IRF8.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF8.H12INVIVO.1.SM.B
Gene (human)	IRF8 (GeneCards)
Gene synonyms (human)	ICSBP1
Gene (mouse)	Irf8
Gene synonyms (mouse)	Icsbp, Icsbp1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	hnhGAAACYGAAACYdn
GC content	40.31%
Information content (bits; total / per base)	18.18 / 1.069
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9993

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	27 (157)	0.863	0.953	0.757	0.903	0.851	0.941	2.941	3.911	266.051	830.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.983	0.981	0.915	0.898	0.801	0.794
Overall, 7 experiments	best	1.0	1.0	1.0	0.999	0.992	0.991
Methyl HT-SELEX, 2 experiments	median	0.939	0.929	0.871	0.866	0.799	0.802
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.998	0.998	0.955	0.954
Non-Methyl HT-SELEX, 5 experiments	median	0.983	0.981	0.915	0.898	0.801	0.794
Non-Methyl HT-SELEX, 5 experiments	best	1.0	1.0	1.0	0.999	0.992	0.991

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.936	0.697	0.918	0.561
batch 2	0.845	0.69	0.863	0.635

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: 3.5.3.0.8
HGNC	HGNC:5358
MGI	MGI:96395
EntrezGene (human)	GeneID:3394 (SSTAR profile)
EntrezGene (mouse)	GeneID:15900 (SSTAR profile)
UniProt ID (human)	IRF8_HUMAN
UniProt ID (mouse)	IRF8_MOUSE
UniProt AC (human)	Q02556 (TFClass)
UniProt AC (mouse)	P23611 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 27 mouse
HT-SELEX	5
Methyl-HT-SELEX	2

PCM	IRF8.H12INVIVO.1.SM.B.pcm
PWM	IRF8.H12INVIVO.1.SM.B.pwm
PFM	IRF8.H12INVIVO.1.SM.B.pfm
Alignment	IRF8.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	IRF8.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	IRF8.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	IRF8.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	IRF8.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	IRF8.H12INVIVO.1.SM.B_homer_format_0.001.txt IRF8.H12INVIVO.1.SM.B_homer_format_0.0005.txt IRF8.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	5418.75	1381.75	1017.75	2174.75
02	2739.75	2398.75	2786.75	2067.75
03	917.0	3880.0	744.0	4452.0
04	305.0	140.0	9445.0	103.0
05	9441.0	208.0	216.0	128.0
06	9386.0	55.0	100.0	452.0
07	9801.0	59.0	11.0	122.0
08	79.0	7040.0	2827.0	47.0
09	45.0	3492.0	45.0	6411.0
10	126.0	2.0	9860.0	5.0
11	9633.0	212.0	79.0	69.0
12	9138.0	33.0	213.0	609.0
13	9737.0	101.0	32.0	123.0
14	177.0	7671.0	1976.0	169.0
15	678.0	3132.0	294.0	5889.0
16	4114.5	1079.5	3514.5	1284.5
17	3496.75	2347.75	2085.75	2062.75

PFM

	A	C	G	T
01	0.542	0.138	0.102	0.218
02	0.274	0.24	0.279	0.207
03	0.092	0.388	0.074	0.446
04	0.031	0.014	0.945	0.01
05	0.945	0.021	0.022	0.013
06	0.939	0.006	0.01	0.045
07	0.981	0.006	0.001	0.012
08	0.008	0.704	0.283	0.005
09	0.005	0.349	0.005	0.642
10	0.013	0.0	0.987	0.001
11	0.964	0.021	0.008	0.007
12	0.914	0.003	0.021	0.061
13	0.974	0.01	0.003	0.012
14	0.018	0.768	0.198	0.017
15	0.068	0.313	0.029	0.589
16	0.412	0.108	0.352	0.129
17	0.35	0.235	0.209	0.206

PWM

	A	C	G	T
01	0.774	-0.591	-0.897	-0.139
02	0.092	-0.041	0.109	-0.189
03	-1.001	0.44	-1.209	0.577
04	-2.096	-2.866	1.329	-3.167
05	1.329	-2.476	-2.438	-2.954
06	1.323	-3.776	-3.196	-1.706
07	1.366	-3.708	-5.236	-3.002
08	-3.426	1.035	0.124	-3.926
09	-3.968	0.335	-3.968	0.942
10	-2.97	-6.365	1.372	-5.836
11	1.349	-2.457	-3.426	-3.557
12	1.296	-4.26	-2.452	-1.409
13	1.36	-3.187	-4.289	-2.994
14	-2.635	1.121	-0.234	-2.681
15	-1.302	0.226	-2.133	0.857
16	0.499	-0.838	0.341	-0.664
17	0.336	-0.062	-0.18	-0.191

Standard thresholds

P-value	Threshold
0.001	0.62531
0.0005	2.06791
0.0001	5.13561