Drug perturbation gene set enrichment analysis (dpGSEA): a new transcriptomic drug screening approach

BMC Bioinformatics

Table 2 A rank-ordered list of the most statistically significant ES for drugs found when performing an enrichment for INR vs. IR Treg cells using top 50 p value rank proto-matrix (derived from LINCs)

Drug	NES	ES p value	NTCS	TCS p value	Gene
bendamustine_HT29	3.13	< 0.001	0.88	0.359	TMEM106B, TMEM135, ELOVL6, KCNJ2, LSM6, TMEM126B, TGIF1, TXNDC9, MAPKAPK5
oseltamivir-carboxylate_MCF7	3.12	< 0.001	0.97	0.150	RDH11, ETS1, YAF2, UBE4B, SFPQ, FRYL
medrysone_PC3	3.00	< 0.001	0.92	0.267	FAM13B, BMPR1A, MYO7A, CAST, H2AFV, RABL6
luliconazole_HT29	3.42	< 0.001	0.90	0.314	RBM7, TMED7, NXT2, ATMIN, SUB1, NPTN, WASF2, CEP135, RDH14
doxofylline_MCF7	3.43	< 0.001	0.88	0.347	SUCLG2, TM9SF3, BRD7, RPL36, APPBP2, MRPL33, ARL5A, TGFB3, LRRC15, HSP90B1, RPS25
ibutilide_HELA	3.23	0.001	0.91	0.294	EDEM3, RAD21, RAB35, ADGRF1, CBX1, SCN2B
cevimeline_HA1E	2.88	0.001	0.84	0.421	EDEM3, UBE4B, CTSD, LRRC15, ID2, SRSF11, TRIM21, NUCKS1, PARP1, SH2D3A
chrysin_HA1E	3.10	0.001	0.86	0.386	EDEM3, PBRM1, GANAB, MRPL33, LARP4, NKRF, BMI1, NOC3L, CORO2A
amtolmetin-guacil_MCF7	2.81	0.001	0.88	0.330	EDEM3, ASB13, SCAMP1, TRAPPC6A, EP300, MFSD6, AZIN1, CIAO1
triamterene_HT29	3.04	0.001	0.95	0.188	TMEM106B, UGDH, ELOVL5, BNIP1, ZBTB11, PIH1D1

Both normalized ES and normalized TCS along with their respective statistical significance are shown. The leading-edge genes are also displayed, indicating genes driving the enrichment scores. Note that the highest ranked result, oseltamivir-carboxylate, suppresses influenza virions production modulates human sialidases, known for mitochondrial involvement and regulation of cell apoptosis

ISSN: 1471-2105