NR1D2.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR1D2.H12INVITRO.0.P.B
Gene (human)	NR1D2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nr1d2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	18
Consensus	ddvnhWbYRGGKCAvndd
GC content	53.37%
Information content (bits; total / per base)	10.935 / 0.607
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)	0.778	0.819	0.686	0.742	0.758	0.803	2.844	3.174	112.04	174.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.998	0.997	0.953	0.95	0.79	0.811
Overall, 2 experiments	best	0.998	0.997	0.972	0.968	0.82	0.836
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.933	0.932	0.759	0.785
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.933	0.932	0.759	0.785
Non-Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.972	0.968	0.82	0.836
Non-Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.972	0.968	0.82	0.836

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.H12INVITRO.0.P.B.pcm
PWM	NR1D2.H12INVITRO.0.P.B.pwm
PFM	NR1D2.H12INVITRO.0.P.B.pfm
Alignment	NR1D2.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	NR1D2.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	NR1D2.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	NR1D2.H12INVITRO.0.P.B_meme_format.meme
Transfac format	NR1D2.H12INVITRO.0.P.B_transfac_format.txt
Homer format	NR1D2.H12INVITRO.0.P.B_homer_format_0.001.txt NR1D2.H12INVITRO.0.P.B_homer_format_0.0005.txt NR1D2.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	384.0	123.0	288.0	198.0
02	164.0	93.0	554.0	182.0
03	158.0	151.0	562.0	122.0
04	214.0	164.0	253.0	362.0
05	394.0	403.0	60.0	136.0
06	683.0	15.0	39.0	256.0
07	85.0	418.0	380.0	110.0
08	85.0	120.0	88.0	700.0
09	458.0	16.0	496.0	23.0
10	19.0	3.0	900.0	71.0
11	26.0	13.0	940.0	14.0
12	95.0	121.0	171.0	606.0
13	29.0	897.0	27.0	40.0
14	956.0	7.0	16.0	14.0
15	225.0	207.0	439.0	122.0
16	259.0	133.0	252.0	349.0
17	246.0	106.0	503.0	138.0
18	194.0	155.0	426.0	218.0

PFM

	A	C	G	T
01	0.387	0.124	0.29	0.199
02	0.165	0.094	0.558	0.183
03	0.159	0.152	0.566	0.123
04	0.216	0.165	0.255	0.365
05	0.397	0.406	0.06	0.137
06	0.688	0.015	0.039	0.258
07	0.086	0.421	0.383	0.111
08	0.086	0.121	0.089	0.705
09	0.461	0.016	0.499	0.023
10	0.019	0.003	0.906	0.072
11	0.026	0.013	0.947	0.014
12	0.096	0.122	0.172	0.61
13	0.029	0.903	0.027	0.04
14	0.963	0.007	0.016	0.014
15	0.227	0.208	0.442	0.123
16	0.261	0.134	0.254	0.351
17	0.248	0.107	0.507	0.139
18	0.195	0.156	0.429	0.22

PWM

	A	C	G	T
01	0.434	-0.695	0.148	-0.224
02	-0.411	-0.97	0.799	-0.308
03	-0.448	-0.493	0.813	-0.703
04	-0.147	-0.411	0.019	0.375
05	0.459	0.482	-1.399	-0.596
06	1.008	-2.704	-1.815	0.031
07	-1.059	0.518	0.423	-0.805
08	-1.059	-0.72	-1.025	1.032
09	0.609	-2.646	0.689	-2.314
10	-2.49	-3.968	1.283	-1.235
11	-2.199	-2.832	1.326	-2.766
12	-0.949	-0.711	-0.37	0.888
13	-2.096	1.28	-2.164	-1.79
14	1.343	-3.355	-2.646	-2.766
15	-0.098	-0.18	0.567	-0.703
16	0.042	-0.618	0.015	0.339
17	-0.009	-0.842	0.703	-0.582
18	-0.245	-0.467	0.537	-0.129

Standard thresholds

P-value	Threshold
0.001	4.50921
0.0005	5.39481
0.0001	7.21701