{"id":"https://openalex.org/W4415154697","doi":"https://doi.org/10.1007/978-1-0716-4832-2_6","title":"Identification of Antibody-Cognate Antigens via a High-Throughput, Affinity Chromatography-Based, Shotgun Immunoproteomics Pipeline","display_name":"Identification of Antibody-Cognate Antigens via a High-Throughput, Affinity Chromatography-Based, Shotgun Immunoproteomics Pipeline","publication_year":2025,"publication_date":"2025-10-14","ids":{"openalex":"https://openalex.org/W4415154697","doi":"https://doi.org/10.1007/978-1-0716-4832-2_6","pmid":"https://pubmed.ncbi.nlm.nih.gov/41085620"},"language":"en","primary_location":{"id":"doi:10.1007/978-1-0716-4832-2_6","doi":"https://doi.org/10.1007/978-1-0716-4832-2_6","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-4832-2_6","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"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":"Methods in Molecular Biology","raw_type":"book-chapter"},"volume":{"id":"https://openalex.org/W4415151387","display_name":"Immunoproteomics"},"type":"book-chapter","indexed_in":["crossref","pubmed"],"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/A5047188683","display_name":"Nicholas A. Shortreed","orcid":"https://orcid.org/0000-0001-7504-9210","observed_orcids":["https://orcid.org/0000-0001-7504-9210"]},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicholas A. Shortreed","raw_affiliation_strings":["Mayo Clinic Graduate School of Biomedical Sciences & Department of Immunology, Mayo Clinic, Rochester, MN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mayo Clinic Graduate School of Biomedical Sciences & Department of Immunology, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011519840","display_name":"Kiran Kumar Mangalaparthi","orcid":"https://orcid.org/0000-0002-5791-727X","observed_orcids":["https://orcid.org/0000-0002-5791-727X"]},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kiran K. Mangalaparthi","raw_affiliation_strings":["Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103166065","display_name":"Benjamin J. Madden","orcid":"https://orcid.org/0000-0002-0977-2088","observed_orcids":["https://orcid.org/0000-0002-0977-2088"]},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Benjamin J. Madden","raw_affiliation_strings":["OCSS Proteomics Core, Mayo Clinic, Rochester, MN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"OCSS Proteomics Core, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024268602","display_name":"Akhilesh Pandey","orcid":"https://orcid.org/0000-0001-9943-6127","observed_orcids":["https://orcid.org/0000-0001-9943-6127"]},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723"]},{"id":"https://openalex.org/I164861460","display_name":"Manipal Academy of Higher Education","ror":"https://ror.org/02xzytt36","country_code":"IN","type":"education","lineage":["https://openalex.org/I164861460"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Akhilesh Pandey","raw_affiliation_strings":["Department of Laboratory Medicine and Pathology & Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA","Manipal Academy of Higher Education, Manipal, Karnataka, India"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Laboratory Medicine and Pathology & Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I1330342723"]},{"raw_affiliation_string":"Manipal Academy of Higher Education, Manipal, Karnataka, India","institution_ids":["https://openalex.org/I164861460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002359594","display_name":"Leigh G. Griffiths","orcid":"https://orcid.org/0000-0001-6147-5972","observed_orcids":["https://orcid.org/0000-0001-6147-5972"]},"institutions":[{"id":"https://openalex.org/I1330342723","display_name":"Mayo Clinic","ror":"https://ror.org/02qp3tb03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Leigh G. Griffiths","raw_affiliation_strings":["Department of Cardiovascular Medicine, Mayo Clinic, Rochester, MN, USA. griffiths.leigh@mayo.edu"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cardiovascular Medicine, Mayo Clinic, Rochester, MN, USA. griffiths.leigh@mayo.edu","institution_ids":["https://openalex.org/I1330342723"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5002359594"],"corresponding_institution_ids":["https://openalex.org/I1330342723"],"apc_list":null,"apc_paid":null,"fwci":3.0806,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.90034965,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":93,"max":96},"biblio":{"volume":"2980","issue":null,"first_page":"157","last_page":"187"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9560999870300293,"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":0.9560999870300293,"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/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.027899999171495438,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.00989999994635582,"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/affinity-chromatography","display_name":"affinity chromatography","score":0.921999990940094},{"id":"https://openalex.org/keywords/antibody-antigen-binding","display_name":"antibody-antigen binding","score":0.5699999928474426},{"id":"https://openalex.org/keywords/protein-sample-preparation","display_name":"protein sample preparation","score":0.7260000109672546},{"id":"https://openalex.org/keywords/data-analysis","display_name":"data analysis","score":0.5350000262260437}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7062000036239624},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5662000179290771},{"id":"https://openalex.org/C2781434637","wikidata":"https://www.wikidata.org/wiki/Q486396","display_name":"Shotgun","level":3,"score":0.5479999780654907},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.5440000295639038},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5138999819755554},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.46549999713897705},{"id":"https://openalex.org/C68289359","wikidata":"https://www.wikidata.org/wiki/Q7502514","display_name":"Shotgun proteomics","level":4,"score":0.3280999958515167},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26969999074935913},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2556000053882599},{"id":"https://openalex.org/C193419808","wikidata":"https://www.wikidata.org/wiki/Q1645075","display_name":"Acquired immune system","level":3,"score":0.25440001487731934}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000941","descriptor_name":"Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000941","descriptor_name":"Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000941","descriptor_name":"Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D002846","descriptor_name":"Chromatography, Affinity","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D002846","descriptor_name":"Chromatography, Affinity","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D002846","descriptor_name":"Chromatography, Affinity","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"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":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1007/978-1-0716-4832-2_6","doi":"https://doi.org/10.1007/978-1-0716-4832-2_6","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-4832-2_6","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"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":"Methods in Molecular Biology","raw_type":"book-chapter"},{"id":"pmid:41085620","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41085620","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":"Methods in molecular biology (Clifton, N.J.)","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"sustainable_development_goals_aurora":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W1489366589","https://openalex.org/W1997902072","https://openalex.org/W2031144213","https://openalex.org/W2054167846","https://openalex.org/W2068509160","https://openalex.org/W2078853671","https://openalex.org/W2086055278","https://openalex.org/W2138820253","https://openalex.org/W2139938595","https://openalex.org/W2159394343","https://openalex.org/W2159417117","https://openalex.org/W2295114890","https://openalex.org/W2528760300","https://openalex.org/W2529979227","https://openalex.org/W2620363728","https://openalex.org/W2752126733","https://openalex.org/W2765114823","https://openalex.org/W2790358412","https://openalex.org/W2791731016","https://openalex.org/W2887022196","https://openalex.org/W2921553057","https://openalex.org/W2945679805","https://openalex.org/W3034963480","https://openalex.org/W3103695027","https://openalex.org/W3115281787","https://openalex.org/W3136996466","https://openalex.org/W3205542661","https://openalex.org/W4241518937","https://openalex.org/W4309593122","https://openalex.org/W4319722881","https://openalex.org/W4365811164","https://openalex.org/W4376112749","https://openalex.org/W4398618124"],"related_works":[],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-10-10T09:11:00.788812","created_date":"2025-10-14T00:00:00"}