IRF4.H12INVIVO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF4.H12INVIVO.2.SM.B
Gene (human)	IRF4 (GeneCards)
Gene synonyms (human)	MUM1
Gene (mouse)	Irf4
Gene synonyms (mouse)	Spip
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	16
Consensus	nbRRWASYGAAACYdn
GC content	42.71%
Information content (bits; total / per base)	15.756 / 0.985
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7253

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	8 (53)	0.762	0.891	0.656	0.858	0.764	0.89	2.545	4.227	97.745	260.678
Mouse	14 (85)	0.796	0.889	0.703	0.829	0.791	0.877	2.786	3.488	132.959	536.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.908	0.906	0.82	0.829	0.761	0.772
Overall, 4 experiments	best	0.998	0.997	0.995	0.993	0.984	0.979
Methyl HT-SELEX, 1 experiments	median	0.998	0.996	0.99	0.986	0.957	0.949
Methyl HT-SELEX, 1 experiments	best	0.998	0.996	0.99	0.986	0.957	0.949
Non-Methyl HT-SELEX, 3 experiments	median	0.818	0.815	0.65	0.671	0.566	0.596
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.995	0.993	0.984	0.979

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.906	0.827	0.821	0.567

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	IRF {3.5.3} (TFClass)
TF subfamily	{3.5.3.0} (TFClass)
TFClass ID	TFClass: 3.5.3.0.4
HGNC	HGNC:6119
MGI	MGI:1096873
EntrezGene (human)	GeneID:3662 (SSTAR profile)
EntrezGene (mouse)	GeneID:16364 (SSTAR profile)
UniProt ID (human)	IRF4_HUMAN
UniProt ID (mouse)	IRF4_MOUSE
UniProt AC (human)	Q15306 (TFClass)
UniProt AC (mouse)	Q64287 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 14 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	IRF4.H12INVIVO.2.SM.B.pcm
PWM	IRF4.H12INVIVO.2.SM.B.pwm
PFM	IRF4.H12INVIVO.2.SM.B.pfm
Alignment	IRF4.H12INVIVO.2.SM.B.words.tsv
Threshold to P-value map	IRF4.H12INVIVO.2.SM.B.thr
Motif in other formats
JASPAR format	IRF4.H12INVIVO.2.SM.B_jaspar_format.txt
MEME format	IRF4.H12INVIVO.2.SM.B_meme_format.meme
Transfac format	IRF4.H12INVIVO.2.SM.B_transfac_format.txt
Homer format	IRF4.H12INVIVO.2.SM.B_homer_format_0.001.txt IRF4.H12INVIVO.2.SM.B_homer_format_0.0005.txt IRF4.H12INVIVO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1773.75	2252.75	1657.75	1568.75
02	623.25	2984.25	702.25	2943.25
03	1258.0	572.0	5081.0	342.0
04	5228.0	580.0	1172.0	273.0
05	4800.0	108.0	294.0	2051.0
06	6947.0	94.0	11.0	201.0
07	208.0	4993.0	1946.0	106.0
08	27.0	2703.0	18.0	4505.0
09	12.0	0.0	7241.0	0.0
10	7189.0	51.0	13.0	0.0
11	6690.0	1.0	52.0	510.0
12	7251.0	1.0	1.0	0.0
13	132.0	6075.0	964.0	82.0
14	477.0	2746.0	198.0	3832.0
15	2887.0	703.0	2870.0	793.0
16	2374.25	1626.25	1849.25	1403.25

PFM

	A	C	G	T
01	0.245	0.311	0.229	0.216
02	0.086	0.411	0.097	0.406
03	0.173	0.079	0.701	0.047
04	0.721	0.08	0.162	0.038
05	0.662	0.015	0.041	0.283
06	0.958	0.013	0.002	0.028
07	0.029	0.688	0.268	0.015
08	0.004	0.373	0.002	0.621
09	0.002	0.0	0.998	0.0
10	0.991	0.007	0.002	0.0
11	0.922	0.0	0.007	0.07
12	1.0	0.0	0.0	0.0
13	0.018	0.838	0.133	0.011
14	0.066	0.379	0.027	0.528
15	0.398	0.097	0.396	0.109
16	0.327	0.224	0.255	0.193

PWM

	A	C	G	T
01	-0.022	0.217	-0.09	-0.145
02	-1.066	0.498	-0.947	0.484
03	-0.365	-1.151	1.03	-1.663
04	1.058	-1.137	-0.436	-1.887
05	0.973	-2.802	-1.813	0.123
06	1.342	-2.937	-4.922	-2.19
07	-2.156	1.012	0.071	-2.82
08	-4.129	0.399	-4.497	0.909
09	-4.849	-6.706	1.384	-6.706
10	1.377	-3.53	-4.781	-6.706
11	1.305	-6.334	-3.511	-1.265
12	1.385	-6.334	-6.334	-6.706
13	-2.605	1.208	-0.631	-3.071
14	-1.332	0.415	-2.205	0.748
15	0.465	-0.946	0.459	-0.825
16	0.269	-0.109	0.02	-0.256

Standard thresholds

P-value	Threshold
0.001	1.63071
0.0005	3.12866
0.0001	6.16356