{"id":"https://openalex.org/W4412410979","doi":"https://doi.org/10.1093/bib/bbag217","title":"GraphLooper: predicting chromatin loops based on hierarchical multi-view graph pooling method","display_name":"GraphLooper: predicting chromatin loops based on hierarchical multi-view graph pooling method","publication_year":2026,"publication_date":"2026-04-17","ids":{"openalex":"https://openalex.org/W4412410979","doi":"https://doi.org/10.1093/bib/bbag217","pmid":"https://pubmed.ncbi.nlm.nih.gov/42114117"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbag217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag217","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbag217","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054096753","display_name":"Siguo Wang","orcid":"https://orcid.org/0000-0002-3244-3629"},"institutions":[{"id":"https://openalex.org/I127108677","display_name":"Eastern Institute of Technology","ror":"https://ror.org/00ct9cz38","country_code":"NZ","type":"education","lineage":["https://openalex.org/I127108677","https://openalex.org/I4387152882"]},{"id":"https://openalex.org/I1284762954","display_name":"Zhejiang A & F University","ror":"https://ror.org/02vj4rn06","country_code":"CN","type":"education","lineage":["https://openalex.org/I1284762954"]},{"id":"https://openalex.org/I4210138433","display_name":"Ninghai County First Hospital","ror":"https://ror.org/03h0b2y74","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210138433"]}],"countries":["CN","NZ"],"is_corresponding":false,"raw_author_name":"Siguo Wang","raw_affiliation_strings":["Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","School of Mathematics and Computer Science, Zhejiang Agriculture and Forestry University , No. 666, Wusu Street, Lin'an District, Hangzhou, Zhejiang 311300 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology"],"raw_orcid":"https://orcid.org/0000-0002-3244-3629","affiliations":[{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","institution_ids":["https://openalex.org/I4210138433"]},{"raw_affiliation_string":"School of Mathematics and Computer Science, Zhejiang Agriculture and Forestry University , No. 666, Wusu Street, Lin'an District, Hangzhou, Zhejiang 311300 ,","institution_ids":["https://openalex.org/I1284762954"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology","institution_ids":["https://openalex.org/I127108677"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054829905","display_name":"Zhipeng Li","orcid":"https://orcid.org/0000-0002-4135-0838"},"institutions":[{"id":"https://openalex.org/I127108677","display_name":"Eastern Institute of Technology","ror":"https://ror.org/00ct9cz38","country_code":"NZ","type":"education","lineage":["https://openalex.org/I127108677","https://openalex.org/I4387152882"]},{"id":"https://openalex.org/I4210138433","display_name":"Ninghai County First Hospital","ror":"https://ror.org/03h0b2y74","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210138433"]}],"countries":["CN","NZ"],"is_corresponding":false,"raw_author_name":"Zhipeng Li","raw_affiliation_strings":["Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","institution_ids":["https://openalex.org/I4210138433"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology","institution_ids":["https://openalex.org/I127108677"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Hailin Feng","orcid":null},"institutions":[{"id":"https://openalex.org/I1284762954","display_name":"Zhejiang A & F University","ror":"https://ror.org/02vj4rn06","country_code":"CN","type":"education","lineage":["https://openalex.org/I1284762954"]},{"id":"https://openalex.org/I4210151294","display_name":"Shandong Women\u2019s University","ror":"https://ror.org/03rp8h078","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210151294"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hailin Feng","raw_affiliation_strings":["School of Mathematics and Computer Science, Zhejiang Agriculture and Forestry University , No. 666, Wusu Street, Lin'an District, Hangzhou, Zhejiang 311300 ,","Shandong Women's University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Mathematics and Computer Science, Zhejiang Agriculture and Forestry University , No. 666, Wusu Street, Lin'an District, Hangzhou, Zhejiang 311300 ,","institution_ids":["https://openalex.org/I1284762954"]},{"raw_affiliation_string":"Shandong Women's University","institution_ids":["https://openalex.org/I4210151294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115601305","display_name":"Zhenhao Guo","orcid":"https://orcid.org/0009-0007-9764-3529"},"institutions":[{"id":"https://openalex.org/I127108677","display_name":"Eastern Institute of Technology","ror":"https://ror.org/00ct9cz38","country_code":"NZ","type":"education","lineage":["https://openalex.org/I127108677","https://openalex.org/I4387152882"]},{"id":"https://openalex.org/I4210151294","display_name":"Shandong Women\u2019s University","ror":"https://ror.org/03rp8h078","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210151294"]}],"countries":["CN","NZ"],"is_corresponding":false,"raw_author_name":"Zhen Cui","raw_affiliation_strings":["School of Data and Computer Science, Shandong Women's University , No. 2, Daxue Road, Changqing District, Jinan, Shandong 250300 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Data and Computer Science, Shandong Women's University , No. 2, Daxue Road, Changqing District, Jinan, Shandong 250300 ,","institution_ids":["https://openalex.org/I4210151294"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology","institution_ids":["https://openalex.org/I127108677"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Zhen-Hao Guo","orcid":"https://orcid.org/0000-0002-1965-6988"},"institutions":[{"id":"https://openalex.org/I127108677","display_name":"Eastern Institute of Technology","ror":"https://ror.org/00ct9cz38","country_code":"NZ","type":"education","lineage":["https://openalex.org/I127108677","https://openalex.org/I4387152882"]},{"id":"https://openalex.org/I4210138433","display_name":"Ninghai County First Hospital","ror":"https://ror.org/03h0b2y74","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210138433"]}],"countries":["CN","NZ"],"is_corresponding":false,"raw_author_name":"Zhen-Hao Guo","raw_affiliation_strings":["Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology"],"raw_orcid":"https://orcid.org/0000-0002-1965-6988","affiliations":[{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","institution_ids":["https://openalex.org/I4210138433"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology","institution_ids":["https://openalex.org/I127108677"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Qi Liao","orcid":"https://orcid.org/0000-0001-6796-104X"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]},{"id":"https://openalex.org/I127108677","display_name":"Eastern Institute of Technology","ror":"https://ror.org/00ct9cz38","country_code":"NZ","type":"education","lineage":["https://openalex.org/I127108677","https://openalex.org/I4387152882"]}],"countries":["CN","NZ"],"is_corresponding":false,"raw_author_name":"Qi Liao","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology and Zhejiang Key Laboratory of Pathophysiology, Health Science Center, Ningbo University , No. 818, Fenghua Road, Jiangbei District, Ningbo, Zhejiang 315211 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology"],"raw_orcid":"https://orcid.org/0000-0001-6796-104X","affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology and Zhejiang Key Laboratory of Pathophysiology, Health Science Center, Ningbo University , No. 818, Fenghua Road, Jiangbei District, Ningbo, Zhejiang 315211 ,","institution_ids":["https://openalex.org/I109935558"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology","institution_ids":["https://openalex.org/I127108677"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Zuquan Hu","orcid":null},"institutions":[{"id":"https://openalex.org/I149137203","display_name":"Guiyang Medical University","ror":"https://ror.org/035y7a716","country_code":"CN","type":"education","lineage":["https://openalex.org/I149137203"]},{"id":"https://openalex.org/I4210109381","display_name":"Affiliated Hospital of Guizhou Medical University","ror":"https://ror.org/02kstas42","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210109381"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zuquan Hu","raw_affiliation_strings":["Collaborative Innovation Center (2011) for Medical and Health Big Data of Guizhou Province, School of Biology and Engineering (School of Modern Industry for Health and Medicine), Guizhou Medical University , University Town, Guian New District, Guiyang, Guizhou 550025 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center (2011) for Medical and Health Big Data of Guizhou Province, School of Biology and Engineering (School of Modern Industry for Health and Medicine), Guizhou Medical University , University Town, Guian New District, Guiyang, Guizhou 550025 ,","institution_ids":["https://openalex.org/I149137203","https://openalex.org/I4210109381"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Wenjian Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I204512498","display_name":"University of Macau","ror":"https://ror.org/01r4q9n85","country_code":"MO","type":"education","lineage":["https://openalex.org/I204512498"]},{"id":"https://openalex.org/I6469544","display_name":"City University of Macau","ror":"https://ror.org/04gpd4q15","country_code":"MO","type":"education","lineage":["https://openalex.org/I6469544"]}],"countries":["MO"],"is_corresponding":false,"raw_author_name":"Wenjian Liu","raw_affiliation_strings":["Faculty of Data Science, City University of Macau, Avenida Padre Tom\u00e1s Pereira, Taipa, Macau 999078, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Data Science, City University of Macau, Avenida Padre Tom\u00e1s Pereira, Taipa, Macau 999078, China","institution_ids":["https://openalex.org/I204512498","https://openalex.org/I6469544"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103099900","display_name":"Qinhu Zhang","orcid":"https://orcid.org/0000-0002-8723-7355"},"institutions":[{"id":"https://openalex.org/I4210138433","display_name":"Ninghai County First Hospital","ror":"https://ror.org/03h0b2y74","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210138433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qinhu Zhang","raw_affiliation_strings":["Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","institution_ids":["https://openalex.org/I4210138433"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060381913","display_name":"De-Shuang Huang","orcid":"https://orcid.org/0000-0002-6759-2691"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]},{"id":"https://openalex.org/I4210138433","display_name":"Ninghai County First Hospital","ror":"https://ror.org/03h0b2y74","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210138433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"De-Shuang Huang","raw_affiliation_strings":["Institute for Regenerative Medicine, Shanghai East Hospital, Tongji University , No. 150, Jimo Road, Pudong New Area, Shanghai 200120 ,","Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Regenerative Medicine, Shanghai East Hospital, Tongji University , No. 150, Jimo Road, Pudong New Area, Shanghai 200120 ,","institution_ids":["https://openalex.org/I4210128175"]},{"raw_affiliation_string":"Ningbo Institute of Digital Twin, Eastern Institute of Technology , No. 299, Donghai Avenue, Zhenhai District, Ningbo, Zhejiang 315200 ,","institution_ids":["https://openalex.org/I4210138433"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":10,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3885,"currency":"USD","value_usd":3885},"apc_paid":{"value":3885,"currency":"USD","value_usd":3885},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.00385207,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9336000084877014,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9336000084877014,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9241999983787537,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9139999747276306,"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/pooling","display_name":"Pooling","score":0.8185927867889404},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6087623834609985},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.5810189247131348},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.49230849742889404},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4076080918312073},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33604735136032104},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.29367268085479736},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23021528124809265},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16853103041648865},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08547484874725342}],"concepts":[{"id":"https://openalex.org/C70437156","wikidata":"https://www.wikidata.org/wiki/Q7228652","display_name":"Pooling","level":2,"score":0.8185927867889404},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6087623834609985},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.5810189247131348},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.49230849742889404},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4076080918312073},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33604735136032104},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.29367268085479736},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23021528124809265},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16853103041648865},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08547484874725342}],"mesh":[{"descriptor_ui":"D000098422","descriptor_name":"Graph Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098422","descriptor_name":"Graph Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098422","descriptor_name":"Graph Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbag217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag217","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"doi:10.21203/rs.3.rs-7099129/v1","is_oa":true,"landing_page_url":"https://doi.org/10.21203/rs.3.rs-7099129/v1","pdf_url":"https://www.researchsquare.com/article/rs-7099129/latest.pdf","source":{"id":"https://openalex.org/S4306525896","display_name":"Research Square","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","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Research Square","raw_type":"posted-content"},{"id":"pmid:42114117","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42114117","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":"Briefings in bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13160423","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13160423/","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbag217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag217","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1141093333","display_name":null,"funder_award_id":"2021JJA170199","funder_id":"https://openalex.org/F4320322768","funder_display_name":"Natural Science Foundation of Guangxi Province"},{"id":"https://openalex.org/G1443002221","display_name":null,"funder_award_id":"62402250","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1857610291","display_name":null,"funder_award_id":"62073231","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5280656057","display_name":null,"funder_award_id":"62372318","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G643023014","display_name":null,"funder_award_id":"62372255","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7699868062","display_name":null,"funder_award_id":"2021JJA170204","funder_id":"https://openalex.org/F4320322768","funder_display_name":"Natural Science Foundation of Guangxi Province"},{"id":"https://openalex.org/G7894669521","display_name":null,"funder_award_id":"U22A2039","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7969017031","display_name":null,"funder_award_id":"2023J199","funder_id":"https://openalex.org/F4320332587","funder_display_name":"Natural Science Foundation of Ningbo"},{"id":"https://openalex.org/G8015351663","display_name":null,"funder_award_id":"62472301","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8194651380","display_name":null,"funder_award_id":"2024J202","funder_id":"https://openalex.org/F4320332587","funder_display_name":"Natural Science Foundation of Ningbo"},{"id":"https://openalex.org/G906490537","display_name":null,"funder_award_id":"62333018","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322272","display_name":"Guizhou Science and Technology Department","ror":"https://ror.org/00kwnh405"},{"id":"https://openalex.org/F4320322768","display_name":"Natural Science Foundation of Guangxi Province","ror":null},{"id":"https://openalex.org/F4320332587","display_name":"Natural Science Foundation of Ningbo","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2953234277","https://openalex.org/W2626256601","https://openalex.org/W147410782","https://openalex.org/W2900413183","https://openalex.org/W3022252430","https://openalex.org/W4390975304","https://openalex.org/W4287804464","https://openalex.org/W4225831698","https://openalex.org/W3198436517","https://openalex.org/W3015684221"],"abstract_inverted_index":{"Chromatin":[0],"loops":[1],"serve":[2],"as":[3],"fundamental":[4],"functional":[5],"units":[6],"of":[7,25,35,52],"three-dimensional":[8],"genome":[9],"organization,":[10],"playing":[11],"pivotal":[12],"roles":[13],"in":[14,134,140],"regulating":[15],"gene":[16,149],"expression":[17],"and":[18,39,50,62,84,137],"maintaining":[19],"genomic":[20],"spatial":[21,148],"organization.":[22],"Accurate":[23],"identification":[24],"these":[26,68],"fine-scale":[27],"structures":[28],"is":[29],"crucial":[30],"for":[31,146],"advancing":[32],"our":[33],"understanding":[34],"cellular":[36],"biological":[37],"processes":[38],"the":[40,47],"mechanisms":[41],"underlying":[42],"disease.":[43],"However,":[44],"due":[45],"to":[46,59,81,101],"inherent":[48],"complexity":[49],"dynamic":[51],"chromatin":[53,105,143],"interactions,":[54],"existing":[55],"methods":[56,133],"often":[57],"fail":[58],"adequately":[60],"characterize":[61],"capture":[63],"multi-dimensional":[64,98],"features.":[65],"To":[66],"address":[67],"limitations,":[69],"we":[70],"introduce":[71],"GraphLooper,":[72],"a":[73,94,103,109],"novel":[74],"framework":[75],"using":[76],"hierarchical":[77,110],"multi-view":[78,111],"graph":[79,112],"pooling":[80,113],"enhance":[82],"training":[83],"inference":[85],"on":[86],"large-scale":[87],"data.":[88],"GraphLooper":[89,130],"transforms":[90],"Hi-C":[91],"data":[92],"into":[93],"graph-structured":[95],"representation,":[96],"integrating":[97],"epigenomic":[99],"features":[100],"construct":[102],"robust":[104],"interaction":[106],"model.":[107],"Employing":[108],"mechanism,":[114],"it":[115],"effectively":[116],"aggregates":[117],"multi-scale":[118],"features,":[119],"enhancing":[120],"representation":[121],"learning.":[122],"Evaluations":[123],"across":[124],"diverse":[125],"cell":[126],"lines":[127],"demonstrate":[128],"that":[129],"outperforms":[131],"state-of-the-art":[132],"prediction":[135],"accuracy":[136],"generalization,":[138],"particularly":[139],"capturing":[141],"long-range":[142],"interactions":[144],"critical":[145],"precise":[147],"regulation.":[150]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
