Desarrollo","ror":"https://ror.org/01v5e3436","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I918821925","https://openalex.org/I95013407"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Damien P. Devos","raw_affiliation_strings":["Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain"],"raw_orcid":"https://orcid.org/0000-0002-9453-4753","affiliations":[{"raw_affiliation_string":"Centro Andaluz de Biolog\u00eda del Desarrollo (CABD), Consejo Superior de Investigaciones Cient\u00edficas/Universidad Pablo de Olavide, Seville, Spain","institution_ids":["https://openalex.org/I4210111405","https://openalex.org/I95013407","https://openalex.org/I134820265"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5003733187","https://openalex.org/A5033461209","https://openalex.org/A5040059021"],"corresponding_institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210111405","https://openalex.org/I95013407"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.8348,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.71741691,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"14","issue":"3","first_page":"e1006030","last_page":"e1006030"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9983000159263611,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6588731408119202},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.581075131893158},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5613265633583069},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.514164924621582},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.45719969272613525},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.45631182193756104},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.42636987566947937},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2607029378414154},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.18442216515541077},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13296940922737122}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6588731408119202},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.581075131893158},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5613265633583069},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.514164924621582},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.45719969272613525},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.45631182193756104},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.42636987566947937},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2607029378414154},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.18442216515541077},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13296940922737122},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":8,"locations":[{"id":"doi:10.1371/journal.pcbi.1006030","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006030","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006030&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:29522512","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29522512","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:digital.csic.es:10261/242226","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/242226","pdf_url":null,"source":{"id":"https://openalex.org/S4306401639","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:digital.csic.es:10261/242621","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/242621","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:diposit.ub.edu:2445/192213","is_oa":true,"landing_page_url":"http://hdl.handle.net/2445/192213","pdf_url":null,"source":{"id":"https://openalex.org/S4306401653","display_name":"Dip\u00f2sit Digital de la Universitat de Barcelona (Universitat de Barcelona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71999127","host_organization_name":"Universitat de Barcelona","host_organization_lineage":["https://openalex.org/I71999127"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Articles publicats en revistes (Gen\u00e8tica, Microbiologia i Estad\u00edstica)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:2d386507d10240e2831fe5465f72550f","is_oa":true,"landing_page_url":"https://doaj.org/article/2d386507d10240e2831fe5465f72550f","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 14, Iss 3, p e1006030 (2018)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/5967250","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/4Cin_A_computational_pipeline_for_3D_genome_modeling_and_virtual_Hi-C_analyses_from_4C_data/5967250","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:5862518","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5862518","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1006030","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006030","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006030&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1715308577","display_name":null,"funder_award_id":"BFU2013-41322-P","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G3648689924","display_name":null,"funder_award_id":"BFU2014-58449-JIN","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G3943735820","display_name":"Evolution of regulatory landscapes at multiple timescales","funder_award_id":"740041","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6223852105","display_name":null,"funder_award_id":"BFU2016-74961-P","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G6484350113","display_name":null,"funder_award_id":"BFU2013-40866-P","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G7365886497","display_name":"Evolution of Regulatory Landscapes in Chordates","funder_award_id":"658521","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G8493942539","display_name":null,"funder_award_id":"MSCA IEF 658521","funder_id":"https://openalex.org/F4320335254","funder_display_name":"Horizon 2020"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321764","display_name":"Ministerio de Educaci\u00f3n, Cultura y Deporte","ror":"https://ror.org/03nc27g21"},{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"},{"id":"https://openalex.org/F4320322035","display_name":"Rural Development Administration","ror":"https://ror.org/03xs9yg50"},{"id":"https://openalex.org/F4320335254","display_name":"Horizon 2020","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2790617659.pdf","grobid_xml":"https://content.openalex.org/works/W2790617659.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1558882143","https://openalex.org/W1637500350","https://openalex.org/W1859117663","https://openalex.org/W1945579058","https://openalex.org/W1960015501","https://openalex.org/W1973062929","https://openalex.org/W1978496023","https://openalex.org/W2014862205","https://openalex.org/W2015128055","https://openalex.org/W2018658338","https://openalex.org/W2026865241","https://openalex.org/W2032140335","https://openalex.org/W2032770707","https://openalex.org/W2056482755","https://openalex.org/W2058719893","https://openalex.org/W2070021921","https://openalex.org/W2070693812","https://openalex.org/W2091548199","https://openalex.org/W2099034339","https://openalex.org/W2101249563","https://openalex.org/W2102130285","https://openalex.org/W2107866789","https://openalex.org/W2124985265","https://openalex.org/W2152334431","https://openalex.org/W2153856160","https://openalex.org/W2157576490","https://openalex.org/W2161212572","https://openalex.org/W2169236261","https://openalex.org/W2170696599","https://openalex.org/W2173155483","https://openalex.org/W2195190137","https://openalex.org/W2259938310","https://openalex.org/W2265101850","https://openalex.org/W2303393194","https://openalex.org/W2325239207","https://openalex.org/W2340667260","https://openalex.org/W2402173511","https://openalex.org/W2519244818","https://openalex.org/W2528263447","https://openalex.org/W2551543748","https://openalex.org/W2552583736","https://openalex.org/W2556439729","https://openalex.org/W2559000278","https://openalex.org/W2569095710","https://openalex.org/W2584141685","https://openalex.org/W4253990352"],"related_works":["https://openalex.org/W2055243143","https://openalex.org/W2086525401","https://openalex.org/W2006735166","https://openalex.org/W2079327011","https://openalex.org/W2053325634","https://openalex.org/W3178279768","https://openalex.org/W193851735","https://openalex.org/W2898732673","https://openalex.org/W2773861473","https://openalex.org/W2053972265"],"abstract_inverted_index":{"The":[0,107],"use":[1],"of":[2,9,13,19,26,29,39,68,77,95,123,135,179,195,197],"3C-based":[3],"methods":[4],"has":[5],"revealed":[6],"the":[7,10,14,23,27,37,96,121,133,189],"importance":[8],"3D":[11,59,87,108,159,180],"organization":[12,89],"chromatin":[15,181],"for":[16],"key":[17],"aspects":[18],"genome":[20,88],"biology.":[21],"However,":[22],"different":[24],"caveats":[25],"variants":[28,169],"3C":[30],"techniques":[31,154],"have":[32],"limited":[33],"their":[34,116],"scope":[35],"and":[36,61,148,174,192],"range":[38,194],"scientific":[40],"fields":[41],"that":[42],"could":[43],"benefit":[44],"from":[45,84,100,111],"these":[46,50],"approaches.":[47],"To":[48],"address":[49],"limitations,":[51],"we":[52,187],"present":[53],"4Cin,":[54],"a":[55,128,144,157,184],"method":[56],"to":[57,151,171],"generate":[58],"models":[60,109],"derive":[62],"virtual":[63],"Hi-C":[64],"(vHi-C)":[65],"heat":[66],"maps":[67],"genomic":[69,130,167],"loci":[70],"based":[71],"on":[72],"4C-seq":[73,105,112],"or":[74],"any":[75],"kind":[76],"4C-seq-like":[78],"data,":[79,113],"such":[80],"as":[81,101,103],"those":[82],"derived":[83,99],"NG":[85],"Capture-C.":[86],"is":[90],"determined":[91],"by":[92],"integrative":[93],"consideration":[94],"spatial":[97],"distances":[98],"few":[102],"four":[104],"experiments.":[106],"obtained":[110],"together":[114],"with":[115],"associated":[117,170],"vHi-C":[118],"maps,":[119],"allow":[120],"inference":[122],"all":[124],"chromosomal":[125],"contacts":[126],"within":[127],"given":[129],"region,":[131],"facilitating":[132],"identification":[134],"Topological":[136],"Associating":[137],"Domains":[138],"(TAD)":[139],"boundaries.":[140],"Thus,":[141],"4Cin":[142],"offers":[143],"much":[145],"cheaper,":[146],"accessible":[147],"versatile":[149],"alternative":[150],"other":[152],"available":[153],"while":[155],"providing":[156],"comprehensive":[158],"topological":[160],"profiling.":[161],"By":[162],"studying":[163],"TAD":[164],"modifications":[165],"in":[166,183],"structural":[168],"disease":[172],"phenotypes":[173],"performing":[175],"cross-species":[176],"evolutionary":[177],"comparisons":[178],"structures":[182],"quantitative":[185],"manner,":[186],"demonstrate":[188],"broad":[190],"potential":[191],"novel":[193],"applications":[196],"our":[198],"method.":[199]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":4}],"updated_date":"2026-05-23T08:51:43.019350","created_date":"2025-10-10T00:00:00"}
