NR1H4.H12INVITRO.1.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR1H4.H12INVITRO.1.P.D
Gene (human)	NR1H4 (GeneCards)
Gene synonyms (human)	BAR, FXR, HRR1, RIP14
Gene (mouse)	Nr1h4
Gene synonyms (mouse)	Bar, Fxr, Rip14
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	18
Consensus	RGKbYRnTGACCYbnddd
GC content	55.0%
Information content (bits; total / per base)	12.781 / 0.71
Data sources	ChIP-Seq
Aligned words	1002

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	2 (14)	0.941	0.946	0.901	0.91	0.912	0.919	4.039	4.206	300.045	354.796
Mouse	4 (20)	0.833	0.855	0.762	0.81	0.759	0.793	2.778	3.309	329.076	405.678

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	LXR (NR1H) {2.1.2.7} (TFClass)
TFClass ID	TFClass: 2.1.2.7.3
HGNC	HGNC:7967
MGI	MGI:1352464
EntrezGene (human)	GeneID:9971 (SSTAR profile)
EntrezGene (mouse)	GeneID:20186 (SSTAR profile)
UniProt ID (human)	NR1H4_HUMAN
UniProt ID (mouse)	NR1H4_MOUSE
UniProt AC (human)	Q96RI1 (TFClass)
UniProt AC (mouse)	Q60641 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 4 mouse
HT-SELEX	0
Methyl-HT-SELEX	0

PCM	NR1H4.H12INVITRO.1.P.D.pcm
PWM	NR1H4.H12INVITRO.1.P.D.pwm
PFM	NR1H4.H12INVITRO.1.P.D.pfm
Alignment	NR1H4.H12INVITRO.1.P.D.words.tsv
Threshold to P-value map	NR1H4.H12INVITRO.1.P.D.thr
Motif in other formats
JASPAR format	NR1H4.H12INVITRO.1.P.D_jaspar_format.txt
MEME format	NR1H4.H12INVITRO.1.P.D_meme_format.meme
Transfac format	NR1H4.H12INVITRO.1.P.D_transfac_format.txt
Homer format	NR1H4.H12INVITRO.1.P.D_homer_format_0.001.txt NR1H4.H12INVITRO.1.P.D_homer_format_0.0005.txt NR1H4.H12INVITRO.1.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	606.0	64.0	274.0	58.0
02	68.0	4.0	850.0	80.0
03	72.0	20.0	771.0	139.0
04	90.0	173.0	257.0	482.0
05	27.0	732.0	104.0	139.0
06	760.0	51.0	133.0	58.0
07	366.0	229.0	169.0	238.0
08	21.0	20.0	24.0	937.0
09	18.0	40.0	940.0	4.0
10	830.0	70.0	79.0	23.0
11	190.0	798.0	7.0	7.0
12	74.0	903.0	0.0	25.0
13	35.0	382.0	55.0	530.0
14	119.0	433.0	137.0	313.0
15	220.0	141.0	293.0	348.0
16	285.0	159.0	397.0	161.0
17	174.0	136.0	457.0	235.0
18	189.0	165.0	452.0	196.0

PFM

	A	C	G	T
01	0.605	0.064	0.273	0.058
02	0.068	0.004	0.848	0.08
03	0.072	0.02	0.769	0.139
04	0.09	0.173	0.256	0.481
05	0.027	0.731	0.104	0.139
06	0.758	0.051	0.133	0.058
07	0.365	0.229	0.169	0.238
08	0.021	0.02	0.024	0.935
09	0.018	0.04	0.938	0.004
10	0.828	0.07	0.079	0.023
11	0.19	0.796	0.007	0.007
12	0.074	0.901	0.0	0.025
13	0.035	0.381	0.055	0.529
14	0.119	0.432	0.137	0.312
15	0.22	0.141	0.292	0.347
16	0.284	0.159	0.396	0.161
17	0.174	0.136	0.456	0.235
18	0.189	0.165	0.451	0.196

PWM

	A	C	G	T
01	0.879	-1.345	0.089	-1.441
02	-1.286	-3.785	1.217	-1.127
03	-1.23	-2.452	1.12	-0.584
04	-1.012	-0.367	0.025	0.651
05	-2.172	1.068	-0.869	-0.584
06	1.105	-1.565	-0.627	-1.441
07	0.377	-0.089	-0.39	-0.051
08	-2.407	-2.452	-2.283	1.314
09	-2.548	-1.799	1.317	-3.785
10	1.193	-1.257	-1.139	-2.322
11	-0.274	1.154	-3.364	-3.364
12	-1.203	1.277	-4.984	-2.245
13	-1.927	0.42	-1.492	0.746
14	-0.737	0.544	-0.598	0.221
15	-0.129	-0.569	0.156	0.327
16	0.128	-0.451	0.458	-0.438
17	-0.361	-0.605	0.598	-0.063
18	-0.279	-0.414	0.587	-0.243

Standard thresholds

P-value	Threshold
0.001	4.00836
0.0005	4.97866
0.0001	7.00376