Table 2.

Top differentially expressed genes in CEBPD siRNA versus NT siRNA cells under exposures of control, BUD, TNFα, or BUD + TNFα

Gene symbol (gene name)	Ensembl ID	Control				BUD				TNFα				BUD + TNFα
		Log2 FC	Q-value	Mean normalized counts		Log2 FC	Q-value	Mean normalized counts		Log2 FC	Q-value	Mean normalized counts		Log2 FC	Q-value	Mean normalized counts
				NT	CEBPD			NT	CEBPD			NT	CEBPD			NT	CEBPD
CEBPD (CCAAT/enhancer binding protein (C/EBP), delta)	ENSG00000221869	− 1.73	6.40E−54	1086	328	− 1.84	2.20E−30	1578	465	− 1.47	4.70E−14	897	322	− 1.48	2.70E−38	1139	411
TNFRSF10D (tumor necrosis factor receptor superfamily member 10d)	ENSG00000173530	1.47	3.40E−43	1153	3071	1.11	1.20E−21	1126	2053	1.15	8.10E−03	1074	2621	1.11	9.10E−23	918	2045
CDKN1A (cyclin-dependent kinase inhibitor 1A (p21, Cip1))	ENSG00000124762	1.07	6.80E−39	6008	12,477	1.30	6.20E−42	5028	10,959	1.19	4.20E−29	4853	10,939	1.21	8.30E−20	4720	10,733
PDIA4 (protein disulfide isomerase family A member 4)	ENSG00000155660	− 1.69	2.00E−37	3825	1197	− 1.38	4.00E−33	3203	1204	− 1.61	1.30E−44	5132	1686	− 1.66	2.90E−29	4427	1412
RPS15 (ribosomal protein S15)	ENSG00000115268	− 1.25	7.30E−31	2974	1268	− 1.15	2.00E−27	3090	1470	− 1.19	1.50E−53	2745	1201	− 1.37	3.00E−45	2945	1142
DPP4 (dipeptidyl-peptidase 4)	ENSG00000197635	− 1.19	3.20E−26	1877	831	− 1.08	5.00E−15	1882	1124	− 1.18	2.10E−26	3342	1477	− 1.17	9.20E−35	3793	1693
TXNIP (thioredoxin interacting protein)	ENSG00000265972	− 1.37	4.10E−25	3320	1317	− 1.13	3.00E−18	3708	1876	− 1.36	1.40E−37	2387	952	− 1.46	2.70E−21	2544	1018
ELN (elastin)	ENSG00000049540	1.21	3.80E−23	7693	16,628	1.00	5.20E−04	14,062	26,557	1.46	6.70E−29	5276	12,817	1.42	6.90E−33	6815	15,927
VGLL3 (vestigial like family member 3)	ENSG00000206538	− 1.09	1.10E−22	2351	1096	− 0.88	8.60E−09	3369	1924	− 1.00	9.80E−33	2038	1020	− 0.70	3.20E−08	2966	1832
CPM (carboxypeptidase M)	ENSG00000135678	− 1.28	1.30E−18	896	385	− 1.40	2.50E−18	728	237	− 1.39	5.60E−24	1053	407	− 1.26	3.60E−33	1043	440
IGFBP5 (insulin like growth factor binding protein 5)	ENSG00000115461	− 0.58	3.50E−06	251,976	174,891	− 0.36	5.80E−01	179,541	140,387	− 1.02	3.50E−29	253,204	127,426	− 1.06	3.10E−27	165,764	78,967
ADH1B (alcohol dehydrogenase 1B (class I), beta polypeptide)	ENSG00000196616	− 2.06	2.70E−04	6291	1905	− 2.18	7.50E−76	11,133	2493	− 2.29	1.10E−04	2143	693	− 1.97	3.20E−05	5099	1540
PRELP (proline/arginine-rich end leucine-rich repeat protein)	ENSG00000188783	− 1.66	7.80E−02	500	142	− 2.35	7.60E−39	657	149	− 1.53	4.20E−02	367	116	− 1.06	3.80E−01	366	223

Top five genes with smallest q-values were selected from each comparison yielding 13 genes in total