P53.H12INVIVO.1.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	P53.H12INVIVO.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	13
Consensus	nnnRGACATGThn
GC content	46.62%
Information content (bits; total / per base)	13.252 / 1.019
Data sources	HT-SELEX
Aligned words	655

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)	0.83	0.938	0.786	0.912	0.822	0.94	3.069	4.296	253.569	791.553
Mouse	15 (101)	0.804	0.917	0.744	0.899	0.82	0.937	3.01	4.289	320.495	581.237

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.712	0.673	0.643	0.616	0.594	0.58
Non-Methyl HT-SELEX, 1 experiments	best	0.712	0.673	0.643	0.616	0.594	0.58

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.099	2.656	0.009	-0.002

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.H12INVIVO.1.S.C.pcm
PWM	P53.H12INVIVO.1.S.C.pwm
PFM	P53.H12INVIVO.1.S.C.pfm
Alignment	P53.H12INVIVO.1.S.C.words.tsv
Threshold to P-value map	P53.H12INVIVO.1.S.C.thr
Motif in other formats
JASPAR format	P53.H12INVIVO.1.S.C_jaspar_format.txt
MEME format	P53.H12INVIVO.1.S.C_meme_format.meme
Transfac format	P53.H12INVIVO.1.S.C_transfac_format.txt
Homer format	P53.H12INVIVO.1.S.C_homer_format_0.001.txt P53.H12INVIVO.1.S.C_homer_format_0.0005.txt P53.H12INVIVO.1.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	119.0	233.0	109.0	194.0
02	137.25	257.25	129.25	131.25
03	116.0	240.0	124.0	175.0
04	201.0	2.0	384.0	68.0
05	145.0	0.0	500.0	10.0
06	577.0	0.0	78.0	0.0
07	0.0	655.0	0.0	0.0
08	655.0	0.0	0.0	0.0
09	0.0	0.0	0.0	655.0
10	0.0	0.0	655.0	0.0
11	6.0	61.0	0.0	588.0
12	173.5	164.5	30.5	286.5
13	130.75	220.75	126.75	176.75

PFM

	A	C	G	T
01	0.182	0.356	0.166	0.296
02	0.21	0.393	0.197	0.2
03	0.177	0.366	0.189	0.267
04	0.307	0.003	0.586	0.104
05	0.221	0.0	0.763	0.015
06	0.881	0.0	0.119	0.0
07	0.0	1.0	0.0	0.0
08	1.0	0.0	0.0	0.0
09	0.0	0.0	0.0	1.0
10	0.0	0.0	1.0	0.0
11	0.009	0.093	0.0	0.898
12	0.265	0.251	0.047	0.437
13	0.2	0.337	0.194	0.27

PWM

	A	C	G	T
01	-0.316	0.35	-0.402	0.168
02	-0.175	0.448	-0.234	-0.219
03	-0.341	0.379	-0.275	0.066
04	0.203	-3.821	0.847	-0.865
05	-0.12	-4.625	1.11	-2.655
06	1.252	-4.625	-0.731	-4.625
07	-4.625	1.379	-4.625	-4.625
08	1.379	-4.625	-4.625	-4.625
09	-4.625	-4.625	-4.625	1.379
10	-4.625	-4.625	1.379	-4.625
11	-3.077	-0.971	-4.625	1.271
12	0.057	0.005	-1.639	0.555
13	-0.223	0.296	-0.253	0.076

Standard thresholds

P-value	Threshold
0.001	3.01346
0.0005	4.20051
0.0001	7.36968