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pmid:32612148
Novel candidate drugs in anti-tumor necrosis factor refractory Crohn's diseases: in silico study for drug repositioning.
Min Seob Kwak · Hun Hee Lee · Jae Myung Cha · Hyun Phil Shin · Jung Won Jeon · Jin Young Yoon
Scientific reports · 2020 doi:10.1038/s41598-020-67801-0
Paper
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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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In this study, we applied a computational approach to discover novel drug therapies for anti-TNF refractory CD in silico. We use a transcriptome dataset (GSE100833) for the anti-TNF refractory CD patients from NCBI GEO. After co-expression analysis, we specifically investigated the extent of protein-protein interactions among genes in clusters based on a protein-protein interaction database, STRING. Pathway analysis was performed using the clEnrich function based on KEGG gene sets. Co-expressed genes in cluster 1, 2, 3, 4, up or down-regulated genes and all differentially expressed genes are highly connected. Among them, cluster 1, which is highly enriched for chemokine signaling, also showed enrichment for cytokine-cytokine receptor interaction and identifies several drugs including cyclosporin with known efficacy in CD. Vorinostat, histone deacetylase inhibitors, and piperlongumine, which is known to have inhibitory effect on activity of NF-κB, were also identified. 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"GSM3260432", "GSM3260433", "GSM3260434", "GSM3260435", "GSM3260436", "GSM3260437", "GSM3260438", "GSM3260439", "GSM3260440", "GSM3260441", "GSM3260442", "GSM3260443", "GSM3260444", "GSM3260445", "GSM3260446", "GSM3260447", "GSM3260448", "GSM3260449", "GSM3260450", "GSM3260451", "GSM3260452", "GSM3260453", "GSM3260454", "GSM3260455", "GSM3260456", "GSM3260457", "GSM3260458", "GSM3260459", "GSM3260460", "GSM3260461", "GSM3260462", "GSM3260463", "GSM3260464", "GSM3260465", "GSM3260466", "GSM3260467", "GSM3260468", "GSM3260469", "GSM3260470", "GSM3260471", "GSM3260472", "GSM3260473", "GSM3260474", "GSM3260475", "GSM3260476", "GSM3260477", "GSM3260478", "GSM3260479", "GSM3260480", "GSM3260481", "GSM3260482", "GSM3260483", "GSM3260484", "GSM3260485", "GSM3260486", "GSM3260487", "GSM3260488", "GSM3260489", "GSM3260490", "GSM3260491", "GSM3260492", "GSM3260493", "GSM3260494", "GSM3260495", "GSM3260496", "GSM3260497", "GSM3260498", "GSM3260499", "GSM3260500", "GSM3260501", "GSM3260502", "GSM3260503", "GSM3260504", "GSM3260505", "GSM3260506", "GSM3260507", "GSM3260508", "GSM3260509", "GSM3260510", "GSM3260511", "GSM3260512", "GSM3260513", "GSM3260514", "GSM3260515", "GSM3260516", "GSM3260517", "GSM3260518", "GSM3260519", "GSM3260520", "GSM3260521", "GSM3260522", "GSM3260523", "GSM3260524", "GSM3260525", "GSM3260526", "GSM3260527", "GSM3260528", "GSM3260529", "GSM3260530", "GSM3260531", "GSM3260532", "GSM3260533", "GSM3260534", "GSM3260535", "GSM3260536", "GSM3260537", "GSM3260538", "GSM3260539", "GSM3260540", "GSM3260541", "GSM3260542", "GSM3260543", "GSM3260544", "GSM3260545", "GSM3260546", "GSM3260547", "GSM3260548", "GSM3260549", "GSM3260550", "GSM3260551", "GSM3260552", "GSM3260553", "GSM3260554", "GSM3260555", "GSM3260556", "GSM3260557", "GSM3260558", "GSM3260559", "GSM3260560", "GSM3260561", "GSM3260562", "GSM3260563", "GSM3260564", "GSM3260565", "GSM3260566", "GSM3260567", "GSM3260568", "GSM3260569", "GSM3260570", "GSM3260571", "GSM3260572", "GSM3260573", "GSM3260574", "GSM3260575", "GSM3260576", "GSM3260577", "GSM3260578", "GSM3260579", "GSM3260580", "GSM3260581", "GSM3260582", "GSM3260583", "GSM3260584", "GSM3260585", "GSM3260586", "GSM3260587", "GSM3260588", "GSM3260589", "GSM3260590", "GSM3260591", "GSM3260592", "GSM3260593", "GSM3260594", "GSM3260595", "GSM3260596", "GSM3260597", "GSM3260598", "GSM3260599", "GSM3260600", "GSM3260601", "GSM3260602", "GSM3260603", "GSM3260604", "GSM3260605", "GSM3260606", "GSM3260607", "GSM3260608", "GSM3260609", "GSM3260610", "GSM3260611", "GSM3260612", "GSM3260613", "GSM3260614", "GSM3260615", "GSM3260616", "GSM3260617", "GSM3260618", "GSM3260619", "GSM3260620", "GSM3260621", "GSM3260622", "GSM3260623", "GSM3260624", "GSM3260625", "GSM3260626", "GSM3260627", "GSM3260628", "GSM3260629", "GSM3260630", "GSM3260631", "GSM3260632", "GSM3260633", "GSM3260634", "GSM3260635", "GSM3260636", "GSM3260637", "GSM3260638", "GSM3260639", "GSM3260640", "GSM3260641", "GSM3260642", "GSM3260643", "GSM3260644", "GSM3260645", "GSM3260646", "GSM3260647", "GSM3260648", "GSM3260649", "GSM3260650", "GSM3260651", "GSM3260652", "GSM3260653", "GSM3260654", "GSM3260655", "GSM3260656", "GSM3260657", "GSM3260658", "GSM3260659", "GSM3260660", "GSM3260661", "GSM3260662", "GSM3260663", "GSM3260664", "GSM3260665", "GSM3260666", "GSM3260667", "GSM3260668", "GSM3260669", "GSM3260670", "GSM3260671", "GSM3260672", "GSM3260673", "GSM3260674", "GSM3260675", "GSM3260676", "GSM3260677", "GSM3260678", "GSM3260679", "GSM3260680", "GSM3260681", "GSM3260682", "GSM3260683", "GSM3260684", "GSM3260685", "GSM3260686", "GSM3260687", "GSM3260688", "GSM3260689", "GSM3260690", "GSM3260691", "GSM3260692", "GSM3260693", "GSM3260694", "GSM3260695", "GSM3260696", "GSM3260697", "GSM3260698", "GSM3260699", "GSM3260700", "GSM3260701", "GSM3260702", "GSM3260703", "GSM3260704", "GSM3260705", "GSM3260706", "GSM3260707", "GSM3260708", "GSM3260709", "GSM3260710", "GSM3260711", "GSM3260712", "GSM3260713", "GSM3260714", "GSM3260715", "GSM3260716", "GSM3260717", "GSM3260718", "GSM3260719", "GSM3260720", "GSM3260721", "GSM3260722", "GSM3260723", "GSM3260724", "GSM3260725", "GSM3260726", "GSM3260727", "GSM3260728", "GSM3260729", "GSM3260730", "GSM3260731", "GSM3260732", "GSM3260733", "GSM3260734", "GSM3260735", "GSM3260736", "GSM3260737", "GSM3260738", "GSM3260739", "GSM3260740", "GSM3260741", "GSM3260742", "GSM3260743", "GSM3260744", "GSM3260745", "GSM3260746", "GSM3260747", "GSM3260748", "GSM3260749", "GSM3260750", "GSM3260751", "GSM3260752", "GSM3260753", "GSM3260754", "GSM3260755", "GSM3260756", "GSM3260757", "GSM3260758", "GSM3260759", "GSM3260760", "GSM3260761", "GSM3260762", "GSM3260763", "GSM3260764", "GSM3260765", "GSM3260766", "GSM3260767", "GSM3260768", "GSM3260769", "GSM3260770", "GSM3260771", "GSM3260772", "GSM3260773", "GSM3260774", "GSM3260775", "GSM3260776", "GSM3260777", "GSM3260778", "GSM3260779", "GSM3260780", "GSM3260781", "GSM3260782", "GSM3260783", "GSM3260784", "GSM3260785", "GSM3260786", "GSM3260787", "GSM3260788", "GSM3260789", "GSM3260790", "GSM3260791", "GSM3260792", "GSM3260793", "GSM3260794", "GSM3260795", "GSM3260796", "GSM3260797", "GSM3260798", "GSM3260799", "GSM3260800", "GSM3260801", "GSM3260802", "GSM3260803", "GSM3260804", "GSM3260805", "GSM3260806", "GSM3260807", "GSM3260808", "GSM3260809", "GSM3260810", "GSM3260811", "GSM3260812", "GSM3260813", "GSM3260814", "GSM3260815", "GSM3260816", "GSM3260817", "GSM3260818", "GSM3260819", "GSM3260820", "GSM3260821", "GSM3260822", "GSM3260823", "GSM3260824", "GSM3260825", "GSM3260826", "GSM3260827", "GSM3260828", "GSM3260829", "GSM3260830", "GSM3260831", "GSM3260832", "GSM3260833", "GSM3260834", "GSM3260835", "GSM3260836", "GSM3260837", "GSM3260838", "GSM3260839", "GSM3260840", "GSM3260841", "GSM3260842", "GSM3260843", "GSM3260844", "GSM3260845", "GSM3260846", "GSM3260847", "GSM3260848", "GSM3260849", "GSM3260850", "GSM3260851", "GSM3260852", "GSM3260853", "GSM3260854", "GSM3260855", "GSM3260856", "GSM3260857", "GSM3260858", "GSM3260859", "GSM3260860", "GSM3260861", "GSM3260862", "GSM3260863", "GSM3260864", "GSM3260865", "GSM3260866", "GSM3260867", "GSM3260868", "GSM3260869", "GSM3260870", "GSM3260871", "GSM3260872", "GSM3260873", "GSM3260874", "GSM3260875", "GSM3260876", "GSM3260877", "GSM3260878", "GSM3260879", "GSM3260880", "GSM3260881", "GSM3260882", "GSM3260883", "GSM3260884", "GSM3260885", "GSM3260886", "GSM3260887", "GSM3260888", "GSM3260889", "GSM3260890", "GSM3260891", "GSM3260892", "GSM3260893", "GSM3260894", "GSM3260895", "GSM3260896", "GSM3260897", "GSM3260898", "GSM3260899", "GSM3260900", "GSM3260901", "GSM3260902", "GSM3260903", "GSM3260904", "GSM3260905", "GSM3260906", "GSM3260907", "GSM3260908", "GSM3260909", "GSM3260910", "GSM3260911", "GSM3260912", "GSM3260913", "GSM3260914", "GSM3260915", "GSM3260916", "GSM3260917", "GSM3260918", "GSM3260919", "GSM3260920", "GSM3260921", "GSM3260922", "GSM3260923", "GSM3260924", "GSM3260925", "GSM3260926", "GSM3260927", "GSM3260928", "GSM3260929", "GSM3260930", "GSM3260931", "GSM3260932", "GSM3260933", "GSM3260934", "GSM3260935", "GSM3260936", "GSM3260937", "GSM3260938", "GSM3260939", "GSM3260940", "GSM3260941", "GSM3260942", "GSM3260943", "GSM3260944", "GSM3260945", "GSM3260946", "GSM3260947", "GSM3260948", "GSM3260949", "GSM3260950", "GSM3260951", "GSM3260952", "GSM3260953", "GSM3260954", "GSM3260955", "GSM3260956", "GSM3260957", "GSM3260958", "GSM3260959", "GSM3260960", "GSM3260961", "GSM3260962", "GSM3260963", "GSM3260964", "GSM3260965", "GSM3260966", "GSM3260967", "GSM3260968", "GSM3260969", "GSM3260970", "GSM3260971", "GSM3260972", "GSM3260973", "GSM3260974", "GSM3260975", "GSM3260976", "GSM3260977", "GSM3260978", "GSM3260979", "GSM3260980", "GSM3260981", "GSM3260982", "GSM3260983", "GSM3260984", "GSM3260985", "GSM3260986", "GSM3260987", "GSM3260988", "GSM3260989", "GSM3260990", "GSM3260991", "GSM3260992", "GSM3260993", "GSM3260994", "GSM3260995", "GSM3260996", "GSM3260997", "GSM3260998", "GSM3260999", "GSM3261000", "GSM3261001", "GSM3261002", "GSM3261003", "GSM3261004", "GSM3261005", "GSM3261006", "GSM3261007", "GSM3261008", "GSM3261009", "GSM3261010", "GSM3261011", "GSM3261012", "GSM3261013", "GSM3261014", "GSM3261015", "GSM3261016", "GSM3261017", "GSM3261018", "GSM3261019", "GSM3261020", "GSM3261021", "GSM3261022", "GSM3261023", "GSM3261024", "GSM3261025", "GSM3261026", "GSM3261027", "GSM3261028", "GSM3261029", "GSM3261030", "GSM3261031", "GSM3261032", "GSM3261033", "GSM3261034", "GSM3261035", "GSM3261036", "GSM3261037", "GSM3261038", "GSM3261039", "GSM3261040", "GSM3261041", "GSM3261042", "GSM3261043", "GSM3261044", "GSM3261045", "GSM3261046", "GSM3261047", "GSM3261048", "GSM3261049", "GSM3261050", "GSM3261051", "GSM3261052", "GSM3261053", "GSM3261054", "GSM3261055", "GSM3261056", "GSM3261057", "GSM3261058", "GSM3261059", "GSM3261060", "GSM3261061", "GSM3261062", "GSM3261063", "GSM3261064", "GSM3261065", "GSM3261066", "GSM3261067", "GSM3261068", "GSM3261069", "GSM3261070", "GSM3261071", "GSM3261072", "GSM3261073", "GSM3261074", "GSM3261075", "GSM3261076", "GSM3261077", "GSM3261078", "GSM3261079", "GSM3261080", "GSM3261081", "GSM3261082", "GSM3261083", "GSM3261084", "GSM3261085", "GSM3261086", "GSM3261087", "GSM3261088", "GSM3261089", "GSM3261090", "GSM3261091", "GSM3261092", "GSM3261093", "GSM3261094", "GSM3261095", "GSM3261096", "GSM3261097", "GSM3261098", "GSM3261099", "GSM3261100", "GSM3261101", "GSM3261102", "GSM3261103", "GSM3261104", "GSM3261105", "GSM3261106", "GSM3261107", "GSM3261108", "GSM3261109", "GSM3261110", "GSM3261111", "GSM3261112", "GSM3261113", "GSM3261114", "GSM3261115", "GSM3261116", "GSM3261117", "GSM3261118", "GSM3261119", "GSM3261120", "GSM3261121", "GSM3261122", "GSM3261123", "GSM3261124", "GSM3261125", "GSM3261126", "GSM3261127", "GSM3261128", "GSM3261129", "GSM3261130", "GSM3261131", "GSM3261132", "GSM3261133", "GSM3261134", "GSM3261135", "GSM3261136", "GSM3261137", "GSM3261138", "GSM3261139", "GSM3261140", "GSM3261141", "GSM3261142", "GSM3261143", "GSM3261144", "GSM3261145", "GSM3261146", "GSM3261147", "GSM3261148", "GSM3261149", "GSM3261150", "GSM3261151", "GSM3261152", "GSM3261153", "GSM3261154", "GSM3261155", "GSM3261156", "GSM3261157", "GSM3261158", "GSM3261159", "GSM3261160", "GSM3261161", "GSM3261162", "GSM3261163", "GSM3261164", "GSM3261165", "GSM3261166", "GSM3261167", "GSM3261168", "GSM3261169", "GSM3261170", "GSM3261171", "GSM3261172", "GSM3261173", "GSM3261174", "GSM3261175", "GSM3261176", "GSM3261177", "GSM3261178", "GSM3261179", "GSM3261180", "GSM3261181", "GSM3261182", "GSM3261183", "GSM3261184", "GSM3261185", "GSM3261186", "GSM3261187", "GSM3261188", "GSM3261189", "GSM3261190", "GSM3261191", "GSM3261192", "GSM3261193", "GSM3261194", "GSM3261195", "GSM3261196", "GSM3261197", "GSM3261198", "GSM3261199", "GSM3261200", "GSM3261201", "GSM3261202", "GSM3261203", "GSM3261204", "GSM3261205", "GSM3261206", "GSM3261207", "GSM3261208", "GSM3261209", "GSM3261210", "GSM3261211", "GSM3261212", "GSM3261213", "GSM3261214", "GSM3261215", "GSM3261216", "GSM3261217", "GSM3261218", "GSM3261219", "GSM3261220", "GSM3261221", "GSM3261222", "GSM3261223", "GSM3261224", "GSM3261225", "GSM3261226", "GSM3261227", "GSM3261228", "GSM3261229", "GSM3261230", "GSM3261231", "GSM3261232", "GSM3261233", "GSM3261234", "GSM3261235", "GSM3261236", "GSM3261237", "GSM3261238", "GSM3261239", "GSM3261240", "GSM3261241", "GSM3261242", "GSM3261243", "GSM3261244", "GSM3261245", "GSM3261246", "GSM3261247", "GSM3261248", "GSM3261249", "GSM3261250", "GSM3261251", "GSM3261252", "GSM3261253", "GSM3261254", "GSM3261255", "GSM3261256", "GSM3261257", "GSM3261258", "GSM3261259", "GSM3261260", "GSM3261261", "GSM3261262", "GSM3261263", "GSM3261264", "GSM3261265", "GSM3261266", "GSM3261267", "GSM3261268", "GSM3261269", "GSM3261270", "GSM3261271", "GSM3261272", "GSM3261273", "GSM3261274", "GSM3261275", "GSM3261276", "GSM3261277", "GSM3261278", "GSM3261279", "GSM3261280", "GSM3261281", "GSM3261282", "GSM3261283", "GSM3261284", "GSM3261285", "GSM3261286", "GSM3261287", "GSM3261288", "GSM3261289", "GSM3261290", "GSM3261291", "GSM3261292", "GSM3261293", "GSM3261294", "GSM3261295", "GSM3261296", "GSM3261297", "GSM3261298", "GSM3261299", "GSM3261300", "GSM3261301", "GSM3261302", "GSM3261303", "GSM3261304", "GSM3261305", "GSM3261306", "GSM3261307", "GSM3261308", "GSM3261309", "GSM3261310", "GSM3261311", "GSM3261312", "GSM3261313", "GSM3261314", "GSM3261315", "GSM3261316", "GSM3261317", "GSM3261318", "GSM3261319", "GSM3261320", "GSM3261321", "GSM3261322", "GSM3261323", "GSM3261324", "GSM3261325", "GSM3261326", "GSM3261327", "GSM3261328", "GSM3261329", "GSM3261330", "GSM3261331", "GSM3261332", "GSM3261333", "GSM3261334", "GSM3261335", "GSM3261336", "GSM3261337", "GSM3261338", "GSM3261339", "GSM3261340", "GSM3261341", "GSM3261342", "GSM3261343", "GSM3261344", "GSM3261345", "GSM3261346", "GSM3261347", "GSM3261348", "GSM3261349", "GSM3261350", "GSM3261351", "GSM3261352", "GSM3261353", "GSM3261354", "GSM3261355", "GSM3261356", "GSM3261357", "GSM3261358", "GSM3261359", "GSM3261360", "GSM3261361", "GSM3261362", "GSM3261363", "GSM3261364", "GSM3261365", "GSM3261366", "GSM3261367", "GSM3261368", "GSM3261369", "GSM3261370", "GSM3261371", "GSM3261372", "GSM3261373", "GSM3261374", "GSM3261375", "GSM3261376", "GSM3261377", "GSM3261378", "GSM3261379", "GSM3261380", "GSM3261381", "GSM3261382", "GSM3261383", "GSM3261384", "GSM3261385", "GSM3261386", "GSM3261387", "GSM3261388", "GSM3261389", "GSM3261390", "GSM3261391", "GSM3261392", "GSM3261393", "GSM3261394", "GSM3261395", "GSM3261396", "GSM3261397", "GSM3261398", "GSM3261399", "GSM3261400", "GSM3261401", "GSM3261402", "GSM3261403", "GSM3261404", "GSM3261405", "GSM3261406", "GSM3261407", "GSM3261408", "GSM3261409", "GSM3261410", "GSM3261411", "GSM3261412", "GSM3261413", "GSM3261414", "GSM3261415", "GSM3261416", "GSM3261417", "GSM3261418", "GSM3261419", "GSM3261420", "GSM3261421", "GSM3261422", "GSM3261423", "GSM3261424", "GSM3261425", 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