{"id":"https://openalex.org/W4282981672","doi":"https://doi.org/10.1158/1538-7445.am2022-3484","title":"Abstract 3484: Development of a custom high-plex GeoMx digital spatial profiler breast cancer protein biomarker assay","display_name":"Abstract 3484: Development of a custom high-plex GeoMx digital spatial profiler breast cancer protein biomarker assay","publication_year":2022,"publication_date":"2022-06-15","ids":{"openalex":"https://openalex.org/W4282981672","doi":"https://doi.org/10.1158/1538-7445.am2022-3484"},"language":"en","primary_location":{"id":"doi:10.1158/1538-7445.am2022-3484","doi":"https://doi.org/10.1158/1538-7445.am2022-3484","is_oa":false,"landing_page_url":"https://doi.org/10.1158/1538-7445.am2022-3484","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/A5026593581","display_name":"Christopher L. Corless","orcid":"https://orcid.org/0000-0003-4871-8364","observed_orcids":["https://orcid.org/0000-0003-4871-8364"]},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher Corless","raw_affiliation_strings":["1Oregon Health Science University, Portland, OR;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Oregon Health Science University, Portland, OR;","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050943376","display_name":"Amber R. Bridgeman","orcid":"https://orcid.org/0000-0003-0499-3954","observed_orcids":["https://orcid.org/0000-0003-0499-3954"]},"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":"Amber Bridgeman","raw_affiliation_strings":["2Mayo Clinic, Rochester, MN;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2Mayo Clinic, Rochester, MN;","institution_ids":["https://openalex.org/I1330342723"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100447622","display_name":"Jin\u2010Ho Lee","orcid":"https://orcid.org/0000-0002-5877-0222","observed_orcids":["https://orcid.org/0000-0002-5877-0222"]},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jinho Lee","raw_affiliation_strings":["1Oregon Health Science University, Portland, OR;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Oregon Health Science University, Portland, OR;","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009988063","display_name":"Gary K. Geiss","orcid":"https://orcid.org/0009-0007-6969-1494","observed_orcids":["https://orcid.org/0009-0007-6969-1494"]},"institutions":[{"id":"https://openalex.org/I4210099129","display_name":"Nanostring Technologies (United States)","ror":"https://ror.org/00xzdzk88","country_code":"US","type":"company","lineage":["https://openalex.org/I4210099129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gary Geiss","raw_affiliation_strings":["3NanoString Technologies, Seattle, WA;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3NanoString Technologies, Seattle, WA;","institution_ids":["https://openalex.org/I4210099129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082913203","display_name":"Sarah E. Warren","orcid":"https://orcid.org/0000-0001-9465-8636","observed_orcids":["https://orcid.org/0000-0001-9465-8636"]},"institutions":[{"id":"https://openalex.org/I4210099129","display_name":"Nanostring Technologies (United States)","ror":"https://ror.org/00xzdzk88","country_code":"US","type":"company","lineage":["https://openalex.org/I4210099129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarah Warren","raw_affiliation_strings":["3NanoString Technologies, Seattle, WA;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3NanoString Technologies, Seattle, WA;","institution_ids":["https://openalex.org/I4210099129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055807595","display_name":"SE Church","orcid":"https://orcid.org/0000-0002-7194-4282","observed_orcids":["https://orcid.org/0000-0002-7194-4282"]},"institutions":[{"id":"https://openalex.org/I4210099129","display_name":"Nanostring Technologies (United States)","ror":"https://ror.org/00xzdzk88","country_code":"US","type":"company","lineage":["https://openalex.org/I4210099129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarah Church","raw_affiliation_strings":["3NanoString Technologies, Seattle, WA;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3NanoString Technologies, Seattle, WA;","institution_ids":["https://openalex.org/I4210099129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070065201","display_name":"Joseph Beechem","orcid":"https://orcid.org/0000-0001-8372-5899","observed_orcids":["https://orcid.org/0000-0001-8372-5899"]},"institutions":[{"id":"https://openalex.org/I4210099129","display_name":"Nanostring Technologies (United States)","ror":"https://ror.org/00xzdzk88","country_code":"US","type":"company","lineage":["https://openalex.org/I4210099129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joseph M. Beechem","raw_affiliation_strings":["3NanoString Technologies, Seattle, WA;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3NanoString Technologies, Seattle, WA;","institution_ids":["https://openalex.org/I4210099129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026692399","display_name":"E. Aubrey Thompson","orcid":"https://orcid.org/0000-0002-9001-4240","observed_orcids":["https://orcid.org/0000-0002-9001-4240"]},"institutions":[{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"E Aubrey Thompson","raw_affiliation_strings":["4Mayo Clinic, Jacksonville, FL"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"4Mayo Clinic, Jacksonville, FL","institution_ids":["https://openalex.org/I4210146710"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006782806","display_name":"Jodi M. Carter","orcid":"https://orcid.org/0000-0002-5973-0732","observed_orcids":["https://orcid.org/0000-0002-5973-0732"]},"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":"Jodi Carter","raw_affiliation_strings":["2Mayo Clinic, Rochester, MN;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2Mayo Clinic, Rochester, MN;","institution_ids":["https://openalex.org/I1330342723"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"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":"82","issue":"12_Supplement","first_page":"3484","last_page":"3484"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.9442999958992004,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10183","display_name":"Breast Cancer Treatment Studies","score":0.9442999958992004,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.01679999940097332,"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/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.010499999858438969,"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/breast-cancer","display_name":"breast cancer","score":0.9940000176429749},{"id":"https://openalex.org/keywords/protein-biomarkers","display_name":"protein biomarkers","score":0.746999979019165},{"id":"https://openalex.org/keywords/geomx-digital-spatial-profiler","display_name":"GeoMx Digital Spatial Profiler","score":0.9559999704360962},{"id":"https://openalex.org/keywords/spatial-proteomics","display_name":"spatial proteomics","score":0.777999997138977},{"id":"https://openalex.org/keywords/phosphoproteins","display_name":"phosphoproteins","score":0.6899999976158142},{"id":"https://openalex.org/keywords/immune-related-biomarkers","display_name":"immune-related biomarkers","score":0.7070000171661377},{"id":"https://openalex.org/keywords/pd-l1","display_name":"PD-L1","score":0.8690000176429749},{"id":"https://openalex.org/keywords/tp53-mutation","display_name":"TP53 mutation","score":0.5899999737739563},{"id":"https://openalex.org/keywords/her2","display_name":"HER2","score":0.4180000126361847},{"id":"https://openalex.org/keywords/ki-67","display_name":"Ki-67","score":0.8109999895095825},{"id":"https://openalex.org/keywords/estrogen-receptor","display_name":"estrogen receptor","score":0.7480000257492065},{"id":"https://openalex.org/keywords/progesterone-receptor","display_name":"progesterone receptor","score":0.7770000100135803},{"id":"https://openalex.org/keywords/tumor-infiltrating-lymphocytes","display_name":"tumor-infiltrating lymphocytes","score":0.8050000071525574},{"id":"https://openalex.org/keywords/breast-cancer-subtypes","display_name":"breast cancer subtypes","score":0.7599999904632568},{"id":"https://openalex.org/keywords/assay-reproducibility","display_name":"assay reproducibility","score":0.8059999942779541}],"concepts":[{"id":"https://openalex.org/C2781197716","wikidata":"https://www.wikidata.org/wiki/Q864574","display_name":"Biomarker","level":2,"score":0.5824441909790039},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.5364027619361877},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.50352543592453},{"id":"https://openalex.org/C2779012181","wikidata":"https://www.wikidata.org/wiki/Q2750567","display_name":"Cytokeratin","level":3,"score":0.4721522331237793},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.47126221656799316},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.46460670232772827},{"id":"https://openalex.org/C204232928","wikidata":"https://www.wikidata.org/wiki/Q899285","display_name":"Immunohistochemistry","level":2,"score":0.43979012966156006},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.429475873708725},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.3667633533477783},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.3330162763595581},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2861487865447998},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.2236013114452362},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.07886284589767456},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1158/1538-7445.am2022-3484","doi":"https://doi.org/10.1158/1538-7445.am2022-3484","is_oa":false,"landing_page_url":"https://doi.org/10.1158/1538-7445.am2022-3484","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":0.9391000270843506,"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/W3163550517","https://openalex.org/W3179420400","https://openalex.org/W4285822031","https://openalex.org/W4282968298","https://openalex.org/W4362592373","https://openalex.org/W3030308289","https://openalex.org/W2948321041","https://openalex.org/W4283265457","https://openalex.org/W4417265925","https://openalex.org/W2068888804"],"abstract_inverted_index":{"Abstract":[0],"The":[1,34,93,332,350],"goal":[2],"of":[3,53,115,129,147,199,285,335,378,422,438],"this":[4,312],"study":[5],"was":[6,38,118,186],"to":[7,12,40,63],"develop":[8],"a":[9,107,121,240,322,336,382,423],"high-plex":[10,110,219,314,425],"assay":[11,36,111,184,221,316,333,352,434],"simultaneously":[13,364],"quantitate":[14,318],"27":[15,64],"established":[16],"and":[17,24,56,77,84,102,134,154,170,182,191,217,250,293,329,370,375],"novel":[18,383],"breast":[19,282,430],"cancer":[20,131,283,431],"(BC)-related,":[21],"immune":[22,288,376],"protein":[23,66,215,231,247,255,259,319,361,432],"phosphoprotein":[25],"biomarkers":[26,320],"using":[27],"the":[28,51,189,218,366,439],"GeoMx\u00ae":[29],"Digital":[30],"Spatial":[31],"Profiler":[32],"(DSP).":[33],"custom":[35,108,122,220,313,351,424],"performance":[37,89],"compared":[39],"standard":[41],"clinical":[42,138,294],"BC":[43,54,109,139,196,315,379],"biomarker":[44,295,343,367,433],"assays":[45],"(e.g.ER,":[46],"PR,":[47,70],"HER2,":[48,71],"Ki67)":[49],"across":[50,321],"spectrum":[52],"subtypes":[55,289],"in":[57,262,345,355,396],"multiple":[58],"laboratories.":[59,228],"Commercially":[60],"available":[61],"antibodies":[62,95],"BC-related":[65],"biomarkers,":[67],"including":[68,243],"ER,":[69],"Ki-67,":[72],"AR,":[73],"immune-related":[74],"(e.g.":[75,206,290,297],"PD-L1)":[76],"several":[78],"cell":[79,132],"cycle/proliferation":[80],"markers":[81],"were":[82,96,164,176,260],"oligonucleotide-tagged,":[83],"verified":[85],"by":[86],"immunohistochemistry":[87],"for":[88,112,179,213,257,385,394,442],"against":[90],"untagged":[91],"antibodies.":[92],"tagged":[94],"combined":[97],"with":[98,172,188,235,264,270,279,326,347,357],"3":[99,226],"isotype":[100],"controls":[101],"2":[103],"housekeeping":[104],"proteins":[105,200],"into":[106,150],"DSP.":[113],"Confirmation":[114],"target":[116,373],"specificity":[117],"done":[119],"on":[120,239],"tissue":[123,339],"microarray":[124],"(TMA)":[125],"(Run":[126],"control)":[127],"composed":[128],"(un)treated":[130],"lines":[133],"normal":[135],"tissues.":[136],"For":[137,252,389],"samples,":[140],"each":[141,167],"biopsy":[142],"had":[143],"4x600":[144],"\u00b5m":[145],"regions":[146],"interest":[148],"segmented":[149],"pan-Cytokeratin+":[151],"tumoral":[152],"epithelium":[153],"pan-Cytokeratin-":[155],"adjacent":[156],"stroma":[157],"segments.":[158],"With":[159],"targeted":[160,359],"UV":[161],"light,":[162],"oligonucleotides":[163],"collected":[165],"from":[166,195],"segment":[168],"sequentially":[169],"quantitated":[171],"nCounter.":[173],"Raw":[174],"counts":[175,256],"geomean":[177],"normalized":[178],"analysis.":[180],"Intra-site":[181],"inter-site":[183],"reproducibility":[185,203],"assessed":[187],"TMA":[190],"serial":[192],"FFPE":[193],"sections":[194],"biopsies.":[197],"Quantitation":[198],"showed":[201,222],"high":[202,299,327],"within":[204],"sites":[205],"Run":[207,210],"1":[208],"v.":[209],"2,":[211],"p>0.05":[212],"all":[214],"targets)":[216],"good":[223],"concordance":[224],"between":[225],"participating":[227],"GeoMx":[229,426],"DSP-derived":[230],"data":[232,309],"correlated":[233],"well":[234],"orthogonal":[236],"methodologies":[237],"performed":[238],"sample":[241,275],"subset":[242],"immunohistochemistry,":[244],"reverse":[245],"phase":[246],"array,":[248],"DNA":[249],"RNA-sequencing.":[251],"example,":[253],"DSP":[254,360],"p53":[258],"higher":[261],"tumors":[263],"TP53":[265,272],"point":[266],"mutation":[267],"than":[268],"those":[269],"truncating":[271],"alterations.":[273],"Expanded":[274],"testing":[276],"is":[277],"underway":[278],"120":[280],"well-characterized":[281],"biopsies":[284,346],"various":[286],"histologies,":[287],"TIL":[291],"scores)":[292],"phenotypes":[296],"ER+/HER2-/Ki-67":[298,301],"BC;":[300,303,305],"low":[302],"HER2+":[304],"ER-/PR-/HER2-":[306],"BC).Our":[307],"preliminary":[308],"demonstrate":[310],"that":[311],"can":[317,363],"wide":[323],"dynamic":[324],"range":[325],"intra-lab":[328],"inter-lab":[330],"reproducibility.":[331],"requirement":[334],"single":[337],"5-\u00b5m":[338],"section":[340],"facilitates":[341],"complex":[342],"profiling":[344],"limited":[348],"material.":[349],"alone":[353],"or":[354],"combination":[356],"other":[358,371],"modules":[362],"interrogate":[365],"profile,":[368,374],"immune-based":[369],"drug":[372],"microenvironment":[377],"specimens,":[380],"providing":[381],"approach":[384],"actionable":[386],"tumor":[387],"subtyping.":[388],"research":[390],"use":[391,395],"only.":[392],"Not":[393],"diagnostic":[397],"procedures.":[398],"Citation":[399],"Format:":[400],"Christopher":[401],"Corless,":[402],"Amber":[403],"Bridgeman,":[404],"Jinho":[405],"Lee,":[406],"Gary":[407],"Geiss,":[408],"Sarah":[409,411],"Warren,":[410],"Church,":[412],"Joseph":[413],"M.":[414],"Beechem,":[415],"E":[416],"Aubrey":[417],"Thompson,":[418],"Jodi":[419],"Carter.":[420],"Development":[421],"digital":[427],"spatial":[428],"profiler":[429],"[abstract].":[435],"In:":[436],"Proceedings":[437],"American":[440],"Association":[441],"Cancer":[443,454],"Research":[444],"Annual":[445],"Meeting":[446],"2022;":[447],"2022":[448],"Apr":[449],"8-13.":[450],"Philadelphia":[451],"(PA):":[452],"AACR;":[453],"Res":[455],"2022;82(12_Suppl):Abstract":[456],"nr":[457],"3484.":[458]},"counts_by_year":[],"updated_date":"2026-10-06T10:28:23.643775","created_date":"2022-06-17T00:00:00"}
