Table 1.

vPECA model component and notations.

Data and variables	Notations	Examples
Individual and time-dependent data
Expression of TF	TFi,j,m: = expression of the mth TF of individual i on time j	TFW1,1,EPAS1 = 23.87
Expression of TG, not TF	TGi,j,l: = expression of the lth TG of individual i on time j	TGW1,1,NQO1 = 97.35
Accessibility of RE	Oi,j,k: = openness of the kth RE of individual i on time j	OW1,1,chr2:46589710-46594828, = 1.14
Individual and time dependent latent variable
Activation status of a RE	Zi,j,k: = activation status of the kth RE of the ith individual on time j	ZW1,1,chr2:46574334-46580523 = 2.72
Population dependent data
FST score	Xp,1: = FST score of pth SNP	Xrs3768729,1 = 4.62
iHS score	Xp,2: = iHS score of pth SNP	Xrs3768729,2 = 9
XP-EHH score	Xp,3: = XP-EHH score of pth SNP	Xrs3768729,3 = 1.94
PBS score	Xp,4: = PBS score of pth SNP	Xrs3768729,4 = 4.94
Weight of the pth SNP	wp: = weight of the pth SNP derived from LD score	wrs3768729 = 0.0583
TFs with motif on a RE	MBk: = set of TFs with motif match in kth RE	ARNT has motif match at chr2:46589710-46594828
Individual dependent data
The difference of Derived Allele Frequencies between two populations ΔDAF	Yp: = ΔDAF of pth SNP	Yrs3768729 = −0.8
Motif matching strength of TF on RE	Bi,k,m: = matching strength of the mth TF binding on the kth RE of individual i	BW1,chr2:46589710-46594828,BACH1 = 2.90
Population and individual dependent latent variables
Selection status of a RE	Sk: = selection status of the kth RE	Schr2:46589710-46594828 = 1