IRF3.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF3.H12RSNP.0.PS.A
Gene (human)	IRF3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Irf3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	26
Consensus	vRRnSGAAAMSGAAACCGAAAChvnn
GC content	44.19%
Information content (bits; total / per base)	28.326 / 1.089
Data sources	ChIP-Seq + HT-SELEX
Aligned words	2195

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	7 (46)	0.814	0.876	0.723	0.827	0.833	0.893	3.845	5.766	106.561	154.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.688	0.718	0.575	0.606	0.532	0.558
Overall, 5 experiments	best	0.869	0.875	0.659	0.696	0.563	0.607
Methyl HT-SELEX, 1 experiments	median	0.602	0.598	0.554	0.554	0.528	0.532
Methyl HT-SELEX, 1 experiments	best	0.602	0.598	0.554	0.554	0.528	0.532
Non-Methyl HT-SELEX, 4 experiments	median	0.753	0.779	0.6	0.637	0.542	0.575
Non-Methyl HT-SELEX, 4 experiments	best	0.869	0.875	0.659	0.696	0.563	0.607

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.814	0.275	0.689	0.368
batch 2	0.789	0.696	0.626	0.473

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: 3.5.3.0.3
HGNC	HGNC:6118
MGI	MGI:1859179
EntrezGene (human)	GeneID:3661 (SSTAR profile)
EntrezGene (mouse)	GeneID:54131 (SSTAR profile)
UniProt ID (human)	IRF3_HUMAN
UniProt ID (mouse)	IRF3_MOUSE
UniProt AC (human)	Q14653 (TFClass)
UniProt AC (mouse)	P70671 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 7 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	IRF3.H12RSNP.0.PS.A.pcm
PWM	IRF3.H12RSNP.0.PS.A.pwm
PFM	IRF3.H12RSNP.0.PS.A.pfm
Alignment	IRF3.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	IRF3.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	IRF3.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	IRF3.H12RSNP.0.PS.A_meme_format.meme
Transfac format	IRF3.H12RSNP.0.PS.A_transfac_format.txt
Homer format	IRF3.H12RSNP.0.PS.A_homer_format_0.001.txt IRF3.H12RSNP.0.PS.A_homer_format_0.0005.txt IRF3.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1159.75	276.75	530.75	227.75
02	1393.5	163.5	395.5	242.5
03	1572.0	174.0	226.0	223.0
04	824.0	611.0	364.0	396.0
05	182.0	736.0	1178.0	99.0
06	288.0	44.0	1811.0	52.0
07	1883.0	13.0	275.0	24.0
08	2107.0	7.0	51.0	30.0
09	2167.0	9.0	10.0	9.0
10	409.0	1470.0	200.0	116.0
11	57.0	1266.0	765.0	107.0
12	15.0	4.0	2173.0	3.0
13	2163.0	7.0	17.0	8.0
14	2173.0	1.0	5.0	16.0
15	2186.0	2.0	3.0	4.0
16	17.0	2114.0	55.0	9.0
17	54.0	1959.0	94.0	88.0
18	36.0	5.0	2147.0	7.0
19	2131.0	23.0	22.0	19.0
20	2069.0	21.0	14.0	91.0
21	2046.0	31.0	25.0	93.0
22	71.0	1771.0	181.0	172.0
23	331.0	777.0	220.0	867.0
24	898.0	320.0	679.0	298.0
25	822.0	488.0	493.0	392.0
26	757.0	495.0	494.0	449.0

PFM

	A	C	G	T
01	0.528	0.126	0.242	0.104
02	0.635	0.074	0.18	0.11
03	0.716	0.079	0.103	0.102
04	0.375	0.278	0.166	0.18
05	0.083	0.335	0.537	0.045
06	0.131	0.02	0.825	0.024
07	0.858	0.006	0.125	0.011
08	0.96	0.003	0.023	0.014
09	0.987	0.004	0.005	0.004
10	0.186	0.67	0.091	0.053
11	0.026	0.577	0.349	0.049
12	0.007	0.002	0.99	0.001
13	0.985	0.003	0.008	0.004
14	0.99	0.0	0.002	0.007
15	0.996	0.001	0.001	0.002
16	0.008	0.963	0.025	0.004
17	0.025	0.892	0.043	0.04
18	0.016	0.002	0.978	0.003
19	0.971	0.01	0.01	0.009
20	0.943	0.01	0.006	0.041
21	0.932	0.014	0.011	0.042
22	0.032	0.807	0.082	0.078
23	0.151	0.354	0.1	0.395
24	0.409	0.146	0.309	0.136
25	0.374	0.222	0.225	0.179
26	0.345	0.226	0.225	0.205

PWM

	A	C	G	T
01	0.746	-0.681	-0.033	-0.874
02	0.93	-1.203	-0.326	-0.812
03	1.05	-1.141	-0.882	-0.895
04	0.405	0.107	-0.409	-0.325
05	-1.097	0.293	0.762	-1.697
06	-0.642	-2.484	1.192	-2.324
07	1.231	-3.608	-0.687	-3.056
08	1.343	-4.122	-2.342	-2.848
09	1.371	-3.92	-3.833	-3.92
10	-0.293	0.983	-1.003	-1.541
11	-2.235	0.834	0.331	-1.62
12	-3.482	-4.532	1.374	-4.717
13	1.369	-4.122	-3.371	-4.016
14	1.374	-5.238	-4.376	-3.425
15	1.38	-4.944	-4.717	-4.532
16	-3.371	1.346	-2.269	-3.92
17	-2.287	1.27	-1.748	-1.812
18	-2.676	-4.376	1.362	-4.122
19	1.354	-3.095	-3.136	-3.27
20	1.325	-3.179	-3.543	-1.779
21	1.313	-2.817	-3.018	-1.758
22	-2.022	1.169	-1.102	-1.153
23	-0.503	0.347	-0.909	0.456
24	0.491	-0.537	0.212	-0.608
25	0.403	-0.117	-0.107	-0.335
26	0.321	-0.103	-0.105	-0.2

Standard thresholds

P-value	Threshold
0.001	-5.79809
0.0005	-3.97749
0.0001	-0.07969