GRHL1.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GRHL1.H12INVIVO.1.PS.A
Gene (human)	GRHL1 (GeneCards)
Gene synonyms (human)	LBP32, MGR, TFCP2L2
Gene (mouse)	Grhl1
Gene synonyms (mouse)	Mgr, Tcfcp2l2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	13
Consensus	vvRACWGGWYbdd
GC content	47.91%
Information content (bits; total / per base)	10.786 / 0.83
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1001

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	3 (20)	0.884	0.9	0.79	0.817	0.836	0.859	2.783	3.028	359.711	505.357

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.993	0.989	0.984	0.977	0.925	0.919
Overall, 8 experiments	best	0.999	0.999	0.995	0.993	0.986	0.98
Methyl HT-SELEX, 2 experiments	median	0.994	0.99	0.985	0.978	0.962	0.95
Methyl HT-SELEX, 2 experiments	best	0.996	0.993	0.992	0.987	0.979	0.971
Non-Methyl HT-SELEX, 6 experiments	median	0.988	0.983	0.933	0.926	0.815	0.826
Non-Methyl HT-SELEX, 6 experiments	best	0.999	0.999	0.995	0.993	0.986	0.98

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.778	0.495	0.711	0.505

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Grainyhead domain factors {6.7} (TFClass)
TF family	Grainyhead-related {6.7.1} (TFClass)
TF subfamily	GRH-like {6.7.1.1} (TFClass)
TFClass ID	TFClass: 6.7.1.1.1
HGNC	HGNC:17923
MGI	MGI:2182540
EntrezGene (human)	GeneID:29841 (SSTAR profile)
EntrezGene (mouse)	GeneID:195733 (SSTAR profile)
UniProt ID (human)	GRHL1_HUMAN
UniProt ID (mouse)	GRHL1_MOUSE
UniProt AC (human)	Q9NZI5 (TFClass)
UniProt AC (mouse)	Q921D9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	GRHL1.H12INVIVO.1.PS.A.pcm
PWM	GRHL1.H12INVIVO.1.PS.A.pwm
PFM	GRHL1.H12INVIVO.1.PS.A.pfm
Alignment	GRHL1.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	GRHL1.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	GRHL1.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	GRHL1.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	GRHL1.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	GRHL1.H12INVIVO.1.PS.A_homer_format_0.001.txt GRHL1.H12INVIVO.1.PS.A_homer_format_0.0005.txt GRHL1.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	326.0	350.0	204.0	121.0
02	471.0	112.0	329.0	89.0
03	693.0	4.0	277.0	27.0
04	797.0	3.0	172.0	29.0
05	3.0	994.0	4.0	0.0
06	461.0	126.0	18.0	396.0
07	36.0	10.0	945.0	10.0
08	0.0	3.0	998.0	0.0
09	122.0	91.0	7.0	781.0
10	91.0	218.0	12.0	680.0
11	129.0	222.0	149.0	501.0
12	161.0	94.0	397.0	349.0
13	258.0	93.0	402.0	248.0

PFM

	A	C	G	T
01	0.326	0.35	0.204	0.121
02	0.471	0.112	0.329	0.089
03	0.692	0.004	0.277	0.027
04	0.796	0.003	0.172	0.029
05	0.003	0.993	0.004	0.0
06	0.461	0.126	0.018	0.396
07	0.036	0.01	0.944	0.01
08	0.0	0.003	0.997	0.0
09	0.122	0.091	0.007	0.78
10	0.091	0.218	0.012	0.679
11	0.129	0.222	0.149	0.5
12	0.161	0.094	0.397	0.349
13	0.258	0.093	0.402	0.248

PWM

	A	C	G	T
01	0.263	0.334	-0.203	-0.719
02	0.629	-0.796	0.272	-1.021
03	1.014	-3.784	0.101	-2.171
04	1.154	-3.976	-0.372	-2.104
05	-3.976	1.374	-3.784	-4.983
06	0.608	-0.679	-2.547	0.456
07	-1.899	-3.067	1.324	-3.067
08	-4.983	-3.976	1.378	-4.983
09	-0.711	-1.0	-3.363	1.133
10	-1.0	-0.137	-2.91	0.995
11	-0.656	-0.119	-0.514	0.691
12	-0.437	-0.968	0.459	0.331
13	0.03	-0.978	0.471	-0.009

Standard thresholds

P-value	Threshold
0.001	4.58166
0.0005	5.56626
0.0001	7.44098