IRF8.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF8.H12INVITRO.2.SM.B
Gene (human)	IRF8 (GeneCards)
Gene synonyms (human)	ICSBP1
Gene (mouse)	Irf8
Gene synonyms (mouse)	Icsbp, Icsbp1
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	16
Consensus	nhnCGAAACYRvhhvn
GC content	45.25%
Information content (bits; total / per base)	12.516 / 0.782
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9976

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)	0.811	0.906	0.695	0.821	0.774	0.857	2.23	3.053	150.347	549.585

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.992	0.989	0.955	0.939	0.857	0.848
Overall, 7 experiments	best	1.0	1.0	0.999	0.999	0.994	0.992
Methyl HT-SELEX, 2 experiments	median	0.952	0.937	0.889	0.878	0.809	0.81
Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.993	0.99	0.957	0.951
Non-Methyl HT-SELEX, 5 experiments	median	0.992	0.989	0.955	0.939	0.857	0.848
Non-Methyl HT-SELEX, 5 experiments	best	1.0	1.0	0.999	0.999	0.994	0.992

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.925	0.708	0.878	0.593
batch 2	0.845	0.67	0.808	0.61

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.H12INVITRO.2.SM.B.pcm
PWM	IRF8.H12INVITRO.2.SM.B.pwm
PFM	IRF8.H12INVITRO.2.SM.B.pfm
Alignment	IRF8.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	IRF8.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	IRF8.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	IRF8.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	IRF8.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	IRF8.H12INVITRO.2.SM.B_homer_format_0.001.txt IRF8.H12INVITRO.2.SM.B_homer_format_0.0005.txt IRF8.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3355.25	1903.25	1924.25	2793.25
02	5872.75	1221.75	972.75	1908.75
03	1998.0	2942.0	2060.0	2976.0
04	125.0	8404.0	218.0	1229.0
05	15.0	9.0	9950.0	2.0
06	9931.0	27.0	6.0	12.0
07	9601.0	0.0	1.0	374.0
08	9957.0	9.0	5.0	5.0
09	44.0	7801.0	2060.0	71.0
10	312.0	4771.0	226.0	4667.0
11	2701.0	613.0	5862.0	800.0
12	5118.0	1994.0	1435.0	1429.0
13	4519.0	1859.0	1632.0	1966.0
14	5204.0	1753.0	1407.0	1612.0
15	1751.25	4402.25	2167.25	1655.25
16	2040.75	2813.75	1781.75	3339.75

PFM

	A	C	G	T
01	0.336	0.191	0.193	0.28
02	0.589	0.122	0.098	0.191
03	0.2	0.295	0.206	0.298
04	0.013	0.842	0.022	0.123
05	0.002	0.001	0.997	0.0
06	0.995	0.003	0.001	0.001
07	0.962	0.0	0.0	0.037
08	0.998	0.001	0.001	0.001
09	0.004	0.782	0.206	0.007
10	0.031	0.478	0.023	0.468
11	0.271	0.061	0.588	0.08
12	0.513	0.2	0.144	0.143
13	0.453	0.186	0.164	0.197
14	0.522	0.176	0.141	0.162
15	0.176	0.441	0.217	0.166
16	0.205	0.282	0.179	0.335

PWM

	A	C	G	T
01	0.296	-0.27	-0.259	0.113
02	0.856	-0.713	-0.94	-0.267
03	-0.222	0.165	-0.191	0.177
04	-2.976	1.214	-2.428	-0.707
05	-4.972	-5.398	1.383	-6.363
06	1.381	-4.445	-5.706	-5.162
07	1.347	-6.989	-6.628	-1.892
08	1.384	-5.398	-5.834	-5.834
09	-3.987	1.14	-0.191	-3.528
10	-2.072	0.648	-2.392	0.626
11	0.08	-1.4	0.854	-1.135
12	0.718	-0.224	-0.552	-0.556
13	0.594	-0.294	-0.424	-0.238
14	0.735	-0.352	-0.572	-0.436
15	-0.353	0.568	-0.14	-0.409
16	-0.2	0.121	-0.336	0.292

Standard thresholds

P-value	Threshold
0.001	3.53871
0.0005	4.89096
0.0001	7.37271