{"id":"https://openalex.org/W4404344191","doi":"https://doi.org/10.48550/arxiv.2410.22367","title":"MAMMAL -- Molecular Aligned Multi-Modal Architecture and Language","display_name":"MAMMAL -- Molecular Aligned Multi-Modal Architecture and Language","publication_year":2024,"publication_date":"2024-10-28","ids":{"openalex":"https://openalex.org/W4404344191","doi":"https://doi.org/10.48550/arxiv.2410.22367"},"language":"en","primary_location":{"id":"pmh:oai:arXiv.org:2410.22367","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2410.22367","pdf_url":"https://arxiv.org/pdf/2410.22367","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},"type":"preprint","indexed_in":["arxiv","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2410.22367","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053558899","display_name":"Yoel Shoshan","orcid":"https://orcid.org/0000-0003-4523-4014"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Shoshan, Yoel","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088761751","display_name":"Moshiko Raboh","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Raboh, Moshiko","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018121200","display_name":"Michal Ozery-Flato","orcid":"https://orcid.org/0000-0002-8223-7989"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ozery-Flato, Michal","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091763855","display_name":"Vadim Ratner","orcid":"https://orcid.org/0000-0001-5296-8097"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ratner, Vadim","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045900262","display_name":"Alex Golts","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Golts, Alex","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011490535","display_name":"Jeffrey K. Weber","orcid":"https://orcid.org/0000-0002-5241-9036"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Weber, Jeffrey K.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087885322","display_name":"Ella Barkan","orcid":"https://orcid.org/0000-0001-6521-3873"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Barkan, Ella","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021911163","display_name":"Simona Rabinovici\u2010Cohen","orcid":"https://orcid.org/0009-0007-5677-1380"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rabinovici-Cohen, Simona","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069631276","display_name":"Sagi Polaczek","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Polaczek, Sagi","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114634578","display_name":"Ido Amos","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Amos, Ido","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114634579","display_name":"Ben Shapira","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shapira, Ben","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021187095","display_name":"Liam Hazan","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hazan, Liam","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005633623","display_name":"Matan Ninio","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ninio, Matan","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087766360","display_name":"Sivan Ravid","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ravid, Sivan","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025510459","display_name":"Michael M. Danziger","orcid":"https://orcid.org/0000-0002-2674-0109"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Danziger, Michael M.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072958773","display_name":"Joseph A. Morrone","orcid":"https://orcid.org/0000-0001-8550-4854"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shamay, Yosi","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035539105","display_name":"Parthasarathy Suryanarayanan","orcid":"https://orcid.org/0000-0002-8619-2976"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kurant, Sharon","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003092468","display_name":"Michal Rosen\u2010Zvi","orcid":"https://orcid.org/0000-0001-7616-9724"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Morrone, Joseph A.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049386514","display_name":"Efrat Hexter","orcid":"https://orcid.org/0000-0002-3270-549X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Suryanarayanan, Parthasarathy","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Rosen-Zvi, Michal","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rosen-Zvi, Michal","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":null,"display_name":"Hexter, Efrat","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hexter, Efrat","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":21,"corresponding_author_ids":["https://openalex.org/A5053558899"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12784","display_name":"Modular Robots and Swarm Intelligence","score":0.8662999868392944,"subfield":{"id":"https://openalex.org/subfields/2210","display_name":"Mechanical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12784","display_name":"Modular Robots and Swarm Intelligence","score":0.8662999868392944,"subfield":{"id":"https://openalex.org/subfields/2210","display_name":"Mechanical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12012","display_name":"Diatoms and Algae Research","score":0.8622000217437744,"subfield":{"id":"https://openalex.org/subfields/2502","display_name":"Biomaterials"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12029","display_name":"DNA and Biological Computing","score":0.8156999945640564,"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/mammal","display_name":"Mammal","score":0.7425097823143005},{"id":"https://openalex.org/keywords/architecture","display_name":"Architecture","score":0.6279768347740173},{"id":"https://openalex.org/keywords/modal","display_name":"Modal","score":0.5283893942832947},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4115530848503113},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.3435531258583069},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.30775386095046997},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24075156450271606},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.19189107418060303},{"id":"https://openalex.org/keywords/archaeology","display_name":"Archaeology","score":0.12184125185012817},{"id":"https://openalex.org/keywords/composite-material","display_name":"Composite material","score":0.06820055842399597}],"concepts":[{"id":"https://openalex.org/C2778234026","wikidata":"https://www.wikidata.org/wiki/Q7377","display_name":"Mammal","level":2,"score":0.7425097823143005},{"id":"https://openalex.org/C123657996","wikidata":"https://www.wikidata.org/wiki/Q12271","display_name":"Architecture","level":2,"score":0.6279768347740173},{"id":"https://openalex.org/C71139939","wikidata":"https://www.wikidata.org/wiki/Q910194","display_name":"Modal","level":2,"score":0.5283893942832947},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4115530848503113},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.3435531258583069},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.30775386095046997},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24075156450271606},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.19189107418060303},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.12184125185012817},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.06820055842399597}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:arXiv.org:2410.22367","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2410.22367","pdf_url":"https://arxiv.org/pdf/2410.22367","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"doi:10.48550/arxiv.2410.22367","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2410.22367","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2410.22367","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2410.22367","pdf_url":"https://arxiv.org/pdf/2410.22367","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2987282031","https://openalex.org/W2776070411","https://openalex.org/W2955240268","https://openalex.org/W3047623199","https://openalex.org/W2130952875","https://openalex.org/W376336802","https://openalex.org/W2000643301","https://openalex.org/W2592625095","https://openalex.org/W4395335105"],"abstract_inverted_index":{"Large":[0],"language":[1],"models":[2,24,63],"applied":[3,84],"to":[4,11,39,65,85,144],"vast":[5],"biological":[6,53,95],"datasets":[7,96],"have":[8],"the":[9,135],"potential":[10],"transform":[12],"biology":[13],"by":[14],"uncovering":[15],"disease":[16],"mechanisms":[17],"and":[18,58,78,103,112,118,121,141,168,187,195],"accelerating":[19],"drug":[20,45],"development.":[21],"However,":[22],"current":[23],"are":[25,190],"often":[26],"siloed,":[27],"trained":[28],"separately":[29],"on":[30,124,166],"small-molecules,":[31,102],"proteins,":[32,101],"or":[33],"transcriptomic":[34],"data,":[35],"limiting":[36],"their":[37],"ability":[38],"capture":[40],"complex,":[41],"multi-modal":[42],"interactions.":[43],"Effective":[44],"discovery":[46],"requires":[47],"computational":[48],"tools":[49],"that":[50,91],"integrate":[51],"multiple":[52],"entities":[54],"while":[55,115],"supporting":[56],"prediction":[57,164],"generation,":[59],"a":[60,81,87,131,151],"challenge":[61],"existing":[62],"struggle":[64],"address.":[66],"For":[67],"this":[68],"purpose,":[69],"we":[70,159],"present":[71],"MAMMAL":[72,177],"-":[73,80],"Molecular":[74],"Aligned":[75],"Multi-Modal":[76],"Architecture":[77],"Language":[79],"versatile":[82],"method":[83],"create":[86],"multi-task":[88],"foundation":[89],"model":[90,185],"learns":[92],"from":[93],"large-scale":[94],"across":[97],"diverse":[98,126],"modalities,":[99],"including":[100],"omics.":[104],"MAMMAL's":[105],"structured":[106],"prompt":[107],"syntax":[108],"supports":[109],"classification,":[110],"regression,":[111],"generation":[113],"tasks":[114,140],"handling":[116],"token":[117],"scalar":[119],"inputs":[120],"outputs.":[122],"Evaluated":[123],"eleven":[125],"downstream":[127],"tasks,":[128,148],"it":[129],"reaches":[130],"new":[132],"state":[133],"of":[134,176,181],"art":[136],"(SOTA)":[137],"in":[138,146,178],"nine":[139],"is":[142],"comparable":[143],"SOTA":[145],"two":[147],"all":[149],"within":[150],"unified":[152],"architecture,":[153],"unlike":[154],"prior":[155],"task-specific":[156],"models.":[157],"Additionally,":[158],"explored":[160],"Alphafold":[161],"3":[162,179],"binding":[163],"capabilities":[165],"antibody-antigen":[167],"nanobody-antigen":[169],"complexes":[170],"showing":[171],"significantly":[172],"better":[173],"classification":[174],"performance":[175],"out":[180],"4":[182],"targets.":[183],"The":[184],"code":[186],"pretrained":[188],"weights":[189],"publicly":[191],"available":[192],"at":[193],"https://github.com/BiomedSciAI/biomed-multi-alignment":[194],"https://huggingface.co/ibm/biomed.omics.bl.sm.ma-ted-458m":[196]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2}],"updated_date":"2026-03-03T08:47:05.690250","created_date":"2025-10-10T00:00:00"}
