{"id":"https://openalex.org/W7167266296","doi":"https://doi.org/10.1016/j.jmb.2026.169940","title":"Tesorai Search: Cloud-based Database Search Engine Boosts Identifications for Mass Spectrometry Proteomics With a Pretrained Peptide-spectrum Deep-learning Model","display_name":"Tesorai Search: Cloud-based Database Search Engine Boosts Identifications for Mass Spectrometry Proteomics With a Pretrained Peptide-spectrum Deep-learning Model","publication_year":2026,"publication_date":"2026-07-03","ids":{"openalex":"https://openalex.org/W7167266296","doi":"https://doi.org/10.1016/j.jmb.2026.169940","pmid":"https://pubmed.ncbi.nlm.nih.gov/42398804"},"language":"en","primary_location":{"id":"doi:10.1016/j.jmb.2026.169940","doi":"https://doi.org/10.1016/j.jmb.2026.169940","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.jmb.2026.169940","pdf_url":null,"source":{"id":"https://openalex.org/S46058472","display_name":"Journal of Molecular Biology","issn_l":"0022-2836","issn":["0022-2836","1089-8638"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-140","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Molecular Biology","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.1101/2024.08.19.606805","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050940107","display_name":"Maximilien Burq","orcid":"https://orcid.org/0000-0001-7808-349X","observed_orcids":["https://orcid.org/0000-0001-7808-349X","https://orcid.org/0000-0003-3266-8358"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Maximilien Burq","raw_affiliation_strings":["Tesorai"],"raw_orcid":"https://orcid.org/0000-0001-7808-349X","affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014526672","display_name":"Dejan \u0160tepec","orcid":"https://orcid.org/0000-0002-3051-7030","observed_orcids":["https://orcid.org/0000-0002-3051-7030"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dejan Stepec","raw_affiliation_strings":["Tesorai"],"raw_orcid":"https://orcid.org/0000-0002-3051-7030","affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111302601","display_name":"Juan Restrepo","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210150093","display_name":"Max Planck Institute of Biochemistry","ror":"https://ror.org/04py35477","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210150093"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Juan Restrepo","raw_affiliation_strings":["Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany","institution_ids":["https://openalex.org/I4210150093"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091895240","display_name":"Jure \u017dbontar","orcid":"https://orcid.org/0000-0002-4923-4268","observed_orcids":["https://orcid.org/0000-0002-4923-4268"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jure Zbontar","raw_affiliation_strings":["Tesorai"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029321368","display_name":"Shamil Z. Urazbakhtin","orcid":"https://orcid.org/0000-0002-1538-1745","observed_orcids":["https://orcid.org/0000-0002-1538-1745"]},"institutions":[{"id":"https://openalex.org/I4210150093","display_name":"Max Planck Institute of Biochemistry","ror":"https://ror.org/04py35477","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210150093"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Shamil Urazbakhtin","raw_affiliation_strings":["Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany"],"raw_orcid":"https://orcid.org/0000-0002-1538-1745","affiliations":[{"raw_affiliation_string":"Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany","institution_ids":["https://openalex.org/I4210150093"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113350136","display_name":"Bryan Crampton","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bryan Crampton","raw_affiliation_strings":["Tesorai"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082885858","display_name":"Shivani Tiwary","orcid":"https://orcid.org/0000-0002-5860-1306","observed_orcids":["https://orcid.org/0000-0002-5860-1306"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shivani Tiwary","raw_affiliation_strings":["Tesorai"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5139995498","display_name":"Rehan Chinoy","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rehan Chinoy","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033512570","display_name":"Melissa Miao","orcid":"https://orcid.org/0000-0002-4113-0149","observed_orcids":["https://orcid.org/0000-0002-4113-0149"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Melissa Miao","raw_affiliation_strings":["Tesorai"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033409837","display_name":"J\u00fcergen Cox","orcid":"https://orcid.org/0000-0001-8597-205X","observed_orcids":["https://orcid.org/0000-0001-8597-205X"]},"institutions":[{"id":"https://openalex.org/I4210150093","display_name":"Max Planck Institute of Biochemistry","ror":"https://ror.org/04py35477","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210150093"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Juergen Cox","raw_affiliation_strings":["Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biochemistry Research Group, Max-Planck Institute of Biochemistry, Germany","institution_ids":["https://openalex.org/I4210150093"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028736502","display_name":"Peter Cimerman\u010di\u010d","orcid":"https://orcid.org/0000-0002-2802-7649","observed_orcids":["https://orcid.org/0000-0002-2802-7649"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Peter Cimermancic","raw_affiliation_strings":["Tesorai"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tesorai","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4730,"currency":"USD","value_usd":4730},"apc_paid":null,"fwci":6.8755,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.97799277,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"438","issue":"19","first_page":"169940","last_page":"169940"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.00279999990016222,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.00039999998989515007,"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/peptide-identification","display_name":"peptide identification","score":0.75},{"id":"https://openalex.org/keywords/deep-learning","display_name":"deep learning","score":0.6320000290870667},{"id":"https://openalex.org/keywords/immunopeptidomics","display_name":"immunopeptidomics","score":0.8920000195503235},{"id":"https://openalex.org/keywords/web-server","display_name":"web server","score":0.527999997138977}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5723999738693237},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.5616999864578247},{"id":"https://openalex.org/C48000682","wikidata":"https://www.wikidata.org/wiki/Q5227411","display_name":"Database search engine","level":3,"score":0.5092999935150146},{"id":"https://openalex.org/C97854310","wikidata":"https://www.wikidata.org/wiki/Q19541","display_name":"Search engine","level":2,"score":0.46230000257492065},{"id":"https://openalex.org/C162356407","wikidata":"https://www.wikidata.org/wiki/Q180809","display_name":"Mass spectrometry","level":2,"score":0.4474000036716461},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43130001425743103},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.42809998989105225},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.37619999051094055},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3366999924182892},{"id":"https://openalex.org/C2984717058","wikidata":"https://www.wikidata.org/wiki/Q1789476","display_name":"Reference database","level":2,"score":0.3352000117301941},{"id":"https://openalex.org/C2778160393","wikidata":"https://www.wikidata.org/wiki/Q18670161","display_name":"Mascot","level":2,"score":0.32330000400543213},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.31150001287460327},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.28279998898506165},{"id":"https://openalex.org/C145741570","wikidata":"https://www.wikidata.org/wiki/Q7251534","display_name":"Proteogenomics","level":5,"score":0.2777999937534332},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26420000195503235}],"mesh":[{"descriptor_ui":"D000067917","descriptor_name":"Cloud Computing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057386","descriptor_name":"Search Engine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1016/j.jmb.2026.169940","doi":"https://doi.org/10.1016/j.jmb.2026.169940","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.jmb.2026.169940","pdf_url":null,"source":{"id":"https://openalex.org/S46058472","display_name":"Journal of Molecular Biology","issn_l":"0022-2836","issn":["0022-2836","1089-8638"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-140","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Molecular Biology","raw_type":"journal-article"},{"id":"doi:10.1101/2024.08.19.606805","doi":"https://doi.org/10.1101/2024.08.19.606805","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2024.08.19.606805","pdf_url":null,"source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmid:42398804","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42398804","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,"listed_in":[],"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":"Journal of molecular biology","raw_type":"Journal Article"},{"id":"pmh:oai:pure.mpg.de:item_3727206","doi":null,"is_oa":false,"landing_page_url":"https://hdl.handle.net/21.11116/0000-0013-76CE-F","pdf_url":null,"source":{"id":"https://openalex.org/S4306400654","display_name":"MPG.PuRe (Max Planck Society)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Molecular Biology","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1101/2024.08.19.606805","doi":"https://doi.org/10.1101/2024.08.19.606805","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2024.08.19.606805","pdf_url":null,"source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W1548472460","https://openalex.org/W1971887998","https://openalex.org/W2026465178","https://openalex.org/W2028673251","https://openalex.org/W2030578978","https://openalex.org/W2036321220","https://openalex.org/W2053943711","https://openalex.org/W2074540915","https://openalex.org/W2080752012","https://openalex.org/W2081465448","https://openalex.org/W2089273345","https://openalex.org/W2112078820","https://openalex.org/W2465480251","https://openalex.org/W2555228033","https://openalex.org/W2607310450","https://openalex.org/W2624356059","https://openalex.org/W2724889495","https://openalex.org/W2885621467","https://openalex.org/W2888985586","https://openalex.org/W2908510526","https://openalex.org/W2947763854","https://openalex.org/W2952907530","https://openalex.org/W2970971581","https://openalex.org/W3024570138","https://openalex.org/W3041326933","https://openalex.org/W3043316508","https://openalex.org/W3098600211","https://openalex.org/W3143381592","https://openalex.org/W3151729027","https://openalex.org/W3156888771","https://openalex.org/W3159481202","https://openalex.org/W3161729723","https://openalex.org/W3167897985","https://openalex.org/W3173082674","https://openalex.org/W4225545880","https://openalex.org/W4280560057","https://openalex.org/W4281911083","https://openalex.org/W4289637854","https://openalex.org/W4385298067","https://openalex.org/W4386468617","https://openalex.org/W4387526326","https://openalex.org/W4392878348","https://openalex.org/W4396516765","https://openalex.org/W4396966243","https://openalex.org/W4400140609","https://openalex.org/W4408666051","https://openalex.org/W4409034930","https://openalex.org/W4409681231","https://openalex.org/W4411328567","https://openalex.org/W6944150389","https://openalex.org/W7167583784","https://openalex.org/W7222311566"],"related_works":["https://openalex.org/W4401897938","https://openalex.org/W4401919263","https://openalex.org/W4406104136","https://openalex.org/W3008235000","https://openalex.org/W7056056615","https://openalex.org/W4396882363","https://openalex.org/W4400128015","https://openalex.org/W2947763854","https://openalex.org/W4388213288","https://openalex.org/W3039838000"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":3}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2026-07-04T00:00:00"}