TYY1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TYY1.H12INVITRO.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	hAAvATGGCSSM
GC content	58.15%
Information content (bits; total / per base)	15.044 / 1.254
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	925

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)	0.958	0.981	0.91	0.961	0.965	0.987	6.044	6.464	394.42	692.0
Mouse	28 (176)	0.957	0.984	0.919	0.971	0.963	0.984	5.757	6.441	318.241	743.041

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.933	0.92	0.78	0.778	0.66	0.675
Overall, 4 experiments	best	0.999	0.998	0.988	0.986	0.865	0.875
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.988	0.986	0.865	0.875
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.988	0.986	0.865	0.875
Non-Methyl HT-SELEX, 3 experiments	median	0.902	0.88	0.772	0.758	0.66	0.666
Non-Methyl HT-SELEX, 3 experiments	best	0.964	0.96	0.789	0.799	0.661	0.685

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.762	3.778	0.17	0.139

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.H12INVITRO.0.PSM.A.pcm
PWM	TYY1.H12INVITRO.0.PSM.A.pwm
PFM	TYY1.H12INVITRO.0.PSM.A.pfm
Alignment	TYY1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TYY1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TYY1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TYY1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TYY1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TYY1.H12INVITRO.0.PSM.A_homer_format_0.001.txt TYY1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TYY1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	171.0	544.0	104.0	106.0
02	824.0	17.0	80.0	4.0
03	802.0	34.0	25.0	64.0
04	254.0	193.0	441.0	37.0
05	918.0	1.0	6.0	0.0
06	0.0	0.0	3.0	922.0
07	0.0	1.0	923.0	1.0
08	1.0	1.0	916.0	7.0
09	34.0	860.0	2.0	29.0
10	34.0	140.0	613.0	138.0
11	79.0	81.0	703.0	62.0
12	83.0	725.0	42.0	75.0

PFM

	A	C	G	T
01	0.185	0.588	0.112	0.115
02	0.891	0.018	0.086	0.004
03	0.867	0.037	0.027	0.069
04	0.275	0.209	0.477	0.04
05	0.992	0.001	0.006	0.0
06	0.0	0.0	0.003	0.997
07	0.0	0.001	0.998	0.001
08	0.001	0.001	0.99	0.008
09	0.037	0.93	0.002	0.031
10	0.037	0.151	0.663	0.149
11	0.085	0.088	0.76	0.067
12	0.09	0.784	0.045	0.081

PWM

	A	C	G	T
01	-0.299	0.851	-0.79	-0.771
02	1.265	-2.522	-1.048	-3.709
03	1.238	-1.875	-2.166	-1.266
04	0.093	-0.179	0.642	-1.795
05	1.373	-4.455	-3.409	-4.916
06	-4.916	-4.916	-3.902	1.378
07	-4.916	-4.455	1.379	-4.455
08	-4.455	-4.455	1.371	-3.287
09	-1.875	1.308	-4.141	-2.026
10	-1.875	-0.497	0.97	-0.511
11	-1.06	-1.036	1.107	-1.297
12	-1.012	1.138	-1.673	-1.111

Standard thresholds

P-value	Threshold
0.001	2.62491
0.0005	3.927365
0.0001	6.567435