CEBPD modulates the airway smooth muscle transcriptomic response to glucocorticoids

Kan, Mengyuan; Sun, Maoyun; Jiang, Xiaofeng; Diwadkar, Avantika R.; Parikh, Vishal; Cao, Gaoyuan; Gebski, Eric; Jester, William; Lan, Bo; Panettieri, Reynold A.; Koziol-White, Cynthia; Lu, Quan; Himes, Blanca E.

doi:10.1186/s12931-022-02119-1

Respiratory Research

Table 4 Top differentially expressed genes in BUD versus control and BUD + TNFα versus TNFα in NT siRNA or CEBPD siRNA cells

From: CEBPD modulates the airway smooth muscle transcriptomic response to glucocorticoids

Gene symbol (gene name)	Ensembl ID	BUD versus control in NT siRNA				BUD versus control in CEBPD siRNA				BUD + TNF versus TNFα in NT siRNA				BUD + TNF versus TNFα in CEBPD siRNA
		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
		Log₂ FC	Q-value	No BUD	BUD	Log₂ FC	Q-value	No BUD	BUD	Log₂ FC	Q-value	No BUD	BUD	Log₂ FC	Q-value	No BUD	BUD
PER3 (period circadian clock 3)	ENSG00000049246	− 2.58	8.10E−81	602	101	− 2.26	1.00E−37	456	107	− 2.80	7.60E−34	287	43	− 2.67	1.00E−21	217	37
ANGPTL2 (angiopoietin like 2)	ENSG00000136859	− 1.05	3.90E−33	3939	1889	− 1.20	2.70E−40	3603	1608	− 1.06	2.20E−32	1624	782	− 1.13	6.80E−24	1580	712
GLUL (glutamate-ammonia ligase)	ENSG00000135821	0.87	9.90E−33	3762	6921	0.58	2.00E−16	2859	4276	0.46	5.30E−08	3276	4504	0.21	5.90E−02	2671	3091
DUSP1 (dual specificity phosphatase 1)	ENSG00000120129	0.95	8.40E−27	1279	2440	0.61	4.00E−15	2010	2801	0.60	4.30E−02	2464	3809	0.56	5.10E−09	3249	4834
MAOA (monoamine oxidase A)	ENSG00000189221	1.58	8.40E−27	213	600	1.82	2.20E−02	165	334	1.57	4.20E−06	275	724	1.61	1.60E−17	182	561
ADH1B (alcohol dehydrogenase 1B (class I), beta polypeptide)	ENSG00000196616	0.82	3.70E−14	6291	11,133	1.23	3.90E−50	1905	2493	1.40	6.50E−04	2143	5099	1.71	6.00E−03	693	1540
MMP10 (matrix metallopeptidase 10)	ENSG00000166670	− 1.12	1.90E−13	615	313	− 0.71	9.70E−03	620	140	− 1.17	6.00E−22	1457	665	− 1.10	3.90E−33	1911	901
NRG1 (neuregulin 1)	ENSG00000157168	− 0.94	1.30E−12	1095	538	− 0.85	1.40E−10	1476	416	− 1.18	1.00E−28	2334	1111	− 1.03	7.70E−46	3254	1626
NR1D2 (nuclear receptor subfamily 1 group D member 2)	ENSG00000174738	− 0.75	3.80E−11	1871	1116	− 0.50	3.90E−08	1888	1250	− 1.06	1.70E−26	1572	743	− 0.74	4.90E−14	1493	888
GABBR2 (gamma-aminobutyric acid (GABA) B receptor, 2)	ENSG00000136928	0.86	4.00E−11	427	739	1.16	3.50E−02	529	868	1.20	4.30E−21	393	854	1.50	6.30E−30	482	1294
PTX3 (pentraxin 3)	ENSG00000163661	0.69	1.50E−10	1778	2645	0.81	2.10E−02	1729	3765	1.24	7.10E−36	3294	8292	0.83	1.90E−25	3512	6464
KLF9 (Kruppel-like factor 9)	ENSG00000119138	0.75	2.50E−10	1692	2736	0.91	5.40E−29	1694	2361	0.55	1.40E−08	1472	2142	0.94	2.30E−13	1680	3156
MMP1 (matrix metallopeptidase 1)	ENSG00000196611	− 0.93	1.90E−06	19,142	10,575	− 0.88	1.80E−36	22,018	11,185	− 0.84	8.40E−14	78,174	47,428	− 1.00	6.50E−25	70,242	37,456
IL1B (interleukin 1 beta)	ENSG00000125538	− 1.05	2.50E−02	68	35	− 1.80	8.00E−06	97	35	− 1.54	1.60E−05	911	349	− 1.62	5.20E−34	1217	454
PTGS2 (prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase))	ENSG00000073756	− 0.83	1.20E−01	946	565	− 0.85	1.30E−12	928	549	− 1.78	2.00E−15	5682	1671	− 1.30	2.00E−48	6348	2738

Top five genes with smallest q-values were selected from each comparison yielding 15 genes in total

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