IRF2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF2.H12INVIVO.0.PSM.A
Gene (human)	IRF2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Irf2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	17
Consensus	dnYGAAASYGAAASbvn
GC content	45.48%
Information content (bits; total / per base)	18.368 / 1.08
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1624

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	5 (30)	0.911	0.969	0.899	0.972	0.932	0.97	5.784	7.615	275.237	664.678
Mouse	4 (24)	0.792	0.968	0.784	0.956	0.804	0.965	4.711	5.352	89.402	319.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.999	0.998	0.996	0.994	0.985	0.98
Overall, 2 experiments	best	0.999	0.999	0.997	0.996	0.986	0.981
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.997	0.996	0.984	0.98
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.997	0.996	0.984	0.98
Non-Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.995	0.992	0.986	0.981
Non-Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.995	0.992	0.986	0.981

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.836	0.717	0.866	0.6

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: 3.5.3.0.2
HGNC	HGNC:6117
MGI	MGI:96591
EntrezGene (human)	GeneID:3660 (SSTAR profile)
EntrezGene (mouse)	GeneID:16363 (SSTAR profile)
UniProt ID (human)	IRF2_HUMAN
UniProt ID (mouse)	IRF2_MOUSE
UniProt AC (human)	P14316 (TFClass)
UniProt AC (mouse)	P23906 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 4 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	IRF2.H12INVIVO.0.PSM.A.pcm
PWM	IRF2.H12INVIVO.0.PSM.A.pwm
PFM	IRF2.H12INVIVO.0.PSM.A.pfm
Alignment	IRF2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	IRF2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	IRF2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	IRF2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	IRF2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	IRF2.H12INVIVO.0.PSM.A_homer_format_0.001.txt IRF2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt IRF2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	848.5	214.5	248.5	312.5
02	369.75	379.75	556.75	317.75
03	88.0	1032.0	147.0	357.0
04	40.0	49.0	1501.0	34.0
05	1534.0	13.0	66.0	11.0
06	1498.0	3.0	1.0	122.0
07	1618.0	0.0	1.0	5.0
08	50.0	517.0	1010.0	47.0
09	7.0	1086.0	20.0	511.0
10	2.0	0.0	1622.0	0.0
11	1620.0	0.0	3.0	1.0
12	1573.0	1.0	2.0	48.0
13	1618.0	0.0	2.0	4.0
14	38.0	695.0	862.0	29.0
15	132.0	573.0	202.0	717.0
16	481.25	163.25	829.25	150.25
17	567.0	384.0	371.0	302.0

PFM

	A	C	G	T
01	0.522	0.132	0.153	0.192
02	0.228	0.234	0.343	0.196
03	0.054	0.635	0.091	0.22
04	0.025	0.03	0.924	0.021
05	0.945	0.008	0.041	0.007
06	0.922	0.002	0.001	0.075
07	0.996	0.0	0.001	0.003
08	0.031	0.318	0.622	0.029
09	0.004	0.669	0.012	0.315
10	0.001	0.0	0.999	0.0
11	0.998	0.0	0.002	0.001
12	0.969	0.001	0.001	0.03
13	0.996	0.0	0.001	0.002
14	0.023	0.428	0.531	0.018
15	0.081	0.353	0.124	0.442
16	0.296	0.101	0.511	0.093
17	0.349	0.236	0.228	0.186

PWM

	A	C	G	T
01	0.735	-0.634	-0.488	-0.26
02	-0.093	-0.067	0.315	-0.244
03	-1.513	0.93	-1.008	-0.128
04	-2.277	-2.082	1.304	-2.432
05	1.326	-3.313	-1.794	-3.458
06	1.302	-4.432	-4.964	-1.192
07	1.379	-5.397	-4.964	-4.087
08	-2.063	0.241	0.909	-2.122
09	-3.831	0.981	-2.927	0.229
10	-4.663	-5.397	1.382	-5.397
11	1.38	-5.397	-4.432	-4.964
12	1.351	-4.964	-4.663	-2.102
13	1.379	-5.397	-4.663	-4.245
14	-2.326	0.536	0.751	-2.582
15	-1.114	0.343	-0.694	0.567
16	0.169	-0.904	0.712	-0.986
17	0.333	-0.055	-0.09	-0.294

Standard thresholds

P-value	Threshold
0.001	-0.12339
0.0005	1.47826
0.0001	4.82471