ATF3.H13RSNP.3.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF3.H13RSNP.3.SM.B
Gene (human)	ATF3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Atf3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	3
Quality	B

Motif length	19
Consensus	nhvvTGATGACGTCAThnn
GC content	47.33%
Information content (bits; total / per base)	22.103 / 1.163
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	378
Previous names	ATF3.H12RSNP.3.SM.B

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	18 (118)	0.547	0.676	0.438	0.643	0.55	0.777	1.677	3.669	36.906	285.585
Mouse	13 (85)	0.56	0.612	0.448	0.538	0.647	0.685	1.843	2.506	35.854	71.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	1.0	1.0	1.0	1.0	0.999	0.999
Overall, 4 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	0.999	0.998	0.997
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	1.0	0.999	0.999
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.021	6.609	0.13	0.117

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.859	0.688	0.812	0.531
batch 2	0.877	0.793	0.815	0.683

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Fos-related {1.1.2} (TFClass)
TF subfamily	ATF3-like {1.1.2.2} (TFClass)
TFClass ID	TFClass: 1.1.2.2.1
HGNC	HGNC:785
MGI	MGI:109384
EntrezGene (human)	GeneID:467 (SSTAR profile)
EntrezGene (mouse)	GeneID:11910 (SSTAR profile)
UniProt ID (human)	ATF3_HUMAN
UniProt ID (mouse)	ATF3_MOUSE
UniProt AC (human)	P18847 (TFClass)
UniProt AC (mouse)	Q60765 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	18 human, 13 mouse
HT-SELEX	2
Methyl-HT-SELEX	2
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	ATF3.H13RSNP.3.SM.B.pcm
PWM	ATF3.H13RSNP.3.SM.B.pwm
PFM	ATF3.H13RSNP.3.SM.B.pfm
Threshold to P-value map	ATF3.H13RSNP.3.SM.B.thr
Motif in other formats
JASPAR format	ATF3.H13RSNP.3.SM.B_jaspar_format.txt
MEME format	ATF3.H13RSNP.3.SM.B_meme_format.meme
Transfac format	ATF3.H13RSNP.3.SM.B_transfac_format.txt
Homer format	ATF3.H13RSNP.3.SM.B_homer_format_0.001.txt ATF3.H13RSNP.3.SM.B_homer_format_0.0005.txt ATF3.H13RSNP.3.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	89.5	90.5	114.5	83.5
02	117.5	78.5	47.5	134.5
03	110.0	105.0	128.0	35.0
04	150.0	42.0	160.0	26.0
05	6.0	59.0	13.0	300.0
06	30.0	3.0	325.0	20.0
07	373.0	0.0	5.0	0.0
08	0.0	0.0	0.0	378.0
09	0.0	0.0	378.0	0.0
10	378.0	0.0	0.0	0.0
11	0.0	374.0	0.0	4.0
12	1.0	0.0	377.0	0.0
13	0.0	0.0	0.0	378.0
14	2.0	376.0	0.0	0.0
15	378.0	0.0	0.0	0.0
16	0.0	79.0	7.0	292.0
17	64.0	213.0	36.0	65.0
18	101.0	85.0	120.0	72.0
19	85.5	94.5	88.5	109.5

PFM

	A	C	G	T
01	0.237	0.239	0.303	0.221
02	0.311	0.208	0.126	0.356
03	0.291	0.278	0.339	0.093
04	0.397	0.111	0.423	0.069
05	0.016	0.156	0.034	0.794
06	0.079	0.008	0.86	0.053
07	0.987	0.0	0.013	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	1.0	0.0
10	1.0	0.0	0.0	0.0
11	0.0	0.989	0.0	0.011
12	0.003	0.0	0.997	0.0
13	0.0	0.0	0.0	1.0
14	0.005	0.995	0.0	0.0
15	1.0	0.0	0.0	0.0
16	0.0	0.209	0.019	0.772
17	0.169	0.563	0.095	0.172
18	0.267	0.225	0.317	0.19
19	0.226	0.25	0.234	0.29

PWM

	A	C	G	T
01	-0.053	-0.043	0.189	-0.122
02	0.215	-0.182	-0.673	0.348
03	0.15	0.104	0.299	-0.967
04	0.456	-0.792	0.52	-1.251
05	-2.551	-0.462	-1.891	1.145
06	-1.115	-3.064	1.224	-1.497
07	1.361	-4.17	-2.695	-4.17
08	-4.17	-4.17	-4.17	1.375
09	-4.17	-4.17	1.375	-4.17
10	1.375	-4.17	-4.17	-4.17
11	-4.17	1.364	-4.17	-2.862
12	-3.654	-4.17	1.372	-4.17
13	-4.17	-4.17	-4.17	1.375
14	-3.316	1.369	-4.17	-4.17
15	1.375	-4.17	-4.17	-4.17
16	-4.17	-0.176	-2.426	1.118
17	-0.382	0.804	-0.94	-0.367
18	0.066	-0.104	0.236	-0.267
19	-0.098	0.0	-0.065	0.145

Standard thresholds

P-value	Threshold
0.001	-2.23124
0.0005	-0.53034
0.0001	3.07936