GCR.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GCR.H12INVITRO.0.PS.A
Gene (human)	NR3C1 (GeneCards)
Gene synonyms (human)	GRL
Gene (mouse)	Nr3c1
Gene synonyms (mouse)	Grl, Grl1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	18
Consensus	RGdACAhnRTGTWCYbdn
GC content	43.29%
Information content (bits; total / per base)	16.762 / 0.931
Data sources	ChIP-Seq + HT-SELEX
Aligned words	591

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)	0.866	0.955	0.803	0.909	0.827	0.931	3.247	4.604	189.268	780.337
Mouse	93 (512)	0.827	0.977	0.757	0.959	0.791	0.976	3.014	5.682	182.547	706.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.776	0.78	0.645	0.657	0.578	0.594
Non-Methyl HT-SELEX, 2 experiments	best	0.845	0.852	0.68	0.698	0.595	0.618

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.651	16.57	0.159	0.068

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

PCM

	A	C	G	T
01	330.75	56.75	168.75	34.75
02	27.0	21.0	526.0	17.0
03	265.0	47.0	103.0	176.0
04	547.0	7.0	16.0	21.0
05	9.0	552.0	17.0	13.0
06	505.0	18.0	47.0	21.0
07	83.0	172.0	64.0	272.0
08	201.0	113.0	96.0	181.0
09	386.0	20.0	180.0	5.0
10	12.0	11.0	0.0	568.0
11	0.0	0.0	591.0	0.0
12	1.0	0.0	0.0	590.0
13	289.0	10.0	4.0	288.0
14	0.0	591.0	0.0	0.0
15	45.0	319.0	17.0	210.0
16	75.0	213.0	121.0	182.0
17	106.0	76.0	167.0	242.0
18	133.5	120.5	140.5	196.5

PFM

	A	C	G	T
01	0.56	0.096	0.286	0.059
02	0.046	0.036	0.89	0.029
03	0.448	0.08	0.174	0.298
04	0.926	0.012	0.027	0.036
05	0.015	0.934	0.029	0.022
06	0.854	0.03	0.08	0.036
07	0.14	0.291	0.108	0.46
08	0.34	0.191	0.162	0.306
09	0.653	0.034	0.305	0.008
10	0.02	0.019	0.0	0.961
11	0.0	0.0	1.0	0.0
12	0.002	0.0	0.0	0.998
13	0.489	0.017	0.007	0.487
14	0.0	1.0	0.0	0.0
15	0.076	0.54	0.029	0.355
16	0.127	0.36	0.205	0.308
17	0.179	0.129	0.283	0.409
18	0.226	0.204	0.238	0.332

PWM

	A	C	G	T
01	0.8	-0.94	0.132	-1.413
02	-1.653	-1.889	1.262	-2.083
03	0.579	-1.123	-0.356	0.173
04	1.301	-2.855	-2.139	-1.889
05	-2.646	1.31	-2.083	-2.326
06	1.221	-2.031	-1.123	-1.889
07	-0.568	0.15	-0.823	0.605
08	0.305	-0.265	-0.425	0.201
09	0.954	-1.934	0.196	-3.12
10	-2.397	-2.473	-4.539	1.339
11	-4.539	-4.539	1.378	-4.539
12	-4.053	-4.539	-4.539	1.377
13	0.666	-2.556	-3.284	0.662
14	-4.539	1.378	-4.539	-4.539
15	-1.165	0.764	-2.083	0.348
16	-0.668	0.362	-0.197	0.206
17	-0.328	-0.655	0.121	0.489
18	-0.1	-0.201	-0.05	0.282

Standard thresholds

P-value	Threshold
0.001	1.89561
0.0005	3.23551
0.0001	6.01881