TYY1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TYY1.H12INVIVO.0.PSM.A
Gene (human)	YY1 (GeneCards)
Gene synonyms (human)	INO80S
Gene (mouse)	Yy1
Gene synonyms (mouse)	Ucrbp
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	vAWvATGGCSSM
GC content	59.01%
Information content (bits; total / per base)	14.461 / 1.205
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	998

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	53 (345)	0.96	0.983	0.911	0.963	0.967	0.985	6.003	6.403	397.569	698.42
Mouse	28 (176)	0.958	0.986	0.919	0.972	0.964	0.985	5.706	6.384	323.318	753.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.935	0.922	0.777	0.777	0.649	0.671
Overall, 4 experiments	best	0.998	0.998	0.987	0.984	0.863	0.873
Methyl HT-SELEX, 1 experiments	median	0.998	0.998	0.987	0.984	0.863	0.873
Methyl HT-SELEX, 1 experiments	best	0.998	0.998	0.987	0.984	0.863	0.873
Non-Methyl HT-SELEX, 3 experiments	median	0.908	0.886	0.769	0.759	0.646	0.661
Non-Methyl HT-SELEX, 3 experiments	best	0.962	0.957	0.784	0.795	0.652	0.68

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.601	3.489	0.173	0.146

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	YY1-like {2.3.3.9} (TFClass)
TFClass ID	TFClass: 2.3.3.9.1
HGNC	HGNC:12856
MGI	MGI:99150
EntrezGene (human)	GeneID:7528 (SSTAR profile)
EntrezGene (mouse)	GeneID:22632 (SSTAR profile)
UniProt ID (human)	TYY1_HUMAN
UniProt ID (mouse)	TYY1_MOUSE
UniProt AC (human)	P25490 (TFClass)
UniProt AC (mouse)	Q00899 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	53 human, 28 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	TYY1.H12INVIVO.0.PSM.A.pcm
PWM	TYY1.H12INVIVO.0.PSM.A.pwm
PFM	TYY1.H12INVIVO.0.PSM.A.pfm
Alignment	TYY1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TYY1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TYY1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TYY1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TYY1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TYY1.H12INVIVO.0.PSM.A_homer_format_0.001.txt TYY1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TYY1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	200.0	509.0	171.0	118.0
02	826.0	23.0	132.0	17.0
03	801.0	73.0	34.0	90.0
04	265.0	213.0	466.0	54.0
05	994.0	0.0	3.0	1.0
06	3.0	1.0	3.0	991.0
07	2.0	0.0	995.0	1.0
08	4.0	0.0	987.0	7.0
09	36.0	941.0	0.0	21.0
10	40.0	136.0	699.0	123.0
11	65.0	105.0	757.0	71.0
12	112.0	771.0	48.0	67.0

PFM

	A	C	G	T
01	0.2	0.51	0.171	0.118
02	0.828	0.023	0.132	0.017
03	0.803	0.073	0.034	0.09
04	0.266	0.213	0.467	0.054
05	0.996	0.0	0.003	0.001
06	0.003	0.001	0.003	0.993
07	0.002	0.0	0.997	0.001
08	0.004	0.0	0.989	0.007
09	0.036	0.943	0.0	0.021
10	0.04	0.136	0.7	0.123
11	0.065	0.105	0.759	0.071
12	0.112	0.773	0.048	0.067

PWM

	A	C	G	T
01	-0.219	0.709	-0.375	-0.741
02	1.192	-2.318	-0.631	-2.596
03	1.162	-1.213	-1.95	-1.008
04	0.06	-0.157	0.622	-1.506
05	1.377	-4.98	-3.973	-4.523
06	-3.973	-4.523	-3.973	1.374
07	-4.211	-4.98	1.378	-4.523
08	-3.781	-4.98	1.37	-3.36
09	-1.896	1.322	-4.98	-2.403
10	-1.795	-0.601	1.026	-0.7
11	-1.326	-0.856	1.105	-1.24
12	-0.793	1.124	-1.62	-1.296

Standard thresholds

P-value	Threshold
0.001	2.92021
0.0005	4.19398
0.0001	6.76049