IRF4.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF4.H12INVITRO.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	17
Consensus	nhWhCGAAACYRvhMhh
GC content	45.89%
Information content (bits; total / per base)	15.717 / 0.925
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	6345

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)	0.69	0.88	0.554	0.825	0.687	0.865	1.876	3.449	41.854	216.678
Mouse	14 (85)	0.752	0.799	0.624	0.704	0.716	0.771	2.105	2.57	85.42	253.119

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.909	0.907	0.819	0.827	0.762	0.772
Overall, 4 experiments	best	0.998	0.997	0.995	0.993	0.988	0.984
Methyl HT-SELEX, 1 experiments	median	0.994	0.99	0.986	0.979	0.958	0.946
Methyl HT-SELEX, 1 experiments	best	0.994	0.99	0.986	0.979	0.958	0.946
Non-Methyl HT-SELEX, 3 experiments	median	0.825	0.825	0.652	0.675	0.567	0.599
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.995	0.993	0.988	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.956	0.894	0.891	0.587

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.H12INVITRO.2.SM.B.pcm
PWM	IRF4.H12INVITRO.2.SM.B.pwm
PFM	IRF4.H12INVITRO.2.SM.B.pfm
Alignment	IRF4.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	IRF4.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	IRF4.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	IRF4.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	IRF4.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	IRF4.H12INVITRO.2.SM.B_homer_format_0.001.txt IRF4.H12INVITRO.2.SM.B_homer_format_0.0005.txt IRF4.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2185.75	1611.75	1638.75	908.75
02	2689.5	1125.5	646.5	1883.5
03	4562.0	654.0	246.0	883.0
04	796.0	3700.0	749.0	1100.0
05	14.0	5543.0	15.0	773.0
06	1.0	0.0	6344.0	0.0
07	6335.0	10.0	0.0	0.0
08	6197.0	0.0	1.0	147.0
09	6345.0	0.0	0.0	0.0
10	8.0	6017.0	310.0	10.0
11	36.0	3815.0	25.0	2469.0
12	1565.0	264.0	4341.0	175.0
13	3762.0	1177.0	830.0	576.0
14	3396.0	843.0	810.0	1296.0
15	4325.0	934.0	406.0	680.0
16	966.0	3452.0	946.0	981.0
17	1219.5	2229.5	815.5	2080.5

PFM

	A	C	G	T
01	0.344	0.254	0.258	0.143
02	0.424	0.177	0.102	0.297
03	0.719	0.103	0.039	0.139
04	0.125	0.583	0.118	0.173
05	0.002	0.874	0.002	0.122
06	0.0	0.0	1.0	0.0
07	0.998	0.002	0.0	0.0
08	0.977	0.0	0.0	0.023
09	1.0	0.0	0.0	0.0
10	0.001	0.948	0.049	0.002
11	0.006	0.601	0.004	0.389
12	0.247	0.042	0.684	0.028
13	0.593	0.186	0.131	0.091
14	0.535	0.133	0.128	0.204
15	0.682	0.147	0.064	0.107
16	0.152	0.544	0.149	0.155
17	0.192	0.351	0.129	0.328

PWM

	A	C	G	T
01	0.32	0.016	0.033	-0.556
02	0.527	-0.343	-0.896	0.172
03	1.055	-0.884	-1.856	-0.585
04	-0.688	0.846	-0.749	-0.365
05	-4.586	1.25	-4.526	-0.717
06	-6.211	-6.587	1.385	-6.587
07	1.384	-4.87	-6.587	-6.587
08	1.362	-6.587	-6.211	-2.365
09	1.385	-6.587	-6.587	-6.587
10	-5.049	1.332	-1.627	-4.87
11	-3.728	0.877	-4.068	0.442
12	-0.013	-1.786	1.006	-2.193
13	0.863	-0.298	-0.646	-1.011
14	0.76	-0.631	-0.671	-0.202
15	1.002	-0.529	-1.359	-0.845
16	-0.495	0.777	-0.516	-0.48
17	-0.263	0.34	-0.664	0.271

Standard thresholds

P-value	Threshold
0.001	1.25756
0.0005	2.88126
0.0001	6.22206