NR1D2.H12RSNP.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR1D2.H12RSNP.0.P.D
Gene (human)	NR1D2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nr1d2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	18
Consensus	dbnhWbYRGGKCAvdddn
GC content	53.83%
Information content (bits; total / per base)	10.95 / 0.608
Data sources	ChIP-Seq
Aligned words	993

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
Mouse	2 (12)	0.784	0.824	0.696	0.746	0.77	0.81	2.891	3.204	116.993	178.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.997	0.995	0.952	0.948	0.795	0.813
Overall, 2 experiments	best	0.997	0.996	0.969	0.964	0.821	0.835
Methyl HT-SELEX, 1 experiments	median	0.996	0.995	0.935	0.932	0.77	0.79
Methyl HT-SELEX, 1 experiments	best	0.996	0.995	0.935	0.932	0.77	0.79
Non-Methyl HT-SELEX, 1 experiments	median	0.997	0.996	0.969	0.964	0.821	0.835
Non-Methyl HT-SELEX, 1 experiments	best	0.997	0.996	0.969	0.964	0.821	0.835

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	REVERBA (NR1D) {2.1.2.3} (TFClass)
TFClass ID	TFClass: 2.1.2.3.2
HGNC	HGNC:7963
MGI	MGI:2449205
EntrezGene (human)	GeneID:9975 (SSTAR profile)
EntrezGene (mouse)	GeneID:353187 (SSTAR profile)
UniProt ID (human)	NR1D2_HUMAN
UniProt ID (mouse)	NR1D2_MOUSE
UniProt AC (human)	Q14995 (TFClass)
UniProt AC (mouse)	Q60674 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	NR1D2.H12RSNP.0.P.D.pcm
PWM	NR1D2.H12RSNP.0.P.D.pwm
PFM	NR1D2.H12RSNP.0.P.D.pfm
Alignment	NR1D2.H12RSNP.0.P.D.words.tsv
Threshold to P-value map	NR1D2.H12RSNP.0.P.D.thr
Motif in other formats
JASPAR format	NR1D2.H12RSNP.0.P.D_jaspar_format.txt
MEME format	NR1D2.H12RSNP.0.P.D_meme_format.meme
Transfac format	NR1D2.H12RSNP.0.P.D_transfac_format.txt
Homer format	NR1D2.H12RSNP.0.P.D_homer_format_0.001.txt NR1D2.H12RSNP.0.P.D_homer_format_0.0005.txt NR1D2.H12RSNP.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	186.0	121.0	504.0	182.0
02	160.0	169.0	503.0	161.0
03	233.0	166.0	240.0	354.0
04	427.0	362.0	82.0	122.0
05	647.0	18.0	51.0	277.0
06	86.0	409.0	373.0	125.0
07	88.0	103.0	87.0	715.0
08	456.0	12.0	508.0	17.0
09	25.0	1.0	897.0	70.0
10	20.0	12.0	953.0	8.0
11	92.0	90.0	173.0	638.0
12	18.0	900.0	27.0	48.0
13	960.0	6.0	16.0	11.0
14	206.0	218.0	461.0	108.0
15	247.0	116.0	257.0	373.0
16	245.0	102.0	508.0	138.0
17	177.0	137.0	451.0	228.0
18	223.0	182.0	406.0	182.0

PFM

	A	C	G	T
01	0.187	0.122	0.508	0.183
02	0.161	0.17	0.507	0.162
03	0.235	0.167	0.242	0.356
04	0.43	0.365	0.083	0.123
05	0.652	0.018	0.051	0.279
06	0.087	0.412	0.376	0.126
07	0.089	0.104	0.088	0.72
08	0.459	0.012	0.512	0.017
09	0.025	0.001	0.903	0.07
10	0.02	0.012	0.96	0.008
11	0.093	0.091	0.174	0.642
12	0.018	0.906	0.027	0.048
13	0.967	0.006	0.016	0.011
14	0.207	0.22	0.464	0.109
15	0.249	0.117	0.259	0.376
16	0.247	0.103	0.512	0.139
17	0.178	0.138	0.454	0.23
18	0.225	0.183	0.409	0.183

PWM

	A	C	G	T
01	-0.286	-0.711	0.705	-0.308
02	-0.435	-0.381	0.703	-0.429
03	-0.063	-0.399	-0.034	0.353
04	0.539	0.375	-1.094	-0.703
05	0.954	-2.539	-1.556	0.109
06	-1.047	0.497	0.405	-0.679
07	-1.025	-0.87	-1.036	1.053
08	0.605	-2.902	0.713	-2.591
09	-2.236	-4.519	1.28	-1.249
10	-2.443	-2.902	1.34	-3.247
11	-0.981	-1.003	-0.358	0.94
12	-2.539	1.283	-2.164	-1.615
13	1.347	-3.477	-2.646	-2.978
14	-0.185	-0.129	0.616	-0.823
15	-0.005	-0.753	0.034	0.405
16	-0.013	-0.88	0.713	-0.582
17	-0.336	-0.589	0.594	-0.084
18	-0.106	-0.308	0.489	-0.308

Standard thresholds

P-value	Threshold
0.001	4.51246
0.0005	5.40826
0.0001	7.23751