TYY1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TYY1.H12RSNP.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	13
Consensus	MAASATGGCSSMb
GC content	60.81%
Information content (bits; total / per base)	16.093 / 1.238
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	948

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)	0.955	0.979	0.912	0.96	0.959	0.985	6.141	6.603	387.658	679.102
Mouse	28 (176)	0.956	0.982	0.921	0.968	0.957	0.981	5.919	6.663	308.405	723.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.921	0.908	0.762	0.763	0.643	0.662
Overall, 4 experiments	best	0.998	0.998	0.986	0.983	0.858	0.869
Methyl HT-SELEX, 1 experiments	median	0.998	0.998	0.986	0.983	0.858	0.869
Methyl HT-SELEX, 1 experiments	best	0.998	0.998	0.986	0.983	0.858	0.869
Non-Methyl HT-SELEX, 3 experiments	median	0.89	0.868	0.754	0.743	0.643	0.653
Non-Methyl HT-SELEX, 3 experiments	best	0.952	0.948	0.77	0.782	0.644	0.671

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.122	4.495	0.176	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.H12RSNP.0.PSM.A.pcm
PWM	TYY1.H12RSNP.0.PSM.A.pwm
PFM	TYY1.H12RSNP.0.PSM.A.pfm
Alignment	TYY1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	TYY1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	TYY1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	TYY1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	TYY1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	TYY1.H12RSNP.0.PSM.A_homer_format_0.001.txt TYY1.H12RSNP.0.PSM.A_homer_format_0.0005.txt TYY1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	177.0	565.0	135.0	71.0
02	883.0	4.0	57.0	4.0
03	857.0	26.0	23.0	42.0
04	151.0	173.0	584.0	40.0
05	940.0	3.0	3.0	2.0
06	1.0	0.0	6.0	941.0
07	0.0	0.0	948.0	0.0
08	1.0	0.0	940.0	7.0
09	11.0	921.0	1.0	15.0
10	31.0	122.0	701.0	94.0
11	88.0	103.0	707.0	50.0
12	115.0	712.0	51.0	70.0
13	93.0	311.0	398.0	146.0

PFM

	A	C	G	T
01	0.187	0.596	0.142	0.075
02	0.931	0.004	0.06	0.004
03	0.904	0.027	0.024	0.044
04	0.159	0.182	0.616	0.042
05	0.992	0.003	0.003	0.002
06	0.001	0.0	0.006	0.993
07	0.0	0.0	1.0	0.0
08	0.001	0.0	0.992	0.007
09	0.012	0.972	0.001	0.016
10	0.033	0.129	0.739	0.099
11	0.093	0.109	0.746	0.053
12	0.121	0.751	0.054	0.074
13	0.098	0.328	0.42	0.154

PWM

	A	C	G	T
01	-0.289	0.865	-0.557	-1.189
02	1.31	-3.732	-1.403	-3.732
03	1.28	-2.153	-2.268	-1.698
04	-0.447	-0.312	0.898	-1.744
05	1.372	-3.925	-3.925	-4.163
06	-4.477	-4.937	-3.432	1.373
07	-4.937	-4.937	1.381	-4.937
08	-4.477	-4.937	1.372	-3.31
09	-2.933	1.352	-4.477	-2.659
10	-1.987	-0.657	1.08	-0.914
11	-0.979	-0.824	1.088	-1.53
12	-0.716	1.095	-1.51	-1.203
13	-0.924	0.27	0.515	-0.48

Standard thresholds

P-value	Threshold
0.001	2.00831
0.0005	3.36131
0.0001	6.1698