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pmid:32724434
Development and validation of a hypoxia-related prognostic signature for breast cancer.
Jianxin Wang · Yuquan Wang · Ping Xing · Qianqi Liu · Cong Zhang · Yang Sui · Changjun Wu
Oncology letters · 2020 doi:10.3892/ol.2020.11733
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Experiment
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Data
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Analysis
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Execution
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Complete file
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However, to the best of our knowledge, a systematic analysis of a hypoxia-related prognostic signature for breast cancer is lacking and is urgently required. Therefore, in the present study, RNA-seq data and clinical information were downloaded from The Cancer Genome Atlas (TCGA) and served as a discovery cohort. Cox proportional hazards regression analysis was performed to construct a 14-gene prognostic signature (PFKL, P4HA2, GRHPR, SDC3, PPP1R15A, SIAH2, NDRG1, BTG1, TPD52, MAFF, ISG20, LALBA, ERRFI1 and VHL). The hypoxia-related signature successfully predicted survival outcomes of the discovery cohort (P<0.001 for the TCGA dataset). Three independent Gene Expression Omnibus databases (GSE10886, GSE20685 and GSE96058) were used as validation cohorts to verify the value of the predictive signature (P=0.007 for GSE10886, P=0.021 for GSE20685, P<0.001 for GSE96058). 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"GSM2529136", "GSM2529137", "GSM2529138", "GSM2529139", "GSM2529140", "GSM2529141", "GSM2529142", "GSM2529143", "GSM2529144", "GSM2529145", "GSM2529146", "GSM2529147", "GSM2529148", "GSM2529149", "GSM2529150", "GSM2529151", "GSM2529152", "GSM2529153", "GSM2529154", "GSM2529155", "GSM2529156", "GSM2529157", "GSM2529158", "GSM2529159", "GSM2529160", "GSM2529161", "GSM2529162", "GSM2529163", "GSM2529164", "GSM2529165", "GSM2529166", "GSM2529167", "GSM2529168", "GSM2529169", "GSM2529170", "GSM2529171", "GSM2529172", "GSM2529173", "GSM2529174", "GSM2529175", "GSM2529176", "GSM2529177", "GSM2529178", "GSM2529179", "GSM2529180", "GSM2529181", "GSM2529182", "GSM2529183", "GSM2529184", "GSM2529185", "GSM2529186", "GSM2529187", "GSM2529188", "GSM2529189", "GSM2529190", "GSM2529191", "GSM2529192", "GSM2529193", "GSM2529194", "GSM2529195", "GSM2529196", "GSM2529197", "GSM2529198", "GSM2529199", "GSM2529200", "GSM2529201", "GSM2529202", "GSM2529203", "GSM2529204", "GSM2529205", "GSM2529206", "GSM2529207", "GSM2529208", "GSM2529209", "GSM2529210", "GSM2529211", "GSM2529212", "GSM2529213", "GSM2529214", "GSM2529215", "GSM2529216", "GSM2529217", "GSM2529218", "GSM2529219", "GSM2529220", "GSM2529221", "GSM2529222", "GSM2529223", "GSM2529224", "GSM2529225", "GSM2529226", "GSM2529227", "GSM2529228", "GSM2529229", "GSM2529230", "GSM2529231", "GSM2529232", "GSM2529233", "GSM2529234", "GSM2529235", "GSM2529236", "GSM2529237", "GSM2529238", "GSM2529239", "GSM2529240", "GSM2529241", "GSM2529242", "GSM2529243", "GSM2529244", "GSM2529245", "GSM2529246", "GSM2529247", "GSM2529248", "GSM2529249", "GSM2529250", "GSM2529251", "GSM2529252", "GSM2529253", "GSM2529254", "GSM2529255", "GSM2529256", "GSM2529257", "GSM2529258", "GSM2529259", "GSM2529260", "GSM2529261", "GSM2529262", "GSM2529263", "GSM2529264", "GSM2529265", "GSM2529266", "GSM2529267", "GSM2529268", "GSM2529269", "GSM2529270", "GSM2529271", "GSM2529272", "GSM2529273", "GSM2529274", "GSM2529275", "GSM2529276", "GSM2529277", "GSM2529278", "GSM2529279", "GSM2529280", "GSM2529281", "GSM2529282", "GSM2529283", "GSM2529284", "GSM2529285", "GSM2529286", "GSM2529287", "GSM2529288", "GSM2529289", "GSM2529290", "GSM2529291", "GSM2529292", "GSM2529293", "GSM2529294", "GSM2529295", "GSM2529296", "GSM2529297", "GSM2529298", "GSM2529299", "GSM2529300", "GSM2529301", "GSM2529302", "GSM2529303", "GSM2529304", "GSM2529305", "GSM2529306", "GSM2529307", "GSM2529308", "GSM2529309", "GSM2529310", "GSM2529311", "GSM2529312", "GSM2529313", "GSM2529314", "GSM2529315", "GSM2529316", "GSM2529317", "GSM2529318", "GSM2529319", "GSM2529320", "GSM2529321", "GSM2529322", "GSM2529323", "GSM2529324", "GSM2529325", "GSM2529326", "GSM2529327", "GSM2529328", "GSM2529329", "GSM2529330", "GSM2529331", "GSM2529332", "GSM2529333", "GSM2529334", "GSM2529335", "GSM2529336", "GSM2529337", "GSM2529338", "GSM2529339", "GSM2529340", "GSM2529341", "GSM2529342", "GSM2529343", "GSM2529344", "GSM2529345", "GSM2529346", "GSM2529347", "GSM2529348", "GSM2529349", "GSM2529350", "GSM2529351", "GSM2529352", "GSM2529353", "GSM2529354", "GSM2529355", "GSM2529356", "GSM2529357", "GSM2529358", "GSM2529359", "GSM2529360", "GSM2529361", "GSM2529362", "GSM2529363", "GSM2529364", "GSM2529365", "GSM2529366", "GSM2529367", "GSM2529368", "GSM2529369", "GSM2529370", "GSM2529371", "GSM2529372", "GSM2529373", "GSM2529374", "GSM2529375", "GSM2529376", "GSM2529377", "GSM2529378", "GSM2529379", "GSM2529380", "GSM2529381", "GSM2529382", "GSM2529383", "GSM2529384", "GSM2529385", "GSM2529386", "GSM2529387", "GSM2529388", "GSM2529389", "GSM2529390", "GSM2529391", "GSM2529392", "GSM2529393", "GSM2529394", "GSM2529395", "GSM2529396", "GSM2529397", "GSM2529398", "GSM2529399", "GSM2529400", "GSM2529401", "GSM2529402", "GSM2529403", "GSM2529404", "GSM2529405", "GSM2529406", "GSM2529407", "GSM2529408", "GSM2529409", "GSM2529410", "GSM2529411", "GSM2529412", "GSM2529413", "GSM2529414", "GSM2529415", "GSM2529416", "GSM2529417", "GSM2529418", "GSM2529419", "GSM2529420", "GSM2529421", "GSM2529422", "GSM2529423", "GSM2529424", "GSM2529425", "GSM2529426", "GSM2529427", "GSM2529428", "GSM2529429", "GSM2529430", "GSM2529431", "GSM2529432", "GSM2529433", "GSM2529434", "GSM2529435", "GSM2529436", "GSM2529437", "GSM2529438", "GSM2529439", "GSM2529440", "GSM2529441", "GSM2529442", "GSM2529443", "GSM2529444", "GSM2529445", "GSM2529446", "GSM2529447", "GSM2529448", "GSM2529449", "GSM2529450", "GSM2529451", "GSM2529452", "GSM2529453", "GSM2529454", "GSM2529455", "GSM2529456", "GSM2529457", "GSM2529458", "GSM2529459", "GSM2529460", "GSM2529461", "GSM2529462", "GSM2529463", "GSM2529464", "GSM2529465", "GSM2529466", "GSM2529467", "GSM2529468", "GSM2529469", "GSM2529470", "GSM2529471", "GSM2529472", "GSM2529473", "GSM2529474", "GSM2529475", "GSM2529476", "GSM2529477", "GSM2529478", "GSM2529479", "GSM2529480", "GSM2529481", "GSM2529482", "GSM2529483", "GSM2529484", "GSM2529485", "GSM2529486", "GSM2529487", "GSM2529488", "GSM2529489", "GSM2529490", "GSM2529491", "GSM2529492", "GSM2529493", "GSM2529494", "GSM2529495", "GSM2529496", "GSM2529497", "GSM2529498", "GSM2529499", "GSM2529500", "GSM2529501", "GSM2529502", "GSM2529503", "GSM2529504", "GSM2529505", "GSM2529506", "GSM2529507", "GSM2529508", "GSM2529509", "GSM2529510", "GSM2529511", "GSM2529512", "GSM2529513", "GSM2529514", "GSM2529515", "GSM2529516", "GSM2529517", "GSM2529518", "GSM2529519", "GSM2529520", "GSM2529521", "GSM2529522", "GSM2529523", "GSM2529524", "GSM2529525", "GSM2529526", "GSM2529527", "GSM2529528", "GSM2529529", "GSM2529530", "GSM2529531", "GSM2529532", "GSM2529533", "GSM2529534", "GSM2529535", "GSM2529536", "GSM2529537", "GSM2529538", "GSM2529539", "GSM2529540", "GSM2529541", "GSM2529542", "GSM2529543", "GSM2529544", "GSM2529545", "GSM2529546", "GSM2529547", "GSM2529548", "GSM2529549", "GSM2529550", "GSM2529551", "GSM2529552", "GSM2529553", "GSM2529554", "GSM2529555", "GSM2529556", "GSM2529557", "GSM2529558", "GSM2529559", "GSM2529560", "GSM2529561", "GSM2529562", "GSM2529563", "GSM2529564", "GSM2529565", "GSM2529566", "GSM2529567", "GSM2529568", "GSM2529569", "GSM2529570", "GSM2529571", "GSM2529572", "GSM2529573", "GSM2529574", "GSM2529575", "GSM2529576", "GSM2529577", "GSM2529578", "GSM2529579", "GSM2529580", "GSM2529581", "GSM2529582", "GSM2529583", "GSM2529584", "GSM2529585", "GSM2529586", "GSM2529587", "GSM2529588", "GSM2529589", "GSM2529590", "GSM2529591", "GSM2529592", "GSM2529593", "GSM2529594", "GSM2529595", "GSM2529596", "GSM2529597", "GSM2529598", "GSM2529599", "GSM2529600", "GSM2529601", "GSM2529602", "GSM2529603", "GSM2529604", "GSM2529605", "GSM2529606", "GSM2529607", "GSM2529608", "GSM2529609", "GSM2529610", "GSM2529611", "GSM2529612", "GSM2529613", "GSM2529614", "GSM2529615", "GSM2529616", "GSM2529617", "GSM2529618", "GSM2529619", "GSM2529620", "GSM2529621", "GSM2529622", "GSM2529623", "GSM2529624", "GSM2529625", "GSM2529626", "GSM2529627", "GSM2529628", "GSM2529629", "GSM2529630", "GSM2529631", "GSM2529632", "GSM2529633", "GSM2529634", "GSM2529635", "GSM2529636", "GSM2529637", "GSM2529638", "GSM2529639", "GSM2529640", "GSM2529641", "GSM2529642", "GSM2529643", "GSM2529644", "GSM2529645", "GSM2529646", "GSM2529647", "GSM2529648", "GSM2529649", "GSM2529650", "GSM2529651", "GSM2529652", "GSM2529653", "GSM2529654", "GSM2529655", "GSM2529656", "GSM2529657", "GSM2529658", "GSM2529659", "GSM2529660", "GSM2529661", "GSM2529662", "GSM2529663", "GSM2529664", "GSM2529665", "GSM2529666", "GSM2529667", "GSM2529668", "GSM2529669", "GSM2529670", "GSM2529671", "GSM2529672", "GSM2529673", "GSM2529674", "GSM2529675", "GSM2529676", "GSM2529677", "GSM2529678", "GSM2529679", "GSM2529680", "GSM2529681", "GSM2529682", "GSM2529683", "GSM2529684", "GSM2529685", "GSM2529686", "GSM2529687", "GSM2529688", "GSM2529689", "GSM2529690", "GSM2529691", "GSM2529692", "GSM2529693", "GSM2529694", "GSM2529695", "GSM2529696", "GSM2529697", "GSM2529698", "GSM2529699", "GSM2529700", "GSM2529701", "GSM2529702", "GSM2529703", "GSM2529704", "GSM2529705", "GSM2529706", "GSM2529707", "GSM2529708", "GSM2529709", "GSM2529710", "GSM2529711", "GSM2529712", "GSM2529713", "GSM2529714", "GSM2529715", "GSM2529716", "GSM2529717", "GSM2529718", "GSM2529719", "GSM2529720", "GSM2529721", "GSM2529722", "GSM2529723", "GSM2529724", "GSM2529725", "GSM2529726", "GSM2529727", "GSM2529728", "GSM2529729", "GSM2529730", "GSM2529731", "GSM2529732", "GSM2529733", "GSM2529734", "GSM2529735", "GSM2529736", "GSM2529737", "GSM2529738", "GSM2529739", "GSM2529740", "GSM2529741", "GSM2529742", "GSM2529743", "GSM2529744", "GSM2529745", "GSM2529746", "GSM2529747", "GSM2529748", "GSM2529749", "GSM2529750", "GSM2529751", "GSM2529752", "GSM2529753", "GSM2529754", "GSM2529755", "GSM2529756", "GSM2529757", "GSM2529758", "GSM2529759", "GSM2529760", "GSM2529761", "GSM2529762", "GSM2529763", "GSM2529764", "GSM2529765", "GSM2529766", "GSM2529767", "GSM2529768", "GSM2529769", "GSM2529770", "GSM2529771", "GSM2529772", "GSM2529773", "GSM2529774", "GSM2529775", "GSM2529776", "GSM2529777", "GSM2529778", "GSM2529779", "GSM2529780", "GSM2529781", "GSM2529782", "GSM2529783", "GSM2529784", "GSM2529785", "GSM2529786", "GSM2529787", "GSM2529788", "GSM2529789", "GSM2529790", "GSM2529791", "GSM2529792", "GSM2529793", "GSM2529794", "GSM2529795", "GSM2529796", "GSM2529797", "GSM2529798", "GSM2529799", "GSM2529800", "GSM2529801", "GSM2529802", "GSM2529803", "GSM2529804", "GSM2529805", "GSM2529806", "GSM2529807", "GSM2529808", "GSM2529809", "GSM2529810", "GSM2529811", "GSM2529812", "GSM2529813", "GSM2529814", "GSM2529815", "GSM2529816", "GSM2529817", "GSM2529818", "GSM2529819", "GSM2529820", "GSM2529821", "GSM2529822", "GSM2529823", "GSM2529824", "GSM2529825", "GSM2529826", "GSM2529827", "GSM2529828", "GSM2529829", "GSM2529830", "GSM2529831", "GSM2529832", "GSM2529833", "GSM2529834", "GSM2529835", "GSM2529836", "GSM2529837", "GSM2529838", "GSM2529839", "GSM2529840", "GSM2529841", "GSM2529842", "GSM2529843", "GSM2529844", "GSM2529845", "GSM2529846", "GSM2529847", "GSM2529848", "GSM2529849", "GSM2529850", "GSM2529851", "GSM2529852", "GSM2529853", "GSM2529854", "GSM2529855", "GSM2529856", "GSM2529857", "GSM2529858", "GSM2529859", "GSM2529860", "GSM2529861", "GSM2529862", "GSM2529863", "GSM2529864", "GSM2529865", "GSM2529866", "GSM2529867", "GSM2529868", "GSM2529869", "GSM2529870", "GSM2529871", "GSM2529872", "GSM2529873", "GSM2529874", "GSM2529875", "GSM2529876", "GSM2529877", "GSM2529878", "GSM2529879", "GSM2529880", "GSM2529881", "GSM2529882", "GSM2529883", "GSM2529884", "GSM2529885", "GSM2529886", "GSM2529887", "GSM2529888", "GSM2529889", "GSM2529890", "GSM2529891", "GSM2529892", "GSM2529893", "GSM2529894", "GSM2529895", "GSM2529896", "GSM2529897", "GSM2529898", "GSM2529899", "GSM2529900", "GSM2529901", "GSM2529902", "GSM2529903", "GSM2529904", "GSM2529905", "GSM2529906", "GSM2529907", "GSM2529908", "GSM2529909", "GSM2529910", "GSM2529911", "GSM2529912", "GSM2529913", "GSM2529914", "GSM2529915", "GSM2529916", "GSM2529917", "GSM2529918", "GSM2529919", "GSM2529920", "GSM2529921", "GSM2529922", "GSM2529923", "GSM2529924", "GSM2529925", "GSM2529926", "GSM2529927", "GSM2529928", "GSM2529929", "GSM2529930", "GSM2529931", "GSM2529932", "GSM2529933", "GSM2529934", "GSM2529935", "GSM2529936", "GSM2529937", "GSM2529938", "GSM2529939", "GSM2529940", "GSM2529941", "GSM2529942", "GSM2529943", "GSM2529944", "GSM2529945", "GSM2529946", "GSM2529947", "GSM2529948", "GSM2529949", "GSM2529950", "GSM2529951", "GSM2529952", "GSM2529953", "GSM2529954", "GSM2529955", "GSM2529956", "GSM2529957", "GSM2529958", "GSM2529959", "GSM2529960", "GSM2529961", "GSM2529962", "GSM2529963", "GSM2529964", "GSM2529965", "GSM2529966", "GSM2529967", "GSM2529968", "GSM2529969", "GSM2529970", "GSM2529971", "GSM2529972", "GSM2529973", "GSM2529974", "GSM2529975", "GSM2529976", "GSM2529977", "GSM2529978", "GSM2529979", "GSM2529980", "GSM2529981", "GSM2529982", "GSM2529983", "GSM2529984", "GSM2529985", "GSM2529986", "GSM2529987", "GSM2529988", "GSM2529989", "GSM2529990", "GSM2529991", "GSM2529992", "GSM2529993", "GSM2529994", "GSM2529995", "GSM2529996", "GSM2529997", "GSM2529998", "GSM2529999", "GSM2530000", "GSM2530001", "GSM2530002", "GSM2530003", "GSM2530004", "GSM2530005", "GSM2530006", "GSM2530007", "GSM2530008", "GSM2530009", "GSM2530010", "GSM2530011", "GSM2530012", "GSM2530013", "GSM2530014", "GSM2530015", "GSM2530016", "GSM2530017", "GSM2530018", "GSM2530019", "GSM2530020", "GSM2530021", "GSM2530022", "GSM2530023", "GSM2530024", "GSM2530025", "GSM2530026", "GSM2530027", "GSM2530028", "GSM2530029", "GSM2530030", "GSM2530031", "GSM2530032", "GSM2530033", "GSM2530034", "GSM2530035", "GSM2530036", "GSM2530037", "GSM2530038", "GSM2530039", "GSM2530040", "GSM2530041", "GSM2530042", "GSM2530043", "GSM2530044", "GSM2530045", "GSM2530046", "GSM2530047", "GSM2530048", "GSM2530049", "GSM2530050", "GSM2530051", "GSM2530052", "GSM2530053", "GSM2530054", "GSM2530055", "GSM2530056", "GSM2530057", "GSM2530058", "GSM2530059", "GSM2530060", "GSM2530061", "GSM2530062", "GSM2530063", "GSM2530064", "GSM2530065", "GSM2530066", "GSM2530067", "GSM2530068", "GSM2530069", "GSM2530070", "GSM2530071", "GSM2530072", "GSM2530073", "GSM2530074", "GSM2530075", "GSM2530076", "GSM2530077", "GSM2530078", "GSM2530079", "GSM2530080", "GSM2530081", "GSM2530082", "GSM2530083", "GSM2530084", "GSM2530085", "GSM2530086", "GSM2530087", "GSM2530088", "GSM2530089", "GSM2530090", "GSM2530091", "GSM2530092", "GSM2530093", "GSM2530094", "GSM2530095", "GSM2530096", "GSM2530097", "GSM2530098", "GSM2530099", "GSM2530100", "GSM2530101", "GSM2530102", "GSM2530103", "GSM2530104", "GSM2530105", "GSM2530106", "GSM2530107", "GSM2530108", "GSM2530109", "GSM2530110", "GSM2530111", "GSM2530112", "GSM2530113", "GSM2530114", "GSM2530115", "GSM2530116", "GSM2530117", "GSM2530118", "GSM2530119", "GSM2530120", "GSM2530121", "GSM2530122", "GSM2530123", "GSM2530124", "GSM2530125", "GSM2530126", "GSM2530127", "GSM2530128", "GSM2530129", "GSM2530130", "GSM2530131", "GSM2530132", "GSM2530133", "GSM2530134", "GSM2530135", "GSM2530136", "GSM2530137", "GSM2530138", "GSM2530139", "GSM2530140", "GSM2530141", "GSM2530142", "GSM2530143", "GSM2530144", "GSM2530145", "GSM2530146", "GSM2530147", "GSM2530148", "GSM2530149", "GSM2530150", "GSM2530151", "GSM2530152", "GSM2530153", "GSM2530154", "GSM2530155", "GSM2530156", "GSM2530157", "GSM2530158", "GSM2530159", "GSM2530160", "GSM2530161", "GSM2530162", "GSM2530163", "GSM2530164", "GSM2530165", "GSM2530166", "GSM2530167", "GSM2530168", "GSM2530169", "GSM2530170", "GSM2530171", "GSM2530172", "GSM2530173", "GSM2530174", "GSM2530175", "GSM2530176", "GSM2530177", "GSM2530178", "GSM2530179", "GSM2530180", "GSM2530181", "GSM2530182", "GSM2530183", "GSM2530184", "GSM2530185", "GSM2530186", "GSM2530187", "GSM2530188", "GSM2530189", "GSM2530190", "GSM2530191", "GSM2530192", "GSM2530193", "GSM2530194", "GSM2530195", "GSM2530196", "GSM2530197", "GSM2530198", "GSM2530199", "GSM2530200", "GSM2530201", "GSM2530202", "GSM2530203", "GSM2530204", "GSM2530205", "GSM2530206", "GSM2530207", "GSM2530208", "GSM2530209", "GSM2530210", "GSM2530211", "GSM2530212", "GSM2530213", "GSM2530214", "GSM2530215", "GSM2530216", "GSM2530217", "GSM2530218", "GSM2530219", "GSM2530220", "GSM2530221", "GSM2530222", "GSM2530223", "GSM2530224", "GSM2530225", "GSM2530226", "GSM2530227", "GSM2530228", "GSM2530229", "GSM2530230", "GSM2530231", "GSM2530232", "GSM2530233", "GSM2530234", "GSM2530235", "GSM2530236", "GSM2530237", "GSM2530238", "GSM2530239", "GSM2530240", "GSM2530241", "GSM2530242", "GSM2530243", "GSM2530244", "GSM2530245", "GSM2530246", "GSM2530247", "GSM2530248", "GSM2530249", "GSM2530250", "GSM2530251", "GSM2530252", "GSM2530253", "GSM2530254", "GSM2530255", "GSM2530256", "GSM2530257", "GSM2530258", "GSM2530259", "GSM2530260", "GSM2530261", "GSM2530262", "GSM2530263", "GSM2530264", "GSM2530265", "GSM2530266", "GSM2530267", "GSM2530268", "GSM2530269", "GSM2530270", "GSM2530271", "GSM2530272", "GSM2530273", "GSM2530274", "GSM2530275", "GSM2530276", "GSM2530277", "GSM2530278", "GSM2530279", "GSM2530280", "GSM2530281", "GSM2530282", "GSM2530283", "GSM2530284", "GSM2530285", "GSM2530286", "GSM2530287", "GSM2530288", "GSM2530289", "GSM2530290", "GSM2530291", "GSM2530292", "GSM2530293", "GSM2530294", "GSM2530295", "GSM2530296", "GSM2530297", "GSM2530298", "GSM2530299", "GSM2530300", "GSM2530301", "GSM2530302", "GSM2530303", "GSM2530304", "GSM2530305", "GSM2530306", "GSM2530307", "GSM2530308", "GSM2530309", "GSM2530310", "GSM2530311", "GSM2530312", "GSM2530313", "GSM2530314", "GSM2530315", "GSM2530316", "GSM2530317", "GSM2530318", "GSM2530319", "GSM2530320", "GSM2530321", "GSM2530322", "GSM2530323", "GSM2530324", "GSM2530325", "GSM2530326", "GSM2530327", "GSM2530328", "GSM2530329", "GSM2530330", "GSM2530331", "GSM2530332", "GSM2530333", "GSM2530334", "GSM2530335", "GSM2530336", "GSM2530337", "GSM2530338", "GSM2530339", "GSM2530340", "GSM2530341", "GSM2530342", "GSM2530343", "GSM2530344", "GSM2530345", "GSM2530346", "GSM2530347", "GSM2530348", "GSM2530349", "GSM2530350", "GSM2530351", "GSM2530352", "GSM2530353", "GSM2530354", "GSM2530355", "GSM2530356", "GSM2530357", "GSM2530358", "GSM2530359", "GSM2530360", "GSM2530361", "GSM2530362", "GSM2530363", "GSM2530364", "GSM2530365", "GSM2530366", "GSM2530367", "GSM2530368", "GSM2530369", "GSM2530370", "GSM2530371", "GSM2530372", "GSM2530373", "GSM2530374", "GSM2530375", "GSM2530376", "GSM2530377", "GSM2530378", "GSM2530379", "GSM2530380", "GSM2530381", "GSM2530382", "GSM2530383", "GSM2530384", "GSM2530385", "GSM2530386", "GSM2530387", "GSM2530388", "GSM2530389", "GSM2530390", "GSM2530391", "GSM2530392", "GSM2530393", "GSM2530394", "GSM2530395", "GSM2530396", "GSM2530397", "GSM2530398", "GSM2530399", "GSM2530400", "GSM2530401", "GSM2530402", "GSM2530403", "GSM2530404", "GSM2530405", "GSM2530406", "GSM2530407", "GSM2530408", "GSM2530409", "GSM2530410", "GSM2530411", "GSM2530412", "GSM2530413", "GSM2530414", "GSM2530415", "GSM2530416", "GSM2530417", "GSM2530418", "GSM2530419", "GSM2530420", "GSM2530421", "GSM2530422", "GSM2530423", "GSM2530424", "GSM2530425", "GSM2530426", "GSM2530427", "GSM2530428", "GSM2530429", "GSM2530430", "GSM2530431", "GSM2530432", "GSM2530433", "GSM2530434", "GSM2530435", "GSM2530436", "GSM2530437", "GSM2530438", "GSM2530439", "GSM2530440", "GSM2530441", "GSM2530442", "GSM2530443", "GSM2530444", "GSM2530445", "GSM2530446", "GSM2530447", "GSM2530448", "GSM2530449", "GSM2530450", "GSM2530451", "GSM2530452", "GSM2530453", "GSM2530454", "GSM2530455", "GSM2530456", "GSM2530457", "GSM2530458", "GSM2530459", "GSM2530460", "GSM2530461", "GSM2530462", "GSM2530463", "GSM2530464", "GSM2530465", "GSM2530466", "GSM2530467", "GSM2530468", "GSM2530469", "GSM2530470", "GSM2530471", "GSM2530472", "GSM2530473", "GSM2530474", "GSM2530475", "GSM2530476", "GSM2530477", "GSM2530478", "GSM2530479", "GSM2530480", "GSM2530481", "GSM2530482", "GSM2530483", "GSM2530484", "GSM2530485", "GSM2530486", "GSM2530487", "GSM2530488", "GSM2530489", "GSM2530490", "GSM2530491", "GSM2530492", "GSM2530493", "GSM2530494", "GSM2530495", "GSM2530496", "GSM2530497", "GSM2530498", "GSM2530499", "GSM2530500", "GSM2530501", "GSM2530502", "GSM2530503", "GSM2530504", "GSM2530505", "GSM2530506", "GSM2530507", "GSM2530508", "GSM2530509", "GSM2530510", "GSM2530511", "GSM2530512", "GSM2530513", "GSM2530514", "GSM2530515", "GSM2530516", "GSM2530517", "GSM2530518", "GSM2530519", "GSM2530520", "GSM2530521", "GSM2530522", "GSM2530523", "GSM2530524", "GSM2530525", "GSM2530526", "GSM2530527", "GSM2530528", "GSM2530529", "GSM2530530", "GSM2530531", "GSM2530532", "GSM2530533", "GSM2530534", "GSM2530535", "GSM2530536", "GSM2530537", "GSM2530538", "GSM2530539", "GSM2530540", "GSM2530541", "GSM2530542", "GSM2530543", "GSM2530544", "GSM2530545", "GSM2530546", "GSM2530547", "GSM2530548", "GSM2530549", "GSM2530550", "GSM2530551", "GSM2530552", "GSM2530553", "GSM2530554", "GSM2530555", "GSM2530556", "GSM2530557", "GSM2530558", "GSM2530559", "GSM2530560", "GSM2530561", "GSM2530562", "GSM2530563", "GSM2530564", "GSM2530565", "GSM2530566", "GSM2530567", "GSM2530568", "GSM2530569", "GSM2530570", "GSM2530571", "GSM2530572", "GSM2530573", "GSM2530574", "GSM2530575", "GSM2530576", "GSM2530577", "GSM2530578", "GSM2530579", "GSM2530580", "GSM2530581", "GSM2530582", "GSM2530583", "GSM2530584", "GSM2530585", "GSM2530586", "GSM2530587", "GSM2530588", "GSM2530589", "GSM2530590", "GSM2530591", "GSM2530592", "GSM2530593", "GSM2530594", "GSM2530595", "GSM2530596", "GSM2530597", "GSM2530598", "GSM2530599", "GSM2530600", "GSM2530601", "GSM2530602", "GSM2530603", "GSM2530604", "GSM2530605", "GSM2530606", "GSM2530607", "GSM2530608", "GSM2530609", "GSM2530610", "GSM2530611", "GSM2530612", "GSM2530613", "GSM2530614", "GSM2530615", "GSM2530616", "GSM2530617", "GSM2530618", "GSM2530619", "GSM2530620", "GSM2530621", "GSM2530622", "GSM2530623", "GSM2530624", "GSM2530625", "GSM2530626", "GSM2530627", "GSM2530628", "GSM2530629", "GSM2530630", "GSM2530631", "GSM2530632", "GSM2530633", "GSM2530634", "GSM2530635", "GSM2530636", "GSM2530637", "GSM2530638", "GSM2530639", "GSM2530640", "GSM2530641", "GSM2530642", "GSM2530643", "GSM2530644", "GSM2530645", "GSM2530646", "GSM2530647", "GSM2530648", "GSM2530649", "GSM2530650", "GSM2530651", "GSM2530652", "GSM2530653", "GSM2530654", "GSM2530655", "GSM2530656", "GSM2530657", "GSM2530658", "GSM2530659", "GSM2530660", "GSM2530661", "GSM2530662", "GSM2530663", "GSM2530664", "GSM2530665", "GSM2530666", "GSM2530667", "GSM2530668", "GSM2530669", "GSM2530670", "GSM2530671", "GSM2530672", "GSM2530673", "GSM2530674", "GSM2530675", "GSM2530676", "GSM2530677", "GSM2530678", "GSM2530679", "GSM2530680", "GSM2530681", "GSM2530682", "GSM2530683", "GSM2530684", "GSM2530685", "GSM2530686", "GSM2530687", "GSM2530688", "GSM2530689", "GSM2530690", "GSM2530691", "GSM2530692", "GSM2530693", "GSM2530694", "GSM2530695", "GSM2530696", "GSM2530697", "GSM2530698", "GSM2530699", "GSM2530700", "GSM2530701", "GSM2530702", "GSM2530703", "GSM2530704", "GSM2530705", "GSM2530706", "GSM2530707", "GSM2530708", "GSM2530709", "GSM2530710", "GSM2530711", "GSM2530712", "GSM2530713", "GSM2530714", "GSM2530715", "GSM2530716", "GSM2530717", "GSM2530718", "GSM2530719", "GSM2530720", "GSM2530721", "GSM2530722", "GSM2530723", "GSM2530724", "GSM2530725", "GSM2530726", "GSM2530727", "GSM2530728", "GSM2530729", "GSM2530730", "GSM2530731", "GSM2530732", "GSM2530733", "GSM2530734", "GSM2530735", "GSM2530736", "GSM2530737", "GSM2530738", "GSM2530739", "GSM2530740", "GSM2530741", "GSM2530742", "GSM2530743", "GSM2530744", "GSM2530745", "GSM2530746", "GSM2530747", "GSM2530748", "GSM2530749", "GSM2530750", "GSM2530751", "GSM2530752", "GSM2530753", "GSM2530754", "GSM2530755", "GSM2530756", "GSM2530757", "GSM2530758", "GSM2530759", "GSM2530760", "GSM2530761", "GSM2530762", "GSM2530763", "GSM2530764", "GSM2530765", "GSM2530766", "GSM2530767", "GSM2530768", "GSM2530769", "GSM2530770", "GSM2530771", "GSM2530772", "GSM2530773", "GSM2530774", "GSM2530775", "GSM2530776", "GSM2530777", "GSM2530778", "GSM2530779", "GSM2530780", "GSM2530781", "GSM2530782", "GSM2530783", "GSM2530784", "GSM2530785", "GSM2530786", "GSM2530787", "GSM2530788", "GSM2530789", "GSM2530790", "GSM2530791", "GSM2530792", "GSM2530793", "GSM2530794", "GSM2530795", "GSM2530796", "GSM2530797", "GSM2530798", "GSM2530799", "GSM2530800", "GSM2530801", "GSM2530802", "GSM2530803", "GSM2530804", "GSM2530805", "GSM2530806", "GSM2530807", "GSM2530808", "GSM2530809", "GSM2530810", "GSM2530811", "GSM2530812", "GSM2530813", "GSM2530814", "GSM2530815", "GSM2530816", "GSM2530817", "GSM2530818", "GSM2530819", "GSM2530820", "GSM2530821", "GSM2530822", "GSM2530823", "GSM2530824", "GSM2530825", "GSM2530826", "GSM2530827", "GSM2530828", "GSM2530829", "GSM2530830", "GSM2530831", "GSM2530832", "GSM2530833", "GSM2530834", "GSM2530835", "GSM2530836", "GSM2530837", "GSM2530838", "GSM2530839", "GSM2530840", "GSM2530841", "GSM2530842", "GSM2530843", "GSM2530844", "GSM2530845", "GSM2530846", "GSM2530847", "GSM2530848", "GSM2530849", "GSM2530850", "GSM2530851", "GSM2530852", "GSM2530853", "GSM2530854", "GSM2530855", "GSM2530856", "GSM2530857", "GSM2530858", "GSM2530859", "GSM2530860", "GSM2530861", "GSM2530862", "GSM2530863", "GSM2530864", "GSM2530865", "GSM2530866", "GSM2530867", "GSM2530868", "GSM2530869", "GSM2530870", "GSM2530871", "GSM2530872", "GSM2530873", "GSM2530874", "GSM2530875", "GSM2530876", "GSM2530877", "GSM2530878", "GSM2530879", "GSM2530880", "GSM2530881", "GSM2530882", "GSM2530883", "GSM2530884", "GSM2530885", "GSM2530886", "GSM2530887", "GSM2530888", "GSM2530889", "GSM2530890", "GSM2530891", "GSM2530892", "GSM2530893", "GSM2530894", "GSM2530895", "GSM2530896", "GSM2530897", "GSM2530898", "GSM2530899", "GSM2530900", "GSM2530901", "GSM2530902", "GSM2530903", "GSM2530904", "GSM2530905", "GSM2530906", "GSM2530907", "GSM2530908", "GSM2530909", "GSM2530910", "GSM2530911", "GSM2530912", "GSM2530913", "GSM2530914", "GSM2530915", "GSM2530916", "GSM2530917", "GSM2530918", "GSM2530919", "GSM2530920", "GSM2530921", "GSM2530922", "GSM2530923", "GSM2530924", "GSM2530925", "GSM2530926", "GSM2530927", "GSM2530928", "GSM2530929", "GSM2530930", "GSM2530931", "GSM2530932", "GSM2530933", "GSM2530934", "GSM2530935", "GSM2530936", "GSM2530937", "GSM2530938", "GSM2530939", "GSM2530940", "GSM2530941", "GSM2530942", "GSM2530943", "GSM2530944", "GSM2530945", "GSM2530946", "GSM2530947", "GSM2530948", "GSM2530949", "GSM2530950", "GSM2530951", "GSM2530952", "GSM2530953", "GSM2530954", "GSM2530955", "GSM2530956", "GSM2530957", "GSM2530958", "GSM2530959", "GSM2530960", "GSM2530961", "GSM2530962", "GSM2530963", "GSM2530964", "GSM2530965", "GSM2530966", "GSM2530967", "GSM2530968", "GSM2530969", "GSM2530970", "GSM2530971", "GSM2530972", "GSM2530973", "GSM2530974", "GSM2530975", "GSM2530976", "GSM2530977", "GSM2530978", "GSM2530979", "GSM2530980", "GSM2530981", "GSM2530982", "GSM2530983", "GSM2530984", "GSM2530985", "GSM2530986", "GSM2530987", "GSM2530988", "GSM2530989", "GSM2530990", "GSM2530991", "GSM2530992", "GSM2530993", "GSM2530994", "GSM2530995", "GSM2530996", "GSM2530997", "GSM2530998", "GSM2530999", "GSM2531000", "GSM2531001", "GSM2531002", "GSM2531003", "GSM2531004", "GSM2531005", "GSM2531006", "GSM2531007", "GSM2531008", "GSM2531009", "GSM2531010", "GSM2531011", "GSM2531012", "GSM2531013", "GSM2531014", "GSM2531015", "GSM2531016", "GSM2531017", "GSM2531018", "GSM2531019", "GSM2531020", "GSM2531021", "GSM2531022", "GSM2531023", "GSM2531024", "GSM2531025", "GSM2531026", "GSM2531027", "GSM2531028", "GSM2531029", "GSM2531030", "GSM2531031", "GSM2531032", "GSM2531033", "GSM2531034", "GSM2531035", "GSM2531036", "GSM2531037", "GSM2531038", "GSM2531039", "GSM2531040", "GSM2531041", "GSM2531042", "GSM2531043", "GSM2531044", "GSM2531045", "GSM2531046", "GSM2531047", "GSM2531048", "GSM2531049", "GSM2531050", "GSM2531051", "GSM2531052", "GSM2531053", "GSM2531054", "GSM2531055", "GSM2531056", "GSM2531057", "GSM2531058", "GSM2531059", "GSM2531060", "GSM2531061", "GSM2531062", "GSM2531063", "GSM2531064", "GSM2531065", "GSM2531066", "GSM2531067", "GSM2531068", "GSM2531069", "GSM2531070", "GSM2531071", "GSM2531072", "GSM2531073", "GSM2531074", "GSM2531075", "GSM2531076", "GSM2531077", "GSM2531078", "GSM2531079", "GSM2531080", "GSM2531081", "GSM2531082", "GSM2531083", "GSM2531084", "GSM2531085", "GSM2531086", "GSM2531087", "GSM2531088", "GSM2531089", "GSM2531090", "GSM2531091", "GSM2531092", "GSM2531093", "GSM2531094", "GSM2531095", "GSM2531096", "GSM2531097", "GSM2531098", "GSM2531099", "GSM2531100", "GSM2531101", "GSM2531102", "GSM2531103", "GSM2531104", "GSM2531105", "GSM2531106", "GSM2531107", "GSM2531108", "GSM2531109", "GSM2531110", "GSM2531111", "GSM2531112", "GSM2531113", "GSM2531114", "GSM2531115", "GSM2531116", "GSM2531117", "GSM2531118", "GSM2531119", "GSM2531120", "GSM2531121", "GSM2531122", "GSM2531123", "GSM2531124", "GSM2531125", "GSM2531126", "GSM2531127", "GSM2531128", "GSM2531129", "GSM2531130", "GSM2531131", "GSM2531132", "GSM2531133", "GSM2531134", "GSM2531135", "GSM2531136", "GSM2531137", "GSM2531138", "GSM2531139", "GSM2531140", "GSM2531141", "GSM2531142", "GSM2531143", "GSM2531144", "GSM2531145", "GSM2531146", "GSM2531147", "GSM2531148", "GSM2531149", "GSM2531150", "GSM2531151", "GSM2531152", "GSM2531153", "GSM2531154", "GSM2531155", "GSM2531156", "GSM2531157", "GSM2531158", "GSM2531159", "GSM2531160", "GSM2531161", "GSM2531162", "GSM2531163", "GSM2531164", "GSM2531165", "GSM2531166", "GSM2531167", "GSM2531168", "GSM2531169", "GSM2531170", "GSM2531171", "GSM2531172", "GSM2531173", "GSM2531174", "GSM2531175", "GSM2531176", "GSM2531177", "GSM2531178", "GSM2531179", "GSM2531180", "GSM2531181", "GSM2531182", "GSM2531183", "GSM2531184", "GSM2531185", "GSM2531186", "GSM2531187", "GSM2531188", "GSM2531189", "GSM2531190", "GSM2531191", "GSM2531192", "GSM2531193", "GSM2531194", 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"GSM2531479", "GSM2531480", "GSM2531481", "GSM2531482", "GSM2531483", "GSM2531484", "GSM2531485", "GSM2531486", "GSM2531487"], "sample_count": 3409, "group_sizes": null, "group_sizes_basis": null, "platform": "11154;18573", "taxon": "Homo sapiens", "title": "Clinical Value of RNA Sequencing–Based Classifiers for Prediction of the Five Conventional Breast Cancer Biomarkers: A Report From the Population-Based Multicenter Sweden Cancerome Analysis Network—Breast Initiative [cohort 3273]", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE10886 not downloaded", "asset:data:geo:GSE10886 licence not read", "asset:data:geo:GSE20685 not downloaded", "asset:data:geo:GSE20685 licence not read", "asset:data:geo:GSE96058 not downloaded", "asset:data:geo:GSE96058 licence not read"]}, "analysis": {"state": "complete", "methods": [{"id": "method-1", "family": "survival_analysis", "specific": "cox_proportional_hazards", "label": "Survival analysis", "dsl_operations": ["cox_ph"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["time_to_event_with_censoring"], "evidence": {"score": 1.0, "band": "verbatim", "quote": "A total of 14 hub genes (PFKL, P4HA2, GRHPR, SDC3, PPP1R15A, SIAH2, NDRG1, BTG1, TPD52, MAFF, ISG20, LALBA, ERRFI1 and VHL) were identified from the multivariate Cox regression (Table I), and the following genetic risk score signature was established:"}}], "targets": [], "gaps": []}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["cox_ph"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: cox_proportional_hazards."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE10886", "GSE20685", "GSE96058"], "resolved_accessions": ["GSE10886", "GSE20685", "GSE96058"], "statements": ["The datasets generated and analyzed during the current study are available in the TCGA repository (https://www.cancer.gov/tcga) and Gene Expression Omnibus (GEO) database (https://www.ncbi.nlm.nih.gov/geo/) (accession nos. GSE10886, GSE20685 and GSE96058)."], "basis": "The paper names GSE10886, GSE20685, GSE96058 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["cox_ph"], "assets": ["source:pmid:32724434", "data:geo:GSE10886"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE10886"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:21:23Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 15359, "completion_tokens": 1966, "cached_tokens": 792}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:32724434", "type": "paper", "label": "pmid:32724434"}, {"id": "source:pmid:32724434", "type": "manuscript", "label": "PMID 32724434 full text"}, {"id": "data:geo:GSE10886", "type": "dataset", "label": "GEO GSE10886"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:32724434", "type": "paper", "label": "pmid:32724434"}, {"id": "source:pmid:32724434", "type": "manuscript", "label": "PMID 32724434 full text"}, {"id": "data:geo:GSE10886", "type": "dataset", "label": "GEO GSE10886"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-32724434", "type": "extraction", "used": ["source:pmid:32724434"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE10886", "type": "accession_resolution", "used": ["data:geo:GSE10886"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:32724434", "parent_hash": "sha256:bad9606cba8bf3e32d8ac41693931ea89c8dc11ad2dbc6ff3fb51e9fad89755c", "fork_of": null, "generation": 5}, "gaps": ["asset:data:geo:GSE10886 licence not read", "asset:data:geo:GSE10886 not downloaded", "asset:data:geo:GSE20685 licence not read", "asset:data:geo:GSE20685 not downloaded", "asset:data:geo:GSE96058 licence not read", "asset:data:geo:GSE96058 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "rna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["y required. Therefore, in the present study, RNA-seq data and clinical information were downloade"], "order_basis": "paper_text_order:363", "id": "assay:1"}, {"role": "analysis", "definition_id": "survival_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["cox_ph"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["A total of 14 hub genes (PFKL, P4HA2, GRHPR, SDC3, PPP1R15A, SIAH2, NDRG1, BTG1, TPD52, MAFF, ISG20, LALBA, ERRFI1 and VHL) were identified from the multivariate Cox regression (Table I), and the following genetic risk score signature was established:"], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}