{"id":"https://openalex.org/W4396966031","doi":"https://doi.org/10.1007/978-1-0716-3989-4_15","title":"Inferring Metabolic States from\u00a0Single Cell Transcriptomic Data via\u00a0Geometric Deep Learning","display_name":"Inferring Metabolic States from\u00a0Single Cell Transcriptomic Data via\u00a0Geometric Deep Learning","publication_year":2024,"publication_date":"2024-01-01","ids":{"openalex":"https://openalex.org/W4396966031","doi":"https://doi.org/10.1007/978-1-0716-3989-4_15"},"language":"en","primary_location":{"id":"doi:10.1007/978-1-0716-3989-4_15","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-3989-4_15","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5016747620","display_name":"Holly R. Steach","orcid":"https://orcid.org/0000-0003-0018-3129"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Holly R. Steach","raw_affiliation_strings":["Department of Genetics, Yale University, New Haven, USA"],"affiliations":[{"raw_affiliation_string":"Department of Genetics, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075945725","display_name":"Siddharth Viswanath","orcid":null},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Siddharth Viswanath","raw_affiliation_strings":["Department of Computer Science, Yale University, New Haven, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088676221","display_name":"Yixuan He","orcid":"https://orcid.org/0000-0003-1865-1699"},"institutions":[{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Yixuan He","raw_affiliation_strings":["Department of Statistics, University of Oxford, Oxford, UK"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084944008","display_name":"Xitong Zhang","orcid":"https://orcid.org/0000-0002-4379-8089"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xitong Zhang","raw_affiliation_strings":["Department of Computational Mathematics, Science, and Engineering, Michigan State University, East Lansing, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computational Mathematics, Science, and Engineering, Michigan State University, East Lansing, USA","institution_ids":["https://openalex.org/I87216513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075202633","display_name":"Natalia Ivanova","orcid":"https://orcid.org/0000-0002-6494-6247"},"institutions":[{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Natalia Ivanova","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA","institution_ids":["https://openalex.org/I165733156"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044875969","display_name":"Matthew Hirn","orcid":"https://orcid.org/0000-0003-0290-4292"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]},{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]},{"id":"https://openalex.org/I120156002","display_name":"Boise State University","ror":"https://ror.org/02e3zdp86","country_code":"US","type":"education","lineage":["https://openalex.org/I120156002"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["GB","US"],"is_corresponding":false,"raw_author_name":"Matthew Hirn","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA","Department of Computational Mathematics, Science, and Engineering, Michigan State University, East Lansing, USA","Department of Computer Science, Yale University, New Haven, USA","Department of Genetics, Yale University, New Haven, USA","Department of Mathematics, Boise State University, Boise, USA","Department of Statistics, University of Oxford, Oxford, UK","Program for Computational Biology and Bioinformatics, Yale University, New Haven, USA","Program in Computing, Boise State University, Boise, USA","Wu Tsai Institute, Yale University, New Haven, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA","institution_ids":["https://openalex.org/I165733156"]},{"raw_affiliation_string":"Department of Computational Mathematics, Science, and Engineering, Michigan State University, East Lansing, USA","institution_ids":["https://openalex.org/I87216513"]},{"raw_affiliation_string":"Department of Computer Science, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Genetics, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Mathematics, Boise State University, Boise, USA","institution_ids":["https://openalex.org/I120156002"]},{"raw_affiliation_string":"Department of Statistics, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I40120149"]},{"raw_affiliation_string":"Program for Computational Biology and Bioinformatics, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Program in Computing, Boise State University, Boise, USA","institution_ids":["https://openalex.org/I120156002"]},{"raw_affiliation_string":"Wu Tsai Institute, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072641931","display_name":"Michael Perlmutter","orcid":"https://orcid.org/0000-0001-9829-4016"},"institutions":[{"id":"https://openalex.org/I120156002","display_name":"Boise State University","ror":"https://ror.org/02e3zdp86","country_code":"US","type":"education","lineage":["https://openalex.org/I120156002"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Perlmutter","raw_affiliation_strings":["Department of Mathematics, Boise State University, Boise, USA","Program in Computing, Boise State University, Boise, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Boise State University, Boise, USA","institution_ids":["https://openalex.org/I120156002"]},{"raw_affiliation_string":"Program in Computing, Boise State University, Boise, USA","institution_ids":["https://openalex.org/I120156002"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5045475274","display_name":"Smita Krishnaswamy","orcid":"https://orcid.org/0000-0001-5823-1985"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Smita Krishnaswamy","raw_affiliation_strings":["Department of Computer Science, Yale University, New Haven, USA","Department of Genetics, Yale University, New Haven, USA","Program for Computational Biology and Bioinformatics, Yale University, New Haven, USA","Wu Tsai Institute, Yale University, New Haven, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Genetics, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Program for Computational Biology and Bioinformatics, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Wu Tsai Institute, Yale University, New Haven, USA","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5016747620"],"corresponding_institution_ids":["https://openalex.org/I32971472"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.15521877,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"235","last_page":"252"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.998199999332428,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.998199999332428,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9904000163078308,"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":0.9882000088691711,"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/computer-science","display_name":"Computer science","score":0.7918320894241333},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.558161199092865},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.46520549058914185},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3214537799358368}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7918320894241333},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.558161199092865},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.46520549058914185},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3214537799358368}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/978-1-0716-3989-4_15","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-3989-4_15","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W1996653842","https://openalex.org/W2029403511","https://openalex.org/W2041715023","https://openalex.org/W2056756011","https://openalex.org/W2078355959","https://openalex.org/W2079296583","https://openalex.org/W2130410032","https://openalex.org/W2747329762","https://openalex.org/W2762019694","https://openalex.org/W2783535973","https://openalex.org/W2789128799","https://openalex.org/W2796026362","https://openalex.org/W2950278928","https://openalex.org/W2963084622","https://openalex.org/W2977164051","https://openalex.org/W2993166334","https://openalex.org/W2993894543","https://openalex.org/W2997699346","https://openalex.org/W3104104151","https://openalex.org/W3174064560","https://openalex.org/W3189930489","https://openalex.org/W3198384913","https://openalex.org/W4210770595","https://openalex.org/W4233698560","https://openalex.org/W4256259619","https://openalex.org/W4297461078"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W3215138031","https://openalex.org/W3009238340","https://openalex.org/W4321369474","https://openalex.org/W4360585206","https://openalex.org/W4285208911","https://openalex.org/W3082895349","https://openalex.org/W4213079790","https://openalex.org/W2248239756","https://openalex.org/W4323565446"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}