GCR.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GCR.H12INVITRO.1.S.B
Gene (human)	NR3C1 (GeneCards)
Gene synonyms (human)	GRL
Gene (mouse)	Nr3c1
Gene synonyms (mouse)	Grl, Grl1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	9
Consensus	nvYGTWCbn
GC content	46.28%
Information content (bits; total / per base)	6.657 / 0.74
Data sources	HT-SELEX
Aligned words	9618

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	82 (479)	0.782	0.905	0.628	0.81	0.715	0.797	1.758	2.04	73.114	233.77
Mouse	93 (512)	0.741	0.836	0.578	0.713	0.703	0.797	1.704	2.048	68.594	233.252

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.759	0.727	0.654	0.641	0.588	0.589
Non-Methyl HT-SELEX, 2 experiments	best	0.822	0.799	0.689	0.683	0.606	0.614

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.563	15.76	0.133	0.055

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Steroid hormone receptors {2.1.1} (TFClass)
TF subfamily	GR-like (NR3C) {2.1.1.1} (TFClass)
TFClass ID	TFClass: 2.1.1.1.1
HGNC	HGNC:7978
MGI	MGI:95824
EntrezGene (human)	GeneID:2908 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	GCR_HUMAN
UniProt ID (mouse)	GCR_MOUSE
UniProt AC (human)	P04150 (TFClass)
UniProt AC (mouse)	P06537 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	82 human, 93 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	GCR.H12INVITRO.1.S.B.pcm
PWM	GCR.H12INVITRO.1.S.B.pwm
PFM	GCR.H12INVITRO.1.S.B.pfm
Alignment	GCR.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	GCR.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	GCR.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	GCR.H12INVITRO.1.S.B_meme_format.meme
Transfac format	GCR.H12INVITRO.1.S.B_transfac_format.txt
Homer format	GCR.H12INVITRO.1.S.B_homer_format_0.001.txt GCR.H12INVITRO.1.S.B_homer_format_0.0005.txt GCR.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2799.75	2608.75	1792.75	2416.75
02	4215.25	1514.25	2844.25	1044.25
03	830.0	1453.0	247.0	7088.0
04	1.0	78.0	9441.0	98.0
05	104.0	137.0	0.0	9377.0
06	3245.0	865.0	547.0	4961.0
07	252.0	8423.0	57.0	886.0
08	955.0	3698.0	1550.0	3415.0
09	1904.75	2691.75	2114.75	2906.75

PFM

	A	C	G	T
01	0.291	0.271	0.186	0.251
02	0.438	0.157	0.296	0.109
03	0.086	0.151	0.026	0.737
04	0.0	0.008	0.982	0.01
05	0.011	0.014	0.0	0.975
06	0.337	0.09	0.057	0.516
07	0.026	0.876	0.006	0.092
08	0.099	0.384	0.161	0.355
09	0.198	0.28	0.22	0.302

PWM

	A	C	G	T
01	0.152	0.081	-0.293	0.005
02	0.561	-0.462	0.168	-0.833
03	-1.062	-0.503	-2.267	1.08
04	-6.594	-3.4	1.367	-3.178
05	-3.12	-2.849	-6.956	1.36
06	0.3	-1.021	-1.477	0.724
07	-2.248	1.253	-3.704	-0.997
08	-0.922	0.43	-0.439	0.351
09	-0.233	0.113	-0.128	0.19

Standard thresholds

P-value	Threshold
0.001	5.284805
0.0005	5.832095
0.0001	6.616505