TFAP4.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TFAP4.H12INVIVO.0.PSM.A
Gene (human)	TFAP4 (GeneCards)
Gene synonyms (human)	BHLHC41
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	vCAGCTGdbb
GC content	59.02%
Information content (bits; total / per base)	12.439 / 1.244
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1000

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	6 (33)	0.943	0.974	0.862	0.927	0.915	0.937	3.16	3.34	536.638	802.409

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.997	0.994	0.995	0.992	0.974	0.971
Overall, 8 experiments	best	0.999	0.998	0.999	0.997	0.996	0.993
Methyl HT-SELEX, 2 experiments	median	0.997	0.994	0.995	0.992	0.988	0.983
Methyl HT-SELEX, 2 experiments	best	0.997	0.996	0.995	0.993	0.989	0.984
Non-Methyl HT-SELEX, 6 experiments	median	0.996	0.993	0.995	0.991	0.96	0.958
Non-Methyl HT-SELEX, 6 experiments	best	0.999	0.998	0.999	0.997	0.996	0.993

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	100.0	3.977	0.394	0.317

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	bHLH-ZIP {1.2.6} (TFClass)
TF subfamily	AP4 {1.2.6.4} (TFClass)
TFClass ID	TFClass: 1.2.6.4.1
HGNC	HGNC:11745
MGI
EntrezGene (human)	GeneID:7023 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	TFAP4_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q01664 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	TFAP4.H12INVIVO.0.PSM.A.pcm
PWM	TFAP4.H12INVIVO.0.PSM.A.pwm
PFM	TFAP4.H12INVIVO.0.PSM.A.pfm
Alignment	TFAP4.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TFAP4.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TFAP4.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TFAP4.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TFAP4.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TFAP4.H12INVIVO.0.PSM.A_homer_format_0.001.txt TFAP4.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TFAP4.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	287.0	517.0	126.0	70.0
02	0.0	999.0	0.0	1.0
03	986.0	2.0	4.0	8.0
04	2.0	16.0	978.0	4.0
05	7.0	966.0	23.0	4.0
06	3.0	1.0	0.0	996.0
07	3.0	1.0	995.0	1.0
08	494.0	56.0	177.0	273.0
09	48.0	149.0	377.0	426.0
10	141.0	355.0	160.0	344.0

PFM

	A	C	G	T
01	0.287	0.517	0.126	0.07
02	0.0	0.999	0.0	0.001
03	0.986	0.002	0.004	0.008
04	0.002	0.016	0.978	0.004
05	0.007	0.966	0.023	0.004
06	0.003	0.001	0.0	0.996
07	0.003	0.001	0.995	0.001
08	0.494	0.056	0.177	0.273
09	0.048	0.149	0.377	0.426
10	0.141	0.355	0.16	0.344

PWM

	A	C	G	T
01	0.137	0.723	-0.678	-1.255
02	-4.982	1.38	-4.982	-4.525
03	1.367	-4.213	-3.783	-3.253
04	-4.213	-2.653	1.359	-3.783
05	-3.362	1.347	-2.32	-3.783
06	-3.975	-4.525	-4.982	1.377
07	-3.975	-4.525	1.376	-4.525
08	0.678	-1.473	-0.342	0.087
09	-1.622	-0.513	0.408	0.53
10	-0.567	0.349	-0.442	0.317

Standard thresholds

P-value	Threshold
0.001	3.49821
0.0005	4.41968
0.0001	7.70866