GRHL1.H12INVITRO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GRHL1.H12INVITRO.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	12
Consensus	nWAACCRGTWhn
GC content	43.05%
Information content (bits; total / per base)	12.716 / 1.06
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9744

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)	0.843	0.865	0.747	0.776	0.787	0.815	2.513	2.729	290.955	417.678

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.996	0.994	0.989	0.984	0.921	0.919
Overall, 8 experiments	best	1.0	1.0	0.997	0.996	0.99	0.987
Methyl HT-SELEX, 2 experiments	median	0.996	0.994	0.989	0.984	0.961	0.952
Methyl HT-SELEX, 2 experiments	best	0.997	0.995	0.992	0.989	0.976	0.969
Non-Methyl HT-SELEX, 6 experiments	median	0.992	0.99	0.93	0.928	0.804	0.818
Non-Methyl HT-SELEX, 6 experiments	best	1.0	1.0	0.997	0.996	0.99	0.987

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.855	0.545	0.808	0.554

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.H12INVITRO.1.PS.A.pcm
PWM	GRHL1.H12INVITRO.1.PS.A.pwm
PFM	GRHL1.H12INVITRO.1.PS.A.pfm
Alignment	GRHL1.H12INVITRO.1.PS.A.words.tsv
Threshold to P-value map	GRHL1.H12INVITRO.1.PS.A.thr
Motif in other formats
JASPAR format	GRHL1.H12INVITRO.1.PS.A_jaspar_format.txt
MEME format	GRHL1.H12INVITRO.1.PS.A_meme_format.meme
Transfac format	GRHL1.H12INVITRO.1.PS.A_transfac_format.txt
Homer format	GRHL1.H12INVITRO.1.PS.A_homer_format_0.001.txt GRHL1.H12INVITRO.1.PS.A_homer_format_0.0005.txt GRHL1.H12INVITRO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3519.0	2018.0	1931.0	2276.0
02	7389.25	440.25	907.25	1007.25
03	8794.0	165.0	431.0	354.0
04	9693.0	1.0	2.0	48.0
05	0.0	9744.0	0.0	0.0
06	0.0	9722.0	8.0	14.0
07	1907.0	3.0	6059.0	1775.0
08	5.0	61.0	9677.0	1.0
09	1362.0	432.0	188.0	7762.0
10	1645.0	1451.0	290.0	6358.0
11	2022.5	1713.5	1022.5	4985.5
12	2926.25	1846.25	2228.25	2743.25

PFM

	A	C	G	T
01	0.361	0.207	0.198	0.234
02	0.758	0.045	0.093	0.103
03	0.903	0.017	0.044	0.036
04	0.995	0.0	0.0	0.005
05	0.0	1.0	0.0	0.0
06	0.0	0.998	0.001	0.001
07	0.196	0.0	0.622	0.182
08	0.001	0.006	0.993	0.0
09	0.14	0.044	0.019	0.797
10	0.169	0.149	0.03	0.653
11	0.208	0.176	0.105	0.512
12	0.3	0.189	0.229	0.282

PWM

	A	C	G	T
01	0.368	-0.188	-0.232	-0.068
02	1.109	-1.707	-0.986	-0.882
03	1.283	-2.679	-1.728	-1.923
04	1.38	-6.606	-6.341	-3.881
05	-6.968	1.386	-6.968	-6.968
06	-6.968	1.383	-5.467	-5.008
07	-0.245	-6.132	0.911	-0.316
08	-5.812	-3.651	1.379	-6.606
09	-0.581	-1.725	-2.55	1.158
10	-0.392	-0.517	-2.121	0.959
11	-0.186	-0.351	-0.867	0.716
12	0.183	-0.277	-0.089	0.119

Standard thresholds

P-value	Threshold
0.001	3.40081
0.0005	4.78641
0.0001	7.308915