A common regulatory haplotype doubles lactoferrin concentration in milk

Table 3 Peaks from ChIP-seq and ATAC-seq that overlap with top pQTL SNPs for each Lf phenotype

Phenotype	Top SNP	Position	Peak name	Peak location	QVal
LogPeak	rs133536129	52984449	Ac-443	52984080–52984603	25.0
			Me1-202	52981402–52984701	10.2
			Me3-405	52984124–52984609	12.1
			ATAC-103	52984170–52984748	8.1
LogMid	rs384918755	52953612	Ac-425	52951712–52956226	166.6
			Me1-195	52950247–52958565	13.4
			Me3-391	52951824–52956227	952.3
			ATAC-94	52953062–52954626	443.6
LogLate	rs137774559	52946182	Ac-422	52944818–52948471	106.4
			Me1-194	52944846–52949322	23.9
			Me3-388	52945942–52946608	11.4
Agg	rs110659162	52986092	Ac-444	52985453–52986580	12.4
			Me1-203	52985484–52987687	3.4

Top SNP rsIDs and ARS-UCD1.2 positions (on BTA22) are given, along with overlapping peak locations on the same reference genome and chromosome. Peak names are given by dataset (histone modification type or ATAC-seq) and peak number as assigned by the peak caller. The QVal column represents the adjusted log-pvalue as calculated by the peak caller

ISSN: 1297-9686