Table 3. Correspondence of transcriptome and qPCR verification on Arctic charr embryos.

Tissue	Name	Abbr	FDRm	FRDt	Effect	qPCR	Morph
Embryo	Alkaline phosphatase	Alp	0.070	0.001	0.986	*	SB
Embryo	Chondroitin sulfate N-acetylgalactosaminyltransferase 2	Cgat	0.004	0.331	-2.556
Embryo	Cytochrome c oxidase subunit 6B1	Cox6b1	0.058	0.632	-1.208
Embryo	B5X596 Keratin-associated protein 4-3	Krtap4-3	0.012	0.278	-1.986	*	AC
Embryo	Lysozyme C II	Lyz2	0.041	0.001	1.138	*	SB
Embryo	Natterin-like protein	Nattl	0.000	0.000	2.755	*	SB
Embryo	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6	Ndub6	0.098	0.670	-1.175
Embryo	Poly [ADP-ribose] polymerase 6	Parp6	0.108	0.379	-0.986	*	AC
Embryo	Ubiquitin-like protein 5	Ubl5	0.059	0.003	-1.234
Head	Claudin-4	Cldn4	0.068	0.000	1.343	*	SB/LB
Head	Major vault protein	Mvp	0.065	0.528	0.958	*	SB/LB
Head	Junction plakoglobin	Jup	0.051	0.006	1.147	*	SB/LB
Head	Lipolysis-stimulated lipoprotein receptor	Lsr	0.013	0.043	1.369	*	SB/LB
Head	TGF-beta receptor type-2	Tgfbr2	0.065	0.013	1.728	*	SB/LB
Head	Vitamin D3 receptor A	Vdra	0.053	0.052	1.312	*	SB/LB
Head	Retinoic acid receptor gamma-A	Rarg	0.012	0.001	1.403
Head	Adseverin	Scin	0.007	0.000	1.578	*	SB/LB

Tissue: which tissue was studied

Abbr: abbreviated paralog group or gene name

FRDm: FDR for comparison of SB and AC-charr in transcriptome

FDRt: FDR for comparison among developmental timepoints in transcriptome

Effect: logarithm of fold change between morphs, positive is higher in SB and negative higher in AC-charr in transcriptome (logFC.morph in supplemental dataset 1)

qPCR: results consistent with transcriptome (*), a blank cell reflects lack of correspondence

Morph: which morph(s) had higher expression in qPCR verification