Table 2.

Selected up- and down-regulated genes. Information about the top 15 up- and 15 down-regulated DE genes from both the DeSeq2 and EdgeR methods. Ordered by LogFC calculated by EdgeR.

DE genes			DESeq2		EdgeR		UP/DOWN
Gene ID	Associated gene name	Description	LogFC	P-adj	LogFC	P-adj
ENSSSCG00000028871	LOC396866	Cystatin-A1	0.691	4,35E$-$24 *	5.375	1.02E$-$14	Upregulated
ENSSSCG00000030385	C3	Complement C3	1.427	4.69E$-$63	2.698	2.60E$-$43	Upregulated
ENSSSCG00000021728	LGALS2	Galectin 2	0.646	5,38E$-$15 *	1.507	3.71E$-$05	Upregulated
ENSSSCG00000028525	SAA3	Serum Amyloid A3	0.841	4.67E$-$25	1.211	2.88E$-$21	Upregulated
ENSSSCG00000001101	SCGN	Secretagogin, EF-Hand Calcium Binding Protein	0.554	6.74E$-$09	1.018	9.06E$-$05	Upregulated
ENSSSCG00000028982	AKR1C4	Aldo-Keto Reductase Family 1 Member C4	0.869	2.61E$-$76	0.953	4.61E$-$54	Upregulated
ENSSSCG00000025277	AKR1CL1	Aldo-Keto Reductase Family 1, Member C-Like 1	0.866	3.96E$-$76	0.949	5.46E$-$54	Upregulated
ENSSSCG00000004678	DUOX2	Dual Oxidase 2	0.515	1.99E$-$09	0.721	6.93E$-$09	Upregulated
ENSSSCG00000010146	LGALS8	Galectin 8	0.453	1.41E$-$06	0.691	2.39E$-$15	Upregulated
ENSSSCG00000025273	CYP11A1	Cytochrome P450 Family 11 Subfamily A Member 1	0.51	1.39E$-$11	0.648	3.80E$-$11	Upregulated
ENSSSCG00000003402	PGD	Phosphogluconate Dehydrogenase	0.611	3.62E$-$61	0.647	2.71E$-$36	Upregulated
ENSSSCG00000008959	CXCL2	C-X-C Motif Chemokine Ligand 2	0.491	5.15E$-$13	0.59	1.10E$-$11	Upregulated
ENSSSCG00000007435	PLTP	Phospholipid Transfer Protein	0.436	7.49E$-$09	0.544	3.54E$-$08	Upregulated
ENSSSCG00000010853	EPHX1	Epoxide Hydrolase 1	0.444	5.20E$-$15	0.503	1.76E$-$06	Upregulated
ENSSSCG00000000843	TXNRD1	Thioredoxin Reductase 1	0.426	7.45E$-$14	0.482	7.33E$-$13	Upregulated
ENSSSCG00000017135	ZNF750	Zinc Finger Protein 750	$-$0.741	7,84E$-$26 *	$-$4.899	3.43E$-$15	Downregulated
ENSSSCG00000009399	CYSLTR2	Cysteinyl Leukotriene Receptor 2	$-$0.439	1,01E$-$07 *	$-$1.034	2.57E$-$02	Downregulated
ENSSSCG00000013401	DKK3	Dickkopf WNT Signaling Pathway Inhibitor 3	$-$0.581	5.15E$-$13	$-$0.774	1.35E$-$12	Downregulated
ENSSSCG00000016273	HTR2B	5-Hydroxytryptamine Receptor 2B	$-$0.434	1.37E$-$05	$-$0.735	2.12E$-$03	Downregulated
ENSSSCG00000014232	LOX	Lysyl Oxidase	$-$0.464	1.06E$-$06	$-$0.718	1.39E$-$04	Downregulated
ENSSSCG00000011217	NEK10	NIMA Related Kinase 10	$-$0.418	2.80E$-$05	$-$0.689	4.20E$-$03	Downregulated
ENSSSCG00000003810	UBE2U	Ubiquitin Conjugating Enzyme E2 U (Putative)	$-$0.392	1.38E$-$04	$-$0.676	8.30E$-$03	Downregulated
ENSSSCG00000011441	TNNC1	Troponin C1, Slow Skeletal And Cardiac Type	$-$0.399	5.92E$-$05	$-$0.633	3.27E$-$03	Downregulated
ENSSSCG00000015413	FGL2	Fibrinogen Like 2	$-$0.487	1.81E$-$15	$-$0.554	1.64E$-$14	Downregulated
ENSSSCG00000008334	MXD1	MAX Dimerization Protein 1	$-$0.385	3.21E$-$06	$-$0.486	3.02E$-$05	Downregulated
ENSSSCG00000027157	SLC40A1	Solute Carrier Family 40 Member 1	$-$0.365	1.23E$-$05	$-$0.462	3.19E$-$05	Downregulated
ENSSSCG00000006072	VPS13B	Vacuolar Protein Sorting 13 Homolog B	$-$0.359	4.30E$-$05	$-$0.469	5.52E$-$04	Downregulated
ENSSSCG00000028322	BTG2	BTG Anti-Proliferation Factor 2	$-$0.394	2.61E$-$09	$-$0.452	2.29E$-$04	Downregulated
ENSSSCG00000016059	STAT4	Signal Transducer And Activator Of Transcription 4	$-$0.354	6.36E$-$06	$-$0.43	6.75E$-$05	Downregulated
ENSSSCG00000028196	MFF	Mitochondrial Fission Factor	$-$0.352	6.40E$-$06	$-$0.427	3.85E$-$05	Downregulated

* In the cases where EdgeR detected a DE gene with high significance and the padj was not calculated in DESeq2 due to the presence of one outlier, we checked case by case and validated as DE, whenever suitable. The adjusted P-value showed in these cases is the value calculated prior to multitest for demonstration purposes only.