GCR.H13CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GCR.H13CORE.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	19
Consensus	nRGdACAhndTGTWCYndn
GC content	44.1%
Information content (bits; total / per base)	17.293 / 0.91
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1686
Previous names	GCR.H12CORE.0.PS.A

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)	0.869	0.963	0.814	0.927	0.833	0.94	3.343	4.82	201.137	822.538
Mouse	93 (512)	0.833	0.988	0.772	0.977	0.794	0.985	3.119	5.959	192.27	719.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.767	0.776	0.638	0.652	0.575	0.591
Non-Methyl HT-SELEX, 2 experiments	best	0.838	0.848	0.672	0.692	0.592	0.615

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.776	17.998	0.167	0.069

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	GCR.H13CORE.0.PS.A.pcm
PWM	GCR.H13CORE.0.PS.A.pwm
PFM	GCR.H13CORE.0.PS.A.pfm
Threshold to P-value map	GCR.H13CORE.0.PS.A.thr
Motif in other formats
JASPAR format	GCR.H13CORE.0.PS.A_jaspar_format.txt
MEME format	GCR.H13CORE.0.PS.A_meme_format.meme
Transfac format	GCR.H13CORE.0.PS.A_transfac_format.txt
Homer format	GCR.H13CORE.0.PS.A_homer_format_0.001.txt GCR.H13CORE.0.PS.A_homer_format_0.0005.txt GCR.H13CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	424.75	455.75	418.75	386.75
02	1012.75	176.75	465.75	30.75
03	64.0	18.0	1579.0	25.0
04	648.0	139.0	337.0	562.0
05	1637.0	10.0	25.0	14.0
06	11.0	1646.0	12.0	17.0
07	1496.0	11.0	150.0	29.0
08	233.0	529.0	120.0	804.0
09	583.0	336.0	323.0	444.0
10	881.0	147.0	471.0	187.0
11	30.0	39.0	8.0	1609.0
12	0.0	0.0	1686.0	0.0
13	8.0	0.0	0.0	1678.0
14	796.0	49.0	6.0	835.0
15	0.0	1686.0	0.0	0.0
16	148.0	1002.0	40.0	496.0
17	307.0	536.0	288.0	555.0
18	319.5	166.5	482.5	717.5
19	373.75	318.75	447.75	545.75

PFM

	A	C	G	T
01	0.252	0.27	0.248	0.229
02	0.601	0.105	0.276	0.018
03	0.038	0.011	0.937	0.015
04	0.384	0.082	0.2	0.333
05	0.971	0.006	0.015	0.008
06	0.007	0.976	0.007	0.01
07	0.887	0.007	0.089	0.017
08	0.138	0.314	0.071	0.477
09	0.346	0.199	0.192	0.263
10	0.523	0.087	0.279	0.111
11	0.018	0.023	0.005	0.954
12	0.0	0.0	1.0	0.0
13	0.005	0.0	0.0	0.995
14	0.472	0.029	0.004	0.495
15	0.0	1.0	0.0	0.0
16	0.088	0.594	0.024	0.294
17	0.182	0.318	0.171	0.329
18	0.19	0.099	0.286	0.426
19	0.222	0.189	0.266	0.324

PWM

	A	C	G	T
01	0.008	0.078	-0.007	-0.086
02	0.874	-0.863	0.099	-2.564
03	-1.861	-3.06	1.318	-2.758
04	0.429	-1.1	-0.223	0.287
05	1.354	-3.575	-2.758	-3.285
06	-3.494	1.359	-3.419	-3.111
07	1.264	-3.494	-1.025	-2.619
08	-0.589	0.226	-1.245	0.644
09	0.323	-0.226	-0.265	0.052
10	0.735	-1.045	0.111	-0.807
11	-2.587	-2.338	-3.76	1.336
12	-5.429	-5.429	1.383	-5.429
13	-3.76	-5.429	-5.429	1.378
14	0.634	-2.119	-3.987	0.681
15	-5.429	1.383	-5.429	-5.429
16	-1.039	0.863	-2.314	0.162
17	-0.315	0.239	-0.379	0.274
18	-0.276	-0.922	0.135	0.53
19	-0.12	-0.278	0.06	0.257

Standard thresholds

P-value	Threshold
0.001	0.84911
0.0005	2.34446
0.0001	5.45991