Table 5 IPF-standardized abundances provides agreement amongst all metrics

From: Using an ensemble of statistical metrics to quantify large sets of plant transcription factor binding sites

	Metrics
TF	LP	CO	JAC	LI	CF	K	PHI
ABF1	20	20	20	20	20	20	20
ABFS	9	9	9	9	9	9	9
ABI3/FUS3	67	67	67	67	67	67	67
ABI4(2)	64	64	64	64	64	64	64
AG	14	14	14	14	14	14	14
AGP1	48	48	48	48	48	48	48
ALFIN1	34	34	34	34	34	34	34
ARF1	65	65	65	65	65	65	65
ARR10	39	39	39	39	39	39	39
ARR2	69	69	69	69	69	69	69
ATHB-5	43	43	43	43	43	43	43
ATHB1	40	40	40	40	40	40	40
ATHB5-1	63	63	63	63	63	63	63
ATHB5-2	37	37	37	37	37	37	37
ATHB6	27	27	27	27	27	27	27
ATHB9	53	53	53	53	53	53	53
AtLEC2	56	56	56	56	56	56	56
ATML1/PDF2	71	71	71	71	71	71	71
AtMYB2	29	29	29	29	29	29	29
AtMYB77	60	60	60	60	60	60	60
AtMYC2	2	2	2	2	2	2	2
AtSPL3	30	30	30	30	30	30	30
BLR/RPL/PNY	35	35	35	35	35	35	35
bZIP910(2)	10	10	10	10	10	10	10
bZIP911	12	12	12	12	12	12	12
bZIP911(1)	11	11	11	11	11	11	11
bZIP911(2)	17	17	17	17	17	17	17
CBF	43	43	43	43	43	43	43
CDC5	4	4	4	4	4	4	4
DOF2	42	42	42	42	42	42	42
DPBF1/2	51	51	51	51	51	51	51
E2Fa	70	70	70	70	70	70	70
E2Fc/d	1	1	1	1	1	1	1
EmBP-1	25	25	25	25	25	25	25
GAMYB	47	47	47	47	47	47	47
Gamyb	58	58	58	58	58	58	58
GATA-1	18	18	18	18	18	18	18
GATA-1/2/3/4	16	16	16	16	16	16	16
GT-3b	13	13	13	13	13	13	13
HAHB4	46	46	46	46	46	46	46
HAT5	43	43	43	43	43	43	43
HSE	19	19	19	19	19	19	19
HVH21	41	41	41	41	41	41	41
HY5	6	6	6	6	6	6	6
ID1	28	28	28	28	28	28	28
MYB.PH3(1)	55	55	55	55	55	55	55
MYB.PH3(2)	52	52	52	52	52	52	52
MYB98	62	62	62	62	62	62	62
O2	33	33	33	33	33	33	33
OsbHLH66	26	26	26	26	26	26	26
OsCBT	3	3	3	3	3	3	3
P	57	57	57	57	57	57	57
PCF2	61	61	61	61	61	61	61
PCF5	59	59	59	59	59	59	59
PEND	31	31	31	31	31	31	31
PIF3(2)	21	21	21	21	21	21	21
RAP2.2	66	66	66	66	66	66	66
RAV1(1)	49	49	49	49	49	49	49
RAV1(2)	38	38	38	38	38	38	38
STF1	24	24	24	24	24	24	24
TAC1	68	68	68	68	68	68	68
TaMYB80	54	54	54	54	54	54	54
TBP	36	36	36	36	36	36	36
TEIL	50	50	50	50	50	50	50
TGA1	23	23	23	23	23	23	23
TGA1a	32	32	32	32	32	32	32
WRKY11	8	8	8	8	8	8	8
WRKY18/40/62	7	7	7	7	7	7	7
WRKY26/38/43	15	15	15	15	15	15	15
WRKY6	5	5	5	5	5	5	5
ZAP1	22	22	22	22	22	22	22

By having all metrics agree as to magnitude of over-representation per TFBS, the investigator will have an easier time identifying TFBSs of interest. Much like unstandardized ranks (Table4), standardized ranks also range from 1 to N such that ranks in the vicinity of 1 are most over-represented while ranks in the vicinity of N are least over-represented.

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ISSN: 1746-4811

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