{"id":"https://openalex.org/W4402253383","doi":"https://doi.org/10.1093/bioinformatics/btae387","title":"Multi-modal contrastive learning of subcellular organization using DICE","display_name":"Multi-modal contrastive learning of subcellular organization using DICE","publication_year":2024,"publication_date":"2024-09-01","ids":{"openalex":"https://openalex.org/W4402253383","doi":"https://doi.org/10.1093/bioinformatics/btae387","pmid":"https://pubmed.ncbi.nlm.nih.gov/39230695"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae387","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae387","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/Supplement_2/ii105/60177170/btae387.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/article-pdf/40/Supplement_2/ii105/60177170/btae387.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073161050","display_name":"Rami Nasser","orcid":"https://orcid.org/0000-0003-2670-6856"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Rami Nasser","raw_affiliation_strings":["School of Computer Science, Tel Aviv University , Tel Aviv 69978,","School of Computer Science, Tel Aviv University , Tel Aviv 69978, Israel"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Tel Aviv University , Tel Aviv 69978,","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"School of Computer Science, Tel Aviv University , Tel Aviv 69978, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037153498","display_name":"Leah V. Schaffer","orcid":"https://orcid.org/0000-0001-6339-9141"},"institutions":[{"id":"https://openalex.org/I160856358","display_name":"University of San Diego","ror":"https://ror.org/03jbbze48","country_code":"US","type":"education","lineage":["https://openalex.org/I160856358"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Leah V Schaffer","raw_affiliation_strings":["Department of Medicine, University of California, San Diego , San Diego, CA 92037,","Department of Medicine, University of California, San Diego , San Diego, CA 92037, United States"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego , San Diego, CA 92037,","institution_ids":["https://openalex.org/I36258959","https://openalex.org/I160856358"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego , San Diego, CA 92037, United States","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089373684","display_name":"Trey Ideker","orcid":"https://orcid.org/0000-0002-1708-8454"},"institutions":[{"id":"https://openalex.org/I160856358","display_name":"University of San Diego","ror":"https://ror.org/03jbbze48","country_code":"US","type":"education","lineage":["https://openalex.org/I160856358"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I4210133661","display_name":"La Jolla Bioengineering Institute","ror":"https://ror.org/03sgbh608","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210133661"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Trey Ideker","raw_affiliation_strings":["Department of Bioengineering, University of California, San Diego , San Diego, CA 92037,","Department of Computer Science and Engineering, University of California, San Diego , San Diego, CA 92037,","Department of Medicine, University of California, San Diego , San Diego, CA 92037,","Moores Cancer Center, University of California, San Diego , San Diego, CA 92037,","Department of Bioengineering, University of California, San Diego , San Diego, CA 92037, United States","Moores Cancer Center, University of California, San Diego , San Diego, CA 92037, United States","Department of Medicine, University of California, San Diego , San Diego, CA 92037, United States","Department of Computer Science and Engineering, University of California, San Diego , San Diego, CA 92037, United States"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego , San Diego, CA 92037,","institution_ids":["https://openalex.org/I4210133661","https://openalex.org/I160856358","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of California, San Diego , San Diego, CA 92037,","institution_ids":["https://openalex.org/I160856358","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego , San Diego, CA 92037,","institution_ids":["https://openalex.org/I36258959","https://openalex.org/I160856358"]},{"raw_affiliation_string":"Moores Cancer Center, University of California, San Diego , San Diego, CA 92037,","institution_ids":["https://openalex.org/I160856358","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego , San Diego, CA 92037, United States","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Moores Cancer Center, University of California, San Diego , San Diego, CA 92037, United States","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego , San Diego, CA 92037, United States","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of California, San Diego , San Diego, CA 92037, United States","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046958549","display_name":"Roded Sharan","orcid":"https://orcid.org/0000-0001-8363-4882"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Roded Sharan","raw_affiliation_strings":["School of Computer Science, Tel Aviv University , Tel Aviv 69978,","School of Computer Science, Tel Aviv University , Tel Aviv 69978, Israel"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Tel Aviv University , Tel Aviv 69978,","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"School of Computer Science, Tel Aviv University , Tel Aviv 69978, Israel","institution_ids":["https://openalex.org/I16391192"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5073161050"],"corresponding_institution_ids":["https://openalex.org/I16391192"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.9434,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.87911509,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":97},"biblio":{"volume":"40","issue":"Supplement_2","first_page":"ii105","last_page":"ii110"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.9991999864578247,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9927999973297119,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.7714850902557373},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.6333249807357788},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.6125799417495728},{"id":"https://openalex.org/keywords/dice","display_name":"Dice","score":0.6018607020378113},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5600162744522095},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5390334725379944},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.4881463944911957},{"id":"https://openalex.org/keywords/modality","display_name":"Modality (human\u2013computer interaction)","score":0.4513520300388336},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4465588331222534},{"id":"https://openalex.org/keywords/modal","display_name":"Modal","score":0.41898268461227417},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.382146418094635},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.34479236602783203}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7714850902557373},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.6333249807357788},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.6125799417495728},{"id":"https://openalex.org/C22029948","wikidata":"https://www.wikidata.org/wiki/Q45089","display_name":"Dice","level":2,"score":0.6018607020378113},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5600162744522095},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5390334725379944},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.4881463944911957},{"id":"https://openalex.org/C2780226545","wikidata":"https://www.wikidata.org/wiki/Q6888030","display_name":"Modality (human\u2013computer interaction)","level":2,"score":0.4513520300388336},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4465588331222534},{"id":"https://openalex.org/C71139939","wikidata":"https://www.wikidata.org/wiki/Q910194","display_name":"Modal","level":2,"score":0.41898268461227417},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.382146418094635},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.34479236602783203},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C188027245","wikidata":"https://www.wikidata.org/wiki/Q750446","display_name":"Polymer chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","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":"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btae387","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae387","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/Supplement_2/ii105/60177170/btae387.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:39230695","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39230695","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:escholarship.org:ark:/13030/qt2zb1g6qm","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/2zb1g6qm","pdf_url":"https://escholarship.org/content/qt2zb1g6qm/qt2zb1g6qm.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"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, vol 40, iss Supplement_2","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11520230","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11520230","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11520230/pdf/btae387.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"},{"id":"pmh:ark:/13030/qt2zb1g6qm","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae387","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae387","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/Supplement_2/ii105/60177170/btae387.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":[],"awards":[{"id":"https://openalex.org/G1123579692","display_name":null,"funder_award_id":"2417/20","funder_id":"https://openalex.org/F4320322252","funder_display_name":"Israel Science Foundation"},{"id":"https://openalex.org/G3713180151","display_name":null,"funder_award_id":"OD032742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4403456761","display_name":null,"funder_award_id":"Bridge2AI","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4422929969","display_name":null,"funder_award_id":"OT2OD032742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6345853531","display_name":null,"funder_award_id":"unknown","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G698973238","display_name":null,"funder_award_id":"1OT2OD032742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4026159580","display_name":"Schmidt Futures","ror":null},{"id":"https://openalex.org/F4320322252","display_name":"Israel Science Foundation","ror":"https://ror.org/04sazxf24"},{"id":"https://openalex.org/F4320322596","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4402253383.pdf","grobid_xml":"https://content.openalex.org/works/W4402253383.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1539811621","https://openalex.org/W2103017472","https://openalex.org/W2128532956","https://openalex.org/W2131681506","https://openalex.org/W2613629789","https://openalex.org/W2912542262","https://openalex.org/W2948012107","https://openalex.org/W2991083105","https://openalex.org/W3099768174","https://openalex.org/W3120513454","https://openalex.org/W3157357317","https://openalex.org/W3215994910","https://openalex.org/W4205341153","https://openalex.org/W4220675433","https://openalex.org/W4243979784","https://openalex.org/W4294216483","https://openalex.org/W4300861664","https://openalex.org/W4382931091","https://openalex.org/W6763416564","https://openalex.org/W6854245020"],"related_works":["https://openalex.org/W3104750253","https://openalex.org/W3021239166","https://openalex.org/W2586273397","https://openalex.org/W2390936256","https://openalex.org/W2483429559","https://openalex.org/W2016385589","https://openalex.org/W2009559548","https://openalex.org/W4366341510","https://openalex.org/W2906397153","https://openalex.org/W627697492"],"abstract_inverted_index":{"The":[0],"data":[1,40,57,71,94,111,115,125],"deluge":[2],"in":[3,32,117],"biology":[4],"calls":[5],"for":[6,46,55,92],"computational":[7],"approaches":[8,54],"that":[9,42,133],"can":[10,43],"integrate":[11],"multiple":[12],"datasets":[13],"of":[14,22,27,39,58,105,124],"different":[15,70],"types":[16,60],"to":[17,100],"build":[18],"a":[19,88],"holistic":[20],"view":[21],"biological":[23],"processes":[24],"or":[25],"structures":[26],"interest.":[28],"An":[29],"emerging":[30],"paradigm":[31],"this":[33,98],"domain":[34],"is":[35,65],"the":[36,102,122],"unsupervised":[37],"learning":[38,90],"embeddings":[41],"be":[44],"used":[45],"downstream":[47],"clustering":[48],"and":[49,76,112,131],"classification":[50],"tasks.":[51],"While":[52],"such":[53,73],"integrating":[56,108],"similar":[59],"are":[61],"becoming":[62],"common,":[63],"there":[64],"scarcer":[66],"work":[67],"on":[68],"consolidating":[69],"modalities":[72],"as":[74],"network":[75],"image":[77,114],"information.":[78],"Here,":[79],"we":[80],"introduce":[81],"DICE":[82],"(Data":[83],"Integration":[84],"through":[85],"Contrastive":[86],"Embedding),":[87],"contrastive":[89],"model":[91,99],"multi-modal":[93],"integration.":[95],"We":[96,120],"apply":[97],"study":[101],"subcellular":[103],"organization":[104],"proteins":[106],"by":[107],"protein-protein":[109],"interaction":[110],"protein":[113],"measured":[116],"HEK293":[118],"cells.":[119],"demonstrate":[121],"advantage":[123],"integration":[126,138],"over":[127],"any":[128],"single":[129],"modality":[130],"show":[132],"our":[134],"framework":[135],"outperforms":[136],"previous":[137],"approaches.":[139],"Availability:":[140],"https://github.com/raminass/protein-contrastive":[141],"Contact:":[142],"raminass@gmail.com.":[143]},"counts_by_year":[{"year":2025,"cited_by_count":3}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
