AP2A.H14INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	AP2A.H14INVIVO.0.PSM.A
Gene (human)	TFAP2A (GeneCards)
Gene synonyms (human)	AP2TF, TFAP2
Gene (mouse)	Tfap2a
Gene synonyms (mouse)	Ap2tf, Tcfap2a
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	nhnSCCYGRGGSnd
GC content	66.91%
Information content (bits; total / per base)	11.853 / 0.847
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	957
Previous names	AP2A.H12INVIVO.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	10 (58)	0.894	0.964	0.787	0.919	0.828	0.902	2.61	3.159	206.011	449.114
Mouse	5 (34)	0.933	0.956	0.841	0.892	0.86	0.908	2.808	3.358	341.601	484.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.989	0.983	0.871	0.878	0.678	0.724
Overall, 7 experiments	best	0.998	0.997	0.997	0.996	0.995	0.992
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.997	0.996	0.995	0.992
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.997	0.996	0.995	0.992
Non-Methyl HT-SELEX, 6 experiments	median	0.981	0.973	0.846	0.853	0.672	0.712
Non-Methyl HT-SELEX, 6 experiments	best	0.996	0.994	0.991	0.986	0.985	0.977

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	26.653	5.972	0.381	0.174

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: 1.3.1.0.1
HGNC	HGNC:11742
MGI	MGI:104671
EntrezGene (human)	GeneID:7020 (SSTAR profile)
EntrezGene (mouse)	GeneID:21418 (SSTAR profile)
UniProt ID (human)	AP2A_HUMAN
UniProt ID (mouse)	AP2A_MOUSE
UniProt AC (human)	P05549 (TFClass)
UniProt AC (mouse)	P34056 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	10 human, 5 mouse
HT-SELEX	6
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	AP2A.H14INVIVO.0.PSM.A.pcm
PWM	AP2A.H14INVIVO.0.PSM.A.pwm
PFM	AP2A.H14INVIVO.0.PSM.A.pfm
Threshold to P-value map	AP2A.H14INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	AP2A.H14INVIVO.0.PSM.A_jaspar_format.txt
MEME format	AP2A.H14INVIVO.0.PSM.A_meme_format.meme
Transfac format	AP2A.H14INVIVO.0.PSM.A_transfac_format.txt
Homer format	AP2A.H14INVIVO.0.PSM.A_homer_format_0.001.txt AP2A.H14INVIVO.0.PSM.A_homer_format_0.0005.txt AP2A.H14INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	355.0	231.0	189.0	182.0
02	163.0	149.0	130.0	515.0
03	214.0	145.0	368.0	230.0
04	13.0	469.0	442.0	33.0
05	0.0	947.0	3.0	7.0
06	2.0	904.0	1.0	50.0
07	49.0	216.0	21.0	671.0
08	140.0	0.0	817.0	0.0
09	476.0	71.0	399.0	11.0
10	171.0	1.0	783.0	2.0
11	3.0	1.0	949.0	4.0
12	22.0	496.0	426.0	13.0
13	250.0	345.0	139.0	223.0
14	490.0	124.0	198.0	145.0

PFM

	A	C	G	T
01	0.371	0.241	0.197	0.19
02	0.17	0.156	0.136	0.538
03	0.224	0.152	0.385	0.24
04	0.014	0.49	0.462	0.034
05	0.0	0.99	0.003	0.007
06	0.002	0.945	0.001	0.052
07	0.051	0.226	0.022	0.701
08	0.146	0.0	0.854	0.0
09	0.497	0.074	0.417	0.011
10	0.179	0.001	0.818	0.002
11	0.003	0.001	0.992	0.004
12	0.023	0.518	0.445	0.014
13	0.261	0.361	0.145	0.233
14	0.512	0.13	0.207	0.152

PWM

	A	C	G	T
01	0.392	-0.035	-0.234	-0.271
02	-0.38	-0.469	-0.604	0.763
03	-0.111	-0.496	0.428	-0.039
04	-2.796	0.67	0.611	-1.937
05	-4.945	1.37	-3.934	-3.32
06	-4.172	1.324	-4.486	-1.539
07	-1.558	-0.101	-2.362	1.027
08	-0.531	-4.945	1.223	-4.945
09	0.684	-1.198	0.509	-2.942
10	-0.333	-4.486	1.181	-4.172
11	-3.934	-4.486	1.373	-3.741
12	-2.319	0.725	0.574	-2.796
13	0.044	0.364	-0.538	-0.07
14	0.713	-0.651	-0.188	-0.496

Standard thresholds

P-value	Threshold
0.001	4.08016
0.0005	5.21296
0.0001	7.43676