Table 3.

ChIP-seq design and results

Sample	Strain	Genotype	Antibodya	Exptb	No. of reads	No. of mapped reads	% mapped
CenH3	NMF241	WTc	Anti-GFP	HTS41	22,648,972	1,868,888	8
	NMF166	WT	Anti-GFP	HTS114d	5,765,823	5,115,507	89
	NMF233	WT	Anti-GFP	HTS115d	3,396,810	2,991,616	88
Total					31,811,605	9,976,011	31
	NMF239	dim-5	Anti-GFP	HTS61	941,134	831,702	88
	NMF239	dim-5	Anti-GFP	HTS76	1,945,259	1,361,074	70
Total					2,886,393	2,192,776	76
	NMF232	hpo	Anti-GFP	HTS42	23,465,182	2,824,712	12
CEN-C	NMF225	WT	Anti-GFP	HTS125	16,749,444	14,853,136	89
CEN-T	NMF399	WT	Anti-GFP	HTS118d	3,584,558	1,842,613	51
H3K4me2	NMF229	WT	Anti-H3 K4me2	HTS14	6,978,488	3,620,059	52
H3K4me3	NMF39	WT	Anti-H3 K4me3	HTS62	1,265,661	1,180,098	93
	NMF39	WT	Anti-H3 K4me3	HTS77	11,944,378	10,021,030	84
Total					13,209,739	11,201,128	85
H3K9me3	NMF39	WT	Anti-H3 K9me3	HTS111	14,638,703	12,672,192	87
	NMF166	WT	Anti-H3 K9me3	HTS120d	4,818,433	4,229,931	88
MeDIP	NMF39	WT	Anti-5meC	HTS18	4,588,332	1,713,181	37

^aAntibodies used: anti-GFP, Abcam ab290; anti-H3K4me2, Upstate 07-030; anti-H3K4me3, Active Motif AR-0169; anti-H3 K9me3, Active Motif 39161; anti-5me-C, Diagenode MAb-5MECYT-100.

^bExperiment names were used to submit data to the FFGED (see Materials and Methods).

^cWT, wild type.

^dAdapter sequence indicated for samples that were multiplexed: HTS114, ACGT; HTS115, CTGT; HTS118, CCCT; HTS120, GCTT.