{"id":"https://openalex.org/W4416034063","doi":"https://doi.org/10.18653/v1/2025.findings-emnlp.978","title":"Biology-Instructions: A Dataset and Benchmark for Multi-Omics Sequence Understanding Capability of Large Language Models","display_name":"Biology-Instructions: A Dataset and Benchmark for Multi-Omics Sequence Understanding Capability of Large Language Models","publication_year":2025,"publication_date":"2025-01-01","ids":{"openalex":"https://openalex.org/W4416034063","doi":"https://doi.org/10.18653/v1/2025.findings-emnlp.978"},"language":null,"primary_location":{"id":"doi:10.18653/v1/2025.findings-emnlp.978","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2025.findings-emnlp.978","pdf_url":"https://aclanthology.org/2025.findings-emnlp.978.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Findings of the Association for Computational Linguistics: EMNLP 2025","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://aclanthology.org/2025.findings-emnlp.978.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103115726","display_name":"Haonan He","orcid":"https://orcid.org/0000-0002-6346-7885"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Haonan He","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078151985","display_name":"Yuchen Ren","orcid":"https://orcid.org/0000-0002-6009-6118"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yuchen Ren","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Yining Tang","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yining Tang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035857292","display_name":"Ziyang Xu","orcid":"https://orcid.org/0009-0008-5334-1155"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ziyang Xu","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111188409","display_name":"Junxian Li","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Junxian Li","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052955078","display_name":"Minghao Yang","orcid":"https://orcid.org/0009-0007-0158-2494"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Minghao Yang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115594538","display_name":"Di Zhang","orcid":"https://orcid.org/0000-0001-5196-4633"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Di Zhang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016013549","display_name":"Yuan Dong","orcid":"https://orcid.org/0009-0003-0484-9095"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yuan Dong","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115595126","display_name":"Tao Chen","orcid":"https://orcid.org/0000-0001-9047-3343"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Tao Chen","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090741524","display_name":"Shufei Zhang","orcid":"https://orcid.org/0000-0002-4614-4718"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shufei Zhang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015853084","display_name":"Yuqiang Li","orcid":"https://orcid.org/0000-0002-1816-5853"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yuqiang Li","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025365324","display_name":"Nanqing Dong","orcid":"https://orcid.org/0000-0001-5014-1993"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nanqing Dong","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087818121","display_name":"Wanli Ouyang","orcid":"https://orcid.org/0000-0002-9163-2761"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wanli Ouyang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112578541","display_name":"Dongzhan Zhou","orcid":"https://orcid.org/0000-0001-6568-5440"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dongzhan Zhou","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5100729333","display_name":"Peng Ye","orcid":"https://orcid.org/0000-0002-4587-8293"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Peng Ye","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"17984","last_page":"18016"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.131400004029274,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.131400004029274,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.12070000171661377,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.08789999783039093,"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/benchmark","display_name":"Benchmark (surveying)","score":0.6863999962806702},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6600000262260437},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.40799999237060547},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.3562999963760376},{"id":"https://openalex.org/keywords/data-modeling","display_name":"Data modeling","score":0.32519999146461487},{"id":"https://openalex.org/keywords/language-model","display_name":"Language model","score":0.31310001015663147}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.6863999962806702},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6600000262260437},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6478000283241272},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5331000089645386},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.40799999237060547},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.3758000135421753},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.3562999963760376},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3522000014781952},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.32519999146461487},{"id":"https://openalex.org/C137293760","wikidata":"https://www.wikidata.org/wiki/Q3621696","display_name":"Language model","level":2,"score":0.31310001015663147},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.29330000281333923},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.28600001335144043},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2786000072956085},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.2727999985218048},{"id":"https://openalex.org/C12426560","wikidata":"https://www.wikidata.org/wiki/Q189569","display_name":"Basis (linear algebra)","level":2,"score":0.26649999618530273}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.18653/v1/2025.findings-emnlp.978","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2025.findings-emnlp.978","pdf_url":"https://aclanthology.org/2025.findings-emnlp.978.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Findings of the Association for Computational Linguistics: EMNLP 2025","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.18653/v1/2025.findings-emnlp.978","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2025.findings-emnlp.978","pdf_url":"https://aclanthology.org/2025.findings-emnlp.978.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Findings of the Association for Computational Linguistics: EMNLP 2025","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4416034063.pdf","grobid_xml":"https://content.openalex.org/works/W4416034063.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"Haonan":[0],"He,":[1],"Yuchen":[2],"Ren,":[3],"Yining":[4],"Tang,":[5],"Ziyang":[6],"Xu,":[7],"Junxian":[8],"Li,":[9,21],"Minghao":[10],"Yang,":[11],"Di":[12],"Zhang,":[13,19],"Yuan":[14],"Dong,":[15,23],"Tao":[16],"Chen,":[17],"Shufei":[18],"Yuqiang":[20],"Nanqing":[22],"Wanli":[24],"Ouyang,":[25],"Dongzhan":[26],"Zhou,":[27],"Peng":[28],"Ye.":[29],"Findings":[30],"of":[31],"the":[32],"Association":[33],"for":[34],"Computational":[35],"Linguistics:":[36],"EMNLP":[37],"2025.":[38,39]},"counts_by_year":[],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-11-08T00:00:00"}
