Table 2. Genes and isoforms ≥ ± 1.5-fold (up-regulated and down-regulated), differentially expressed in longissimus dorsi muscle of Polish Landrace pigs.

Gene		Ensembl ID	DESeq		edgeR		baySeq FDR	Validation qPCR PC 1
								r	P
Symbol	Name		FC	Ad P-value	FC	FDR
PPP1R11	Protein phosphatase 1, regulatory (inhibitor) subunit 11	ENSSSCG00000028347	2.40	***	5.13	***	***	0.63	≤0.05
CNN1	calponin 1, basic, smooth muscle	ENSSSCG00000013614	2.06	***	2.60	***	***	0.89	≤0.001
NG	Similar to NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 6, (NDUFA6)	ENSSSCG00000021119	2.05	*	4.46	**	***
PVALB	Parvalbumin	ENSSSCG00000000138	1.91	*	4.26	*	*	0.97	≤0.001
NG	Similar to transmembrane protein 106C (TMEM106C)	ENSSSCG00000028397	1.88	*	2.75	*	0.057
CIB2	Calcium and integrin binding family member 2	ENSSSCG00000001762	1.81	**	2.12	*	***
CHPT1	Cholinephosphotransferase 1	ENSSSCG00000000864	1.66	*	1.86	0.051	*
TFDP2	Transcription factor Dp-2	ENSSSCG00000026809	1.58	**	1.66	0.17	**
UBE2J1	Ubiquitin-conjugating enzyme E2 J1	ENSSSCG00000004317	1.55	*	1.62	0.254	*
IGLC	Ig lambda chain C region	ENSSSCG00000010044	-1.48	0.321	-8.06	*	***
BCAR3	Breast cancer anti-estrogen resistance protein 3	ENSSSCG00000006893	-1.80	**	-2.09	0.055	**
OAS2	2’-5’-oligoadenylate synthase 2	ENSSSCG00000009881	-1.91	*	-3.04	*	*	0.91	≤ 0.001
HP	Haptoglobin	ENSSSCG00000002749	-1.95	*	-5.34	*	***	0.92	≤ 0.001
NG	Similar to cytochrome P450 family 4 subfamily F member 3hydroxylase 1 (CYP4F3 or CYP4F55)	ENSSSCG00000028753	-1.96	*	-3.11	*	***
SEPT6-007	6-isoform of septin 6	ENSSSCT00000013798	-1.76	*	-2.11	*	*

Abbreviation: Ad P–value -adjusted P-value, FDR– false discovery rate; P-value: ***P<0.001, **P<0.01, *P<0.05, FC– fold change, PL– Polish Landrace pigs, NG– novel gene according to Ensembl browser,

¹Pearson correlation coefficient r