AP2C.H13RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	AP2C.H13RSNP.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	dSSCCTGRGGSnddd
GC content	74.13%
Information content (bits; total / per base)	14.048 / 0.937
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1001
Previous names	AP2C.H12RSNP.0.PSM.A

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)	0.843	0.904	0.692	0.794	0.777	0.883	2.295	3.035	123.06	317.886
Mouse	4 (25)	0.873	0.887	0.716	0.749	0.759	0.793	2.148	2.247	136.125	176.301

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.944	0.904	0.925	0.882	0.817	0.841
Overall, 5 experiments	best	0.996	0.993	0.993	0.988	0.895	0.902
Methyl HT-SELEX, 1 experiments	median	0.944	0.904	0.925	0.882	0.895	0.849
Methyl HT-SELEX, 1 experiments	best	0.944	0.904	0.925	0.882	0.895	0.849
Non-Methyl HT-SELEX, 4 experiments	median	0.868	0.858	0.793	0.795	0.678	0.704
Non-Methyl HT-SELEX, 4 experiments	best	0.996	0.993	0.993	0.988	0.884	0.902

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.408	5.933	0.208	0.149

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	AP2C.H13RSNP.0.PSM.A.pcm
PWM	AP2C.H13RSNP.0.PSM.A.pwm
PFM	AP2C.H13RSNP.0.PSM.A.pfm
Threshold to P-value map	AP2C.H13RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	AP2C.H13RSNP.0.PSM.A_jaspar_format.txt
MEME format	AP2C.H13RSNP.0.PSM.A_meme_format.meme
Transfac format	AP2C.H13RSNP.0.PSM.A_transfac_format.txt
Homer format	AP2C.H13RSNP.0.PSM.A_homer_format_0.001.txt AP2C.H13RSNP.0.PSM.A_homer_format_0.0005.txt AP2C.H13RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	229.0	114.0	293.0	365.0
02	88.0	136.0	650.0	127.0
03	16.0	576.0	403.0	6.0
04	3.0	984.0	13.0	1.0
05	1.0	965.0	1.0	34.0
06	24.0	85.0	37.0	855.0
07	5.0	98.0	867.0	31.0
08	355.0	36.0	604.0	6.0
09	47.0	1.0	953.0	0.0
10	1.0	10.0	989.0	1.0
11	13.0	680.0	297.0	11.0
12	286.0	241.0	170.0	304.0
13	302.0	86.0	519.0	94.0
14	154.0	111.0	540.0	196.0
15	151.0	92.0	579.0	179.0

PFM

	A	C	G	T
01	0.229	0.114	0.293	0.365
02	0.088	0.136	0.649	0.127
03	0.016	0.575	0.403	0.006
04	0.003	0.983	0.013	0.001
05	0.001	0.964	0.001	0.034
06	0.024	0.085	0.037	0.854
07	0.005	0.098	0.866	0.031
08	0.355	0.036	0.603	0.006
09	0.047	0.001	0.952	0.0
10	0.001	0.01	0.988	0.001
11	0.013	0.679	0.297	0.011
12	0.286	0.241	0.17	0.304
13	0.302	0.086	0.518	0.094
14	0.154	0.111	0.539	0.196
15	0.151	0.092	0.578	0.179

PWM

	A	C	G	T
01	-0.088	-0.778	0.157	0.375
02	-1.033	-0.604	0.95	-0.672
03	-2.654	0.83	0.474	-3.485
04	-3.976	1.364	-2.84	-4.526
05	-4.526	1.345	-4.526	-1.953
06	-2.282	-1.067	-1.873	1.224
07	-3.623	-0.927	1.238	-2.041
08	0.348	-1.899	0.877	-3.485
09	-1.643	-4.526	1.332	-4.983
10	-4.526	-3.067	1.369	-4.526
11	-2.84	0.995	0.17	-2.986
12	0.133	-0.037	-0.383	0.193
13	0.187	-1.055	0.726	-0.968
14	-0.481	-0.804	0.765	-0.242
15	-0.501	-0.989	0.835	-0.332

Standard thresholds

P-value	Threshold
0.001	3.21106
0.0005	4.40606
0.0001	6.84976