P53.H12INVITRO.1.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	P53.H12INVITRO.1.S.C
Gene (human)	TP53 (GeneCards)
Gene synonyms (human)	P53
Gene (mouse)	Tp53
Gene synonyms (mouse)	P53, Trp53
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	10
Consensus	ndCATGTYhn
GC content	45.52%
Information content (bits; total / per base)	9.438 / 0.944
Data sources	HT-SELEX
Aligned words	2320

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	97 (581)	0.833	0.937	0.747	0.886	0.773	0.878	2.328	3.03	201.699	680.26
Mouse	15 (101)	0.83	0.927	0.725	0.888	0.77	0.898	2.489	3.755	257.201	426.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.72	0.673	0.648	0.618	0.597	0.581
Non-Methyl HT-SELEX, 1 experiments	best	0.72	0.673	0.648	0.618	0.597	0.581

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.031	1.319	0.012	-0.0

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	p53 domain factors {6.3} (TFClass)
TF family	p53-related {6.3.1} (TFClass)
TF subfamily	{6.3.1.0} (TFClass)
TFClass ID	TFClass: 6.3.1.0.1
HGNC	HGNC:11998
MGI	MGI:98834
EntrezGene (human)	GeneID:7157 (SSTAR profile)
EntrezGene (mouse)	GeneID:22059 (SSTAR profile)
UniProt ID (human)	P53_HUMAN
UniProt ID (mouse)	P53_MOUSE
UniProt AC (human)	P04637 (TFClass)
UniProt AC (mouse)	P02340 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	97 human, 15 mouse
HT-SELEX	1
Methyl-HT-SELEX	0

PCM	P53.H12INVITRO.1.S.C.pcm
PWM	P53.H12INVITRO.1.S.C.pwm
PFM	P53.H12INVITRO.1.S.C.pfm
Alignment	P53.H12INVITRO.1.S.C.words.tsv
Threshold to P-value map	P53.H12INVITRO.1.S.C.thr
Motif in other formats
JASPAR format	P53.H12INVITRO.1.S.C_jaspar_format.txt
MEME format	P53.H12INVITRO.1.S.C_meme_format.meme
Transfac format	P53.H12INVITRO.1.S.C_transfac_format.txt
Homer format	P53.H12INVITRO.1.S.C_homer_format_0.001.txt P53.H12INVITRO.1.S.C_homer_format_0.0005.txt P53.H12INVITRO.1.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	528.0	522.0	623.0	647.0
02	947.25	188.25	695.25	489.25
03	12.0	2262.0	27.0	19.0
04	2094.0	22.0	59.0	145.0
05	29.0	52.0	1.0	2238.0
06	1.0	0.0	2319.0	0.0
07	2.0	266.0	0.0	2052.0
08	211.0	1068.0	57.0	984.0
09	512.25	1137.25	115.25	555.25
10	547.0	591.0	555.0	627.0

PFM

	A	C	G	T
01	0.228	0.225	0.269	0.279
02	0.408	0.081	0.3	0.211
03	0.005	0.975	0.012	0.008
04	0.903	0.009	0.025	0.063
05	0.013	0.022	0.0	0.965
06	0.0	0.0	1.0	0.0
07	0.001	0.115	0.0	0.884
08	0.091	0.46	0.025	0.424
09	0.221	0.49	0.05	0.239
10	0.236	0.255	0.239	0.27

PWM

	A	C	G	T
01	-0.094	-0.105	0.071	0.109
02	0.489	-1.118	0.181	-0.17
03	-3.732	1.358	-3.001	-3.325
04	1.281	-3.191	-2.257	-1.376
05	-2.934	-2.379	-5.289	1.348
06	-5.289	-5.705	1.383	-5.705
07	-4.996	-0.776	-5.705	1.261
08	-1.005	0.609	-2.29	0.527
09	-0.124	0.672	-1.603	-0.043
10	-0.058	0.019	-0.044	0.078

Standard thresholds

P-value	Threshold
0.001	4.953075
0.0005	5.92044
0.0001	7.65946