AP2C.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	AP2C.H12INVITRO.0.PSM.A
Gene (human)	TFAP2C (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tfap2c
Gene synonyms (mouse)	Tcfap2c
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	nhWWnGCCTSRGGSn
GC content	62.07%
Information content (bits; total / per base)	13.492 / 0.899
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	7724

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	24 (141)	0.883	0.942	0.757	0.87	0.768	0.85	2.155	2.721	133.481	397.638
Mouse	4 (25)	0.894	0.915	0.751	0.794	0.714	0.761	1.783	2.072	138.585	182.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.973	0.961	0.956	0.928	0.835	0.863
Overall, 5 experiments	best	0.999	0.998	0.998	0.996	0.933	0.918
Methyl HT-SELEX, 1 experiments	median	0.968	0.946	0.956	0.928	0.933	0.901
Methyl HT-SELEX, 1 experiments	best	0.968	0.946	0.956	0.928	0.933	0.901
Non-Methyl HT-SELEX, 4 experiments	median	0.985	0.978	0.897	0.902	0.732	0.771
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.998	0.996	0.899	0.918

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.205	4.101	0.183	0.111

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-span-helix factors (bHSH) {1.3} (TFClass)
TF family	AP-2 {1.3.1} (TFClass)
TF subfamily	{1.3.1.0} (TFClass)
TFClass ID	TFClass: 1.3.1.0.3
HGNC	HGNC:11744
MGI	MGI:106032
EntrezGene (human)	GeneID:7022 (SSTAR profile)
EntrezGene (mouse)	GeneID:21420 (SSTAR profile)
UniProt ID (human)	AP2C_HUMAN
UniProt ID (mouse)	AP2C_MOUSE
UniProt AC (human)	Q92754 (TFClass)
UniProt AC (mouse)	Q61312 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	24 human, 4 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	AP2C.H12INVITRO.0.PSM.A.pcm
PWM	AP2C.H12INVITRO.0.PSM.A.pwm
PFM	AP2C.H12INVITRO.0.PSM.A.pfm
Alignment	AP2C.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	AP2C.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	AP2C.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	AP2C.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	AP2C.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	AP2C.H12INVITRO.0.PSM.A_homer_format_0.001.txt AP2C.H12INVITRO.0.PSM.A_homer_format_0.0005.txt AP2C.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2931.75	1136.75	1782.75	1872.75
02	2700.5	1308.5	1153.5	2561.5
03	4772.0	308.0	1100.0	1544.0
04	1705.0	514.0	367.0	5138.0
05	1463.0	2315.0	1726.0	2220.0
06	39.0	2274.0	5374.0	37.0
07	1.0	7721.0	1.0	1.0
08	0.0	7724.0	0.0	0.0
09	2.0	1219.0	37.0	6466.0
10	404.0	3280.0	3655.0	385.0
11	5281.0	422.0	2006.0	15.0
12	320.0	4.0	7399.0	1.0
13	9.0	8.0	7700.0	7.0
14	224.25	4057.25	3095.25	347.25
15	1626.5	2267.5	1957.5	1872.5

PFM

	A	C	G	T
01	0.38	0.147	0.231	0.242
02	0.35	0.169	0.149	0.332
03	0.618	0.04	0.142	0.2
04	0.221	0.067	0.048	0.665
05	0.189	0.3	0.223	0.287
06	0.005	0.294	0.696	0.005
07	0.0	1.0	0.0	0.0
08	0.0	1.0	0.0	0.0
09	0.0	0.158	0.005	0.837
10	0.052	0.425	0.473	0.05
11	0.684	0.055	0.26	0.002
12	0.041	0.001	0.958	0.0
13	0.001	0.001	0.997	0.001
14	0.029	0.525	0.401	0.045
15	0.211	0.294	0.253	0.242

PWM

	A	C	G	T
01	0.417	-0.529	-0.08	-0.031
02	0.335	-0.389	-0.514	0.282
03	0.904	-1.83	-0.562	-0.223
04	-0.124	-1.32	-1.656	0.978
05	-0.277	0.181	-0.112	0.139
06	-3.848	0.163	1.023	-3.897
07	-6.392	1.385	-6.392	-6.392
08	-6.761	1.385	-6.761	-6.761
09	-6.123	-0.459	-3.897	1.208
10	-1.56	0.529	0.638	-1.608
11	1.005	-1.517	0.038	-4.72
12	-1.792	-5.736	1.342	-6.392
13	-5.148	-5.241	1.382	-5.344
14	-2.144	0.742	0.471	-1.71
15	-0.171	0.16	0.014	-0.031

Standard thresholds

P-value	Threshold
0.001	2.58786
0.0005	4.16151
0.0001	7.12761