{"id":"https://openalex.org/W4323035775","doi":"https://doi.org/10.1093/bib/bbad074","title":"iATMEcell: identification of abnormal tumor microenvironment cells to predict the clinical outcomes in cancer based on cell\u2013cell crosstalk network","display_name":"iATMEcell: identification of abnormal tumor microenvironment cells to predict the clinical outcomes in cancer based on cell\u2013cell crosstalk network","publication_year":2023,"publication_date":"2023-03-01","ids":{"openalex":"https://openalex.org/W4323035775","doi":"https://doi.org/10.1093/bib/bbad074","pmid":"https://pubmed.ncbi.nlm.nih.gov/36864591"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad074","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad074/49560416/bbad074.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad074/49560416/bbad074.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038891581","display_name":"Yuqi Sheng","orcid":null},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuqi Sheng","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103105527","display_name":"Jiashuo Wu","orcid":"https://orcid.org/0009-0002-8126-1984"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiashuo Wu","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101848814","display_name":"Xiangmei Li","orcid":"https://orcid.org/0000-0002-3871-8566"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangmei Li","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072601261","display_name":"Jiayue Qiu","orcid":"https://orcid.org/0009-0000-3475-9881"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiayue Qiu","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010299601","display_name":"Ji Li","orcid":"https://orcid.org/0000-0001-6684-9937"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ji Li","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080758719","display_name":"Qinyu Ge","orcid":"https://orcid.org/0000-0002-1708-1949"},"institutions":[{"id":"https://openalex.org/I76569877","display_name":"Southeast University","ror":"https://ror.org/04ct4d772","country_code":"CN","type":"education","lineage":["https://openalex.org/I76569877"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qinyu Ge","raw_affiliation_strings":["College of School of Biological Science & Medical Engineering, Southeast University , Nanjing 210096, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of School of Biological Science & Medical Engineering, Southeast University , Nanjing 210096, China","institution_ids":["https://openalex.org/I76569877"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052382857","display_name":"Liang Cheng","orcid":"https://orcid.org/0000-0002-6665-6710"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Liang Cheng","raw_affiliation_strings":["College of Bioinformatics Science and Technology, NHC Key Laboratory of Molecular Probes and Targeted Diagnosis and Therapy, Harbin Medical University , Harbin 150081, China"],"raw_orcid":"https://orcid.org/0000-0002-6665-6710","affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, NHC Key Laboratory of Molecular Probes and Targeted Diagnosis and Therapy, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050941029","display_name":"Junwei Han","orcid":"https://orcid.org/0000-0002-3276-0819"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Junwei Han","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China"],"raw_orcid":"https://orcid.org/0000-0002-3276-0819","affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University , Harbin 150081, China","institution_ids":["https://openalex.org/I156144747"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5050941029","https://openalex.org/A5052382857","https://openalex.org/A5080758719"],"corresponding_institution_ids":["https://openalex.org/I156144747","https://openalex.org/I76569877"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.1433,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.5628443,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"24","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","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/T11289","display_name":"Single-cell and spatial transcriptomics","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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory 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/T11313","display_name":"Immune cells in cancer","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/tumor-microenvironment","display_name":"Tumor microenvironment","score":0.7522348165512085},{"id":"https://openalex.org/keywords/crosstalk","display_name":"Crosstalk","score":0.6704696416854858},{"id":"https://openalex.org/keywords/cancer-cell","display_name":"Cancer cell","score":0.5609174370765686},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.5544165372848511},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.49513188004493713},{"id":"https://openalex.org/keywords/bladder-cancer","display_name":"Bladder cancer","score":0.4907158613204956},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4756564497947693},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.47105738520622253},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.4635426700115204},{"id":"https://openalex.org/keywords/immunotherapy","display_name":"Immunotherapy","score":0.4598439931869507},{"id":"https://openalex.org/keywords/cell-type","display_name":"Cell type","score":0.4271852970123291},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.41318532824516296},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.40251827239990234},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2616327702999115},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.23349344730377197},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12228584289550781},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.11287891864776611}],"concepts":[{"id":"https://openalex.org/C2776107976","wikidata":"https://www.wikidata.org/wiki/Q1786433","display_name":"Tumor microenvironment","level":3,"score":0.7522348165512085},{"id":"https://openalex.org/C169822122","wikidata":"https://www.wikidata.org/wiki/Q230187","display_name":"Crosstalk","level":2,"score":0.6704696416854858},{"id":"https://openalex.org/C96232424","wikidata":"https://www.wikidata.org/wiki/Q4118072","display_name":"Cancer cell","level":3,"score":0.5609174370765686},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.5544165372848511},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.49513188004493713},{"id":"https://openalex.org/C2780352672","wikidata":"https://www.wikidata.org/wiki/Q504775","display_name":"Bladder cancer","level":3,"score":0.4907158613204956},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4756564497947693},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.47105738520622253},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.4635426700115204},{"id":"https://openalex.org/C2777701055","wikidata":"https://www.wikidata.org/wiki/Q1427096","display_name":"Immunotherapy","level":3,"score":0.4598439931869507},{"id":"https://openalex.org/C189014844","wikidata":"https://www.wikidata.org/wiki/Q189118","display_name":"Cell type","level":3,"score":0.4271852970123291},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.41318532824516296},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.40251827239990234},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2616327702999115},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.23349344730377197},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12228584289550781},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11287891864776611},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001749","descriptor_name":"Urinary Bladder Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002295","descriptor_name":"Carcinoma, Transitional Cell","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002295","descriptor_name":"Carcinoma, Transitional Cell","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002295","descriptor_name":"Carcinoma, Transitional Cell","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002468","descriptor_name":"Cell Physiological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002468","descriptor_name":"Cell Physiological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002468","descriptor_name":"Cell Physiological Phenomena","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":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad074","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad074/49560416/bbad074.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":"pmid:36864591","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36864591","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":null}],"best_oa_location":{"id":"doi:10.1093/bib/bbad074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad074","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad074/49560416/bbad074.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":[{"display_name":"Good health and well-being","score":0.4099999964237213,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G3319416352","display_name":null,"funder_award_id":"LH2019C042","funder_id":"https://openalex.org/F4320323085","funder_display_name":"Natural Science Foundation of Heilongjiang Province"},{"id":"https://openalex.org/G8334150891","display_name":"\u57fa\u4e8e\u751f\u7269\u5b66\u901a\u8def\u7f51\u7edc\u7684\u764c\u75c7\u6807\u5fd7\u7269\u8bc6\u522b\u65b9\u6cd5\u7814\u7a76","funder_award_id":"62072145","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/F4320323085","display_name":"Natural Science Foundation of Heilongjiang Province","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4323035775.pdf","grobid_xml":"https://content.openalex.org/works/W4323035775.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1966107523","https://openalex.org/W1985987855","https://openalex.org/W2018019754","https://openalex.org/W2025381786","https://openalex.org/W2028433016","https://openalex.org/W2033278321","https://openalex.org/W2042699075","https://openalex.org/W2103017472","https://openalex.org/W2107752337","https://openalex.org/W2110065044","https://openalex.org/W2119220491","https://openalex.org/W2130410032","https://openalex.org/W2142263069","https://openalex.org/W2149199519","https://openalex.org/W2267272211","https://openalex.org/W2332292689","https://openalex.org/W2412807977","https://openalex.org/W2533508881","https://openalex.org/W2574604975","https://openalex.org/W2785803176","https://openalex.org/W2793589490","https://openalex.org/W2810104866","https://openalex.org/W2886498337","https://openalex.org/W2907190362","https://openalex.org/W2908139053","https://openalex.org/W2945863457","https://openalex.org/W2949273159","https://openalex.org/W2950477675","https://openalex.org/W2951946508","https://openalex.org/W2952001873","https://openalex.org/W2952406594","https://openalex.org/W2990290813","https://openalex.org/W3005889306","https://openalex.org/W3007935255","https://openalex.org/W3047176562","https://openalex.org/W3083159190","https://openalex.org/W3097228396","https://openalex.org/W3099810371","https://openalex.org/W3119002363","https://openalex.org/W3122303253","https://openalex.org/W3183142599","https://openalex.org/W3214450571","https://openalex.org/W4224120598","https://openalex.org/W6675471023","https://openalex.org/W6732186591","https://openalex.org/W6735527966","https://openalex.org/W6770815098"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W4388386498","https://openalex.org/W2167472940","https://openalex.org/W2028462563","https://openalex.org/W2622826586","https://openalex.org/W2942994004","https://openalex.org/W2982720988","https://openalex.org/W4280525841","https://openalex.org/W3008241868","https://openalex.org/W4317802300"],"abstract_inverted_index":{"Interactions":[0],"between":[1,112],"Tumor":[2],"microenvironment":[3],"(TME)":[4],"cells":[5,56,113,168,191,213,231],"shape":[6],"the":[7,16,34,53,59,71,99,110,121,145,196,227],"unique":[8],"growth":[9,13],"environment,":[10],"sustaining":[11],"tumor":[12,20],"and":[14,84,120,155,173],"causing":[15],"immune":[17,190],"escape":[18],"of":[19,30,36,62,101,125,229],"cells.":[21,39,143],"Nonetheless,":[22],"no":[23],"studies":[24,83],"have":[25],"reported":[26],"a":[27,43,66,91,102,134,181,216,222],"systematic":[28],"analysis":[29],"cellular":[31],"interactions":[32],"in":[33,98,195,232],"identification":[35],"cancer-related":[37],"TME":[38,55,77,142,212,230],"Here,":[40],"we":[41,160,204],"proposed":[42],"novel":[44],"network-based":[45],"computational":[46],"method,":[47,72],"named":[48],"as":[49,237],"iATMEcell,":[50],"to":[51,138,180],"identify":[52,139,165,209],"abnormal":[54,167,189,211],"associated":[57,169],"with":[58,170],"biological":[60,117],"outcome":[61],"interest":[63],"based":[64,214],"on":[65,215,245],"cell-cell":[67,93,217],"crosstalk":[68,94,218],"network.":[69],"In":[70],"iATMEcell":[73,163,176,207,234],"first":[74],"manually":[75],"collected":[76],"cell":[78],"types":[79],"from":[80],"multiple":[81,200],"published":[82],"obtained":[85],"their":[86,116],"corresponding":[87],"gene":[88,126],"signatures.":[89],"Then,":[90],"weighted":[92],"network":[95,135],"was":[96,177],"constructed":[97],"context":[100],"specific":[103],"cancer":[104,146,201],"bulk":[105],"tissue":[106],"transcriptome":[107],"data,":[108],"where":[109],"weight":[111],"reflects":[114],"both":[115],"function":[118],"similarity":[119],"transcriptional":[122],"dysregulated":[123,141],"activities":[124],"signatures":[127],"shared":[128],"by":[129],"them.":[130],"Finally,":[131],"it":[132],"used":[133],"propagation":[136],"algorithm":[137],"significantly":[140],"Using":[144],"genome":[147],"atlas":[148],"(TCGA)":[149],"Bladder":[150],"Urothelial":[151],"Carcinoma":[152],"training":[153],"set":[154],"two":[156],"independent":[157],"validation":[158],"sets,":[159],"illustrated":[161],"that":[162,186,206],"could":[164,208],"significant":[166],"patient":[171,197],"survival":[172],"immunotherapy":[174],"response.":[175],"further":[178],"applied":[179],"pan-cancer":[182],"analysis,":[183],"which":[184,220,241],"revealed":[185],"four":[187],"common":[188],"play":[192],"important":[193],"roles":[194],"prognosis":[198],"across":[199],"types.":[202],"Collectively,":[203],"demonstrated":[205],"potentially":[210],"network,":[219],"provided":[221],"new":[223],"insight":[224],"into":[225],"understanding":[226],"effect":[228],"cancer.":[233],"is":[235,242],"developed":[236],"an":[238],"R":[239],"package,":[240],"freely":[243],"available":[244],"GitHub":[246],"(https://github.com/hanjunwei-lab/iATMEcell).":[247]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-06-06T09:05:17.133730","created_date":"2025-10-10T00:00:00"}
