{"id":"https://openalex.org/W2321714440","doi":"https://doi.org/10.1158/1538-7445.am2012-4742","title":"Abstract 4742: Comprehensive epitope mapping of antibodies against CXCR4 and Claudin-4 by Shotgun Mutagenesis","display_name":"Abstract 4742: Comprehensive epitope mapping of antibodies against CXCR4 and Claudin-4 by Shotgun Mutagenesis","publication_year":2012,"publication_date":"2012-04-01","ids":{"openalex":"https://openalex.org/W2321714440","doi":"https://doi.org/10.1158/1538-7445.am2012-4742","mag":"2321714440"},"language":"en","primary_location":{"id":"doi:10.1158/1538-7445.am2012-4742","doi":"https://doi.org/10.1158/1538-7445.am2012-4742","is_oa":false,"landing_page_url":"https://doi.org/10.1158/1538-7445.am2012-4742","pdf_url":null,"source":{"id":"https://openalex.org/S168522863","display_name":"Cancer Research","issn_l":"0008-5472","issn":["0008-5472","1538-7445"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320273","host_organization_name":"American Association for Cancer Research","host_organization_lineage":["https://openalex.org/P4310320273"],"host_organization_lineage_names":["American Association for Cancer Research"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Cancer Research","raw_type":"journal-article"},"volume":null,"type":"conference-abstract","indexed_in":["crossref"],"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/A5086456097","display_name":"Cheryl Paes","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cheryl Paes","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112235589","display_name":"Joseph B. Rucker","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joseph Rucker","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044601719","display_name":"Yana Thaker","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yana Thaker","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Alex Cameron","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex Cameron","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070848931","display_name":"Ken Maksimchuk","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ken Maksimchuk","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023780575","display_name":"Riley J. Payne","orcid":"https://orcid.org/0000-0002-4179-4746","observed_orcids":["https://orcid.org/0000-0002-4179-4746"]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Riley Payne","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065019518","display_name":"Benjamin J. Doranz","orcid":"https://orcid.org/0000-0002-8245-3083","observed_orcids":["https://orcid.org/0000-0002-8245-3083"]},"institutions":[{"id":"https://openalex.org/I4210140826","display_name":"Integral Molecular (United States)","ror":"https://ror.org/056pdk382","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Benjamin J. Doranz","raw_affiliation_strings":["1Integral Molecular, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Integral Molecular, Philadelphia, PA","institution_ids":["https://openalex.org/I4210140826"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I4210140826"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"72","issue":"8_Supplement","first_page":"4742","last_page":"4742"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.923799991607666,"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"}},"topics":[{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.923799991607666,"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/T11532","display_name":"Chemokine receptors and signaling","score":0.028699999675154686,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.017999999225139618,"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/cxcr4","display_name":"CXCR4","score":0.8059999942779541},{"id":"https://openalex.org/keywords/claudin-4","display_name":"claudin-4","score":0.996999979019165},{"id":"https://openalex.org/keywords/epitope-mapping","display_name":"epitope mapping","score":0.9679999947547913},{"id":"https://openalex.org/keywords/conformational-epitopes","display_name":"conformational epitopes","score":0.8600000143051147},{"id":"https://openalex.org/keywords/membrane-proteins","display_name":"membrane proteins","score":0.6800000071525574},{"id":"https://openalex.org/keywords/g-protein-coupled-receptors","display_name":"G protein-coupled receptors","score":0.8180000185966492},{"id":"https://openalex.org/keywords/extracellular-loop","display_name":"extracellular loop","score":0.5450000166893005},{"id":"https://openalex.org/keywords/electrostatic-interactions","display_name":"electrostatic interactions","score":0.6790000200271606},{"id":"https://openalex.org/keywords/antibody-binding-kinetics","display_name":"antibody binding kinetics","score":0.7960000038146973},{"id":"https://openalex.org/keywords/metastasis","display_name":"metastasis","score":0.7400000095367432},{"id":"https://openalex.org/keywords/tight-junction-proteins","display_name":"tight junction proteins","score":0.8240000009536743},{"id":"https://openalex.org/keywords/epithelial-cancers","display_name":"epithelial cancers","score":0.7149999737739563},{"id":"https://openalex.org/keywords/tumor-markers","display_name":"tumor markers","score":0.6980000138282776},{"id":"https://openalex.org/keywords/therapeutic-target","display_name":"therapeutic target","score":0.40400001406669617},{"id":"https://openalex.org/keywords/cancer-diagnosis","display_name":"cancer diagnosis","score":0.42100000381469727},{"id":"https://openalex.org/keywords/cancer-therapeutics","display_name":"cancer therapeutics","score":0.6690000295639038}],"concepts":[{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.9334741830825806},{"id":"https://openalex.org/C2780632150","wikidata":"https://www.wikidata.org/wiki/Q5160267","display_name":"Conformational epitope","level":4,"score":0.6643199920654297},{"id":"https://openalex.org/C2781241564","wikidata":"https://www.wikidata.org/wiki/Q1347450","display_name":"Epitope mapping","level":4,"score":0.6416581273078918},{"id":"https://openalex.org/C78598654","wikidata":"https://www.wikidata.org/wiki/Q17140316","display_name":"Linear epitope","level":4,"score":0.6313581466674805},{"id":"https://openalex.org/C16318435","wikidata":"https://www.wikidata.org/wiki/Q149299","display_name":"Mutagenesis","level":4,"score":0.5943247675895691},{"id":"https://openalex.org/C542903549","wikidata":"https://www.wikidata.org/wiki/Q422248","display_name":"Monoclonal antibody","level":3,"score":0.5141409039497375},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.46660444140434265},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.455689400434494},{"id":"https://openalex.org/C176944494","wikidata":"https://www.wikidata.org/wiki/Q1415380","display_name":"Point mutation","level":4,"score":0.41289377212524414},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4049913287162781},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.3963029384613037},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.381431519985199},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.32354313135147095},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.29560011625289917},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2237510085105896},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11985766887664795}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1158/1538-7445.am2012-4742","doi":"https://doi.org/10.1158/1538-7445.am2012-4742","is_oa":false,"landing_page_url":"https://doi.org/10.1158/1538-7445.am2012-4742","pdf_url":null,"source":{"id":"https://openalex.org/S168522863","display_name":"Cancer Research","issn_l":"0008-5472","issn":["0008-5472","1538-7445"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320273","host_organization_name":"American Association for Cancer Research","host_organization_lineage":["https://openalex.org/P4310320273"],"host_organization_lineage_names":["American Association for Cancer Research"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Cancer Research","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6240000128746033,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"sustainable_development_goals_aurora":[{"score":0.6899999976158142,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W1976201060","https://openalex.org/W2016904568","https://openalex.org/W1997716307","https://openalex.org/W4309166001","https://openalex.org/W4411851250","https://openalex.org/W1992926767","https://openalex.org/W4410902577","https://openalex.org/W4307383039","https://openalex.org/W3183562319","https://openalex.org/W2139370464"],"abstract_inverted_index":{"Abstract":[0],"Identifying":[1],"antibody":[2,10,65],"epitopes":[3,66,130,148,273],"on":[4,67,141,200],"membrane":[5,34],"proteins":[6,35,69],"can":[7],"help":[8],"differentiate":[9],"binding":[11,186,210],"mechanisms,":[12],"identify":[13,21,120,158],"immunodominant":[14,289],"structures,":[15],"distinguish":[16],"and":[17,20,30,133,157,183,208],"classify":[18],"antibodies,":[19],"cancer":[22],"state-specific":[23],"antigens,":[24],"providing":[25],"valuable":[26],"information":[27],"for":[28,39,62,85,137,225,310],"therapeutic":[29],"diagnostic":[31],"applications.":[32],"However,":[33],"represent":[36],"challenging":[37],"targets":[38],"epitope":[40,163],"mapping":[41,64],"studies":[42],"using":[43],"conventional":[44],"methodologies":[45],"such":[46],"as":[47,287],"X-ray":[48],"crystallography":[49],"or":[50],"peptide":[51],"scanning.":[52],"We":[53,268],"have":[54],"developed":[55],"a":[56,81,87,135,221,229,257],"technology,":[57],"\u2018Shotgun":[58],"Mutagenesis":[59,78],"Epitope":[60],"Mapping\u2019":[61],"rapidly":[63],"structurally-intact":[68],"expressed":[70],"in":[71,112,169,234],"mammalian":[72],"cells.":[73],"Here,":[74],"we":[75,165,219],"applied":[76],"Shotgun":[77],"to":[79,119,155,202,264,278],"create":[80],"comprehensive":[82,222],"mutation":[83,95,223,239],"library":[84,224],"CXCR4,":[86],"GPCR":[88],"associated":[89],"with":[90,101,114,212,245,256],"tumor":[91],"metastasis.":[92],"The":[93,237],"CXCR4":[94,128,146,170,201,213],"library,":[96,240],"which":[97,241],"comprised":[98,242],">700":[99],"clones":[100,244],"2.7x":[102],"coverage":[103,247],"of":[104,106,173,195,248,250,259,291,301,306],"each":[105,249],"the":[107,142,152,192,203,216,226,251,279,302,307],"352":[108],"residues,":[109,176,253],"was":[110,254],"screened":[111,255],"triplicate":[113],"5":[115],"different":[116,261],"anti-CXCR4":[117],"MAbs":[118],"their":[121,185,266],"epitopes.":[122,267],"Our":[123],"analysis":[124],"revealed":[125],"that":[126,274],"all":[127,275],"MAb":[129,147],"were":[131,149],"conformational":[132,272],"showed":[134],"requirement":[136],"charged":[138],"residues":[139,199],"located":[140],"second":[143],"extracellular":[144,282],"loop.":[145],"mapped":[150],"onto":[151],"crystal":[153],"structure":[154],"visualize":[156],"common":[159],"structural":[160],"features.":[161],"Using":[162],"information,":[164],"generated":[166,220],"point":[167],"mutations":[168],"at":[171],"positions":[172],"critical":[174],"contact":[175],"incorporated":[177],"them":[178],"into":[179],"virus-like":[180],"particles":[181],"(\u2018Lipoparticles\u2019)":[182],"measured":[184],"kinetics.":[187],"These":[188],"approaches":[189],"helped":[190],"define":[191],"electrostatic":[193],"contribution":[194],"individual":[196],"amino":[197],"acid":[198],"association":[204],"rate,":[205,207],"dissociation":[206],"overall":[209],"interaction":[211],"MAbs.":[214],"Taking":[215],"same":[217],"approach,":[218],"biomarker":[227],"Claudin-4,":[228],"tight":[230],"junction":[231],"protein":[232],"upregulated":[233],"epithelial":[235],"cancers.":[236],"Claudin-4":[238],">400":[243],"complete":[246],"209":[252],"panel":[258],"7":[260],"anti-Claudin-4":[262],"antibodies":[263],"map":[265,276],"identified":[269],"several":[270],"distinct":[271],"exclusively":[277],"large":[280],"first":[281],"loop,":[283],"identifying":[284],"this":[285],"domain":[286],"an":[288],"region":[290],"claudin-4.":[292],"Citation":[293],"Format:":[294],"{Authors}.":[295],"{Abstract":[296],"title}":[297],"[abstract].":[298],"In:":[299],"Proceedings":[300],"103rd":[303],"Annual":[304],"Meeting":[305],"American":[308],"Association":[309],"Cancer":[311,322],"Research;":[312],"2012":[313],"Mar":[314],"31-Apr":[315],"4;":[316],"Chicago,":[317],"IL.":[318],"Philadelphia":[319],"(PA):":[320],"AACR;":[321],"Res":[323],"2012;72(8":[324],"Suppl):Abstract":[325],"nr":[326],"4742.":[327],"doi:1538-7445.AM2012-4742":[328]},"counts_by_year":[],"updated_date":"2026-09-29T14:09:16.559479","created_date":"2016-06-24T00:00:00"}