Table 1.

Summary of data used

Data level	Data resources	Features	Number
Drug‐associated clinical phenotypes	SIDER a	No. of drugs b Type of associated side effects c	996 4,492
	FAERS d	No. of drugs b Type of reported side effects c No. of reported cases a	5,689 9,268 223,178
	DrugBank	No. of drugs b Type of approved therapeutic indications c	1,473 1,513
	FDA Orange Book	No. of drugs b Type of approved therapeutic use c	49,515 473
	Integrated results	No. of drugs c No. of associated phenotype terms	1,631 (445 e ) 1,587
Drug‐associated gene expression	The Connectivity Map	Total no. of drugs Total no. of analyzed expression profiles Cell lines g	1,309 (856 f ) 6,100 (3,204 f ) 5

FAERS, US Food and Drug Administration Adverse Event Reporting System; FDA, US Food and Drug Administration; SIDER, side effect resource.

^aSIDER (sideeffects.embl.de/). ^bThis number was calculated by using the drug names or ingredients. ^cWe integrated the name of the drugs using concept identification of drugs in the Unified Medical Language System, and prepared drug lists by integrating drugs from the Connectivity Map. ^dAdverse events were selected if they had been reported in ≥30 cases. ^eNumber of drugs that have both the phenotypic terms and gene expression signatures from the Connectivity Map. ^fOwing to the z‐score based approach, drug‐associated expression profiles with single array data were excluded. Finally, of 1,309 drugs and 6,100 expression profiles, 856 drugs and 3,204 expression profiles were used for further analysis. ^gThe five cell lines were MCF7, HL60, PC3, ssMCF7, and SKMELS.