{"id":"https://openalex.org/W4392564548","doi":"https://doi.org/10.1093/bioinformatics/btae138","title":"Identifying TAD-like domains on single-cell Hi-C data by graph embedding and changepoint detection","display_name":"Identifying TAD-like domains on single-cell Hi-C data by graph embedding and changepoint detection","publication_year":2024,"publication_date":"2024-03-01","ids":{"openalex":"https://openalex.org/W4392564548","doi":"https://doi.org/10.1093/bioinformatics/btae138","pmid":"https://pubmed.ncbi.nlm.nih.gov/38449288"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae138","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae138","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae138/56887322/btae138.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae138/56887322/btae138.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102756972","display_name":"Erhu Liu","orcid":"https://orcid.org/0000-0003-3271-0683"},"institutions":[{"id":"https://openalex.org/I148099405","display_name":"Xi'an University of Architecture and Technology","ror":"https://ror.org/04v2j2k71","country_code":"CN","type":"education","lineage":["https://openalex.org/I148099405"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Erhu Liu","raw_affiliation_strings":["School of Information and Control Engineering, Xi'an University of Architecture and Technology , Xi'an 710055, China"],"affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, Xi'an University of Architecture and Technology , Xi'an 710055, China","institution_ids":["https://openalex.org/I148099405"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112907192","display_name":"Hongqiang Lyu","orcid":null},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongqiang Lyu","raw_affiliation_strings":["School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China"],"affiliations":[{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100390805","display_name":"Yuan Liu","orcid":"https://orcid.org/0000-0001-8076-6206"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuan Liu","raw_affiliation_strings":["School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China"],"affiliations":[{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062656355","display_name":"Laiyi Fu","orcid":"https://orcid.org/0000-0001-9086-3982"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Laiyi Fu","raw_affiliation_strings":["School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China"],"affiliations":[{"raw_affiliation_string":"School of Automation Science and Engineering, Faculty of Electronic and Information Engineering, Xi\u2019an Jiaotong University , Xi'an 710049, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100910269","display_name":"Xiaoliang Cheng","orcid":null},"institutions":[{"id":"https://openalex.org/I4210121771","display_name":"First Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/02tbvhh96","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210121771"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoliang Cheng","raw_affiliation_strings":["Department of Pharmacy, The First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi'an 710061, China"],"affiliations":[{"raw_affiliation_string":"Department of Pharmacy, The First Affiliated Hospital of Xi\u2019an Jiaotong University , Xi'an 710061, China","institution_ids":["https://openalex.org/I4210121771"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5102077295","display_name":"Xiaoran Yin","orcid":null},"institutions":[{"id":"https://openalex.org/I4210131893","display_name":"Second Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/03aq7kf18","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210131893"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoran Yin","raw_affiliation_strings":["Department of Oncology, The Second Affiliated Hospital of Xi\u2019an Jiaotong University , Xi'an 710004, China"],"affiliations":[{"raw_affiliation_string":"Department of Oncology, The Second Affiliated Hospital of Xi\u2019an Jiaotong University , Xi'an 710004, China","institution_ids":["https://openalex.org/I4210131893"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5102756972"],"corresponding_institution_ids":["https://openalex.org/I148099405"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.3738,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.79480816,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"40","issue":"3","first_page":null,"last_page":null},"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991000294685364,"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":0.9952999949455261,"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/adjacency-matrix","display_name":"Adjacency matrix","score":0.6582164764404297},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.6575804948806763},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5913543105125427},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4812169373035431},{"id":"https://openalex.org/keywords/adjacency-list","display_name":"Adjacency list","score":0.4768563210964203},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43793830275535583},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.41605573892593384},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3011610805988312},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24509721994400024},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.21240365505218506}],"concepts":[{"id":"https://openalex.org/C180356752","wikidata":"https://www.wikidata.org/wiki/Q727035","display_name":"Adjacency matrix","level":3,"score":0.6582164764404297},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.6575804948806763},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5913543105125427},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4812169373035431},{"id":"https://openalex.org/C110484373","wikidata":"https://www.wikidata.org/wiki/Q264398","display_name":"Adjacency list","level":2,"score":0.4768563210964203},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43793830275535583},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.41605573892593384},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3011610805988312},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24509721994400024},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.21240365505218506}],"mesh":[{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae138","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae138","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae138/56887322/btae138.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38449288","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38449288","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10960928","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10960928","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10960928/pdf/btae138.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae138","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae138","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae138/56887322/btae138.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6600000262260437,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G6324912543","display_name":null,"funder_award_id":"xzy012022087","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G8147005953","display_name":null,"funder_award_id":"2024JC-YBMS-783","funder_id":"https://openalex.org/F4320324173","funder_display_name":"Natural Science Foundation of Shaanxi Province"},{"id":"https://openalex.org/G8951484681","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320324173","display_name":"Natural Science Foundation of Shaanxi Province","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4392564548.pdf"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1859117663","https://openalex.org/W1965863160","https://openalex.org/W1973062929","https://openalex.org/W1975684011","https://openalex.org/W1983100478","https://openalex.org/W2008590575","https://openalex.org/W2039592987","https://openalex.org/W2070021921","https://openalex.org/W2090037139","https://openalex.org/W2117756735","https://openalex.org/W2137601569","https://openalex.org/W2157576490","https://openalex.org/W2161212572","https://openalex.org/W2163412235","https://openalex.org/W2222531233","https://openalex.org/W2227178360","https://openalex.org/W2259938310","https://openalex.org/W2267070684","https://openalex.org/W2295297857","https://openalex.org/W2303393194","https://openalex.org/W2310342073","https://openalex.org/W2345889914","https://openalex.org/W2416744721","https://openalex.org/W2481029670","https://openalex.org/W2528263447","https://openalex.org/W2530292798","https://openalex.org/W2584394140","https://openalex.org/W2592955530","https://openalex.org/W2625231465","https://openalex.org/W2731989040","https://openalex.org/W2738924259","https://openalex.org/W2745865732","https://openalex.org/W2755736028","https://openalex.org/W2769659182","https://openalex.org/W2784063494","https://openalex.org/W2885386724","https://openalex.org/W2889474202","https://openalex.org/W2898514070","https://openalex.org/W2904120442","https://openalex.org/W2909693411","https://openalex.org/W2949773289","https://openalex.org/W2951050465","https://openalex.org/W2969486796","https://openalex.org/W2971932838","https://openalex.org/W2979609478","https://openalex.org/W2996196683","https://openalex.org/W3007651317","https://openalex.org/W3042431393","https://openalex.org/W3121637338","https://openalex.org/W3164534693","https://openalex.org/W3184186335","https://openalex.org/W3207880742","https://openalex.org/W4210385976","https://openalex.org/W4226214329","https://openalex.org/W4246354968","https://openalex.org/W4283156191","https://openalex.org/W6759076821"],"related_works":["https://openalex.org/W4213150077","https://openalex.org/W2369410163","https://openalex.org/W2059018062","https://openalex.org/W2604585036","https://openalex.org/W2078477160","https://openalex.org/W1989103179","https://openalex.org/W1991172810","https://openalex.org/W125803343","https://openalex.org/W2117632582","https://openalex.org/W4388347373"],"abstract_inverted_index":{"scKTLD":[0],"is":[1],"freely":[2],"available":[3],"at":[4],"https://github.com/lhqxinghun/scKTLD.":[5]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
