IRF3.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF3.H12INVITRO.1.SM.B
Gene (human)	IRF3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Irf3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	23
Consensus	YdSTTTCMhGGAAACbGMdMvnn
GC content	48.41%
Information content (bits; total / per base)	21.862 / 0.951
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2036

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)	0.724	0.779	0.536	0.634	0.669	0.711	1.588	1.816	22.61	46.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.667	0.69	0.573	0.593	0.533	0.551
Overall, 5 experiments	best	0.796	0.779	0.64	0.652	0.563	0.586
Methyl HT-SELEX, 1 experiments	median	0.617	0.636	0.55	0.567	0.522	0.537
Methyl HT-SELEX, 1 experiments	best	0.617	0.636	0.55	0.567	0.522	0.537
Non-Methyl HT-SELEX, 4 experiments	median	0.716	0.708	0.606	0.613	0.547	0.564
Non-Methyl HT-SELEX, 4 experiments	best	0.796	0.779	0.64	0.652	0.563	0.586

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.63	0.044	0.632	0.371
batch 2	0.419	0.305	0.657	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.H12INVITRO.1.SM.B.pcm
PWM	IRF3.H12INVITRO.1.SM.B.pwm
PFM	IRF3.H12INVITRO.1.SM.B.pfm
Alignment	IRF3.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	IRF3.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	IRF3.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	IRF3.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	IRF3.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	IRF3.H12INVITRO.1.SM.B_homer_format_0.001.txt IRF3.H12INVITRO.1.SM.B_homer_format_0.0005.txt IRF3.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	260.25	1323.25	92.25	360.25
02	1037.75	256.75	354.75	386.75
03	159.0	254.0	1527.0	96.0
04	49.0	30.0	171.0	1786.0
05	57.0	12.0	216.0	1751.0
06	252.0	21.0	26.0	1737.0
07	208.0	1731.0	20.0	77.0
08	320.0	1559.0	111.0	46.0
09	713.0	342.0	287.0	694.0
10	18.0	159.0	1787.0	72.0
11	6.0	1.0	2027.0	2.0
12	2008.0	1.0	26.0	1.0
13	2021.0	0.0	3.0	12.0
14	2023.0	3.0	5.0	5.0
15	50.0	1837.0	137.0	12.0
16	132.0	798.0	184.0	922.0
17	277.0	4.0	1740.0	15.0
18	1105.0	829.0	63.0	39.0
19	999.0	177.0	618.0	242.0
20	1108.0	684.0	72.0	172.0
21	420.0	927.0	534.0	155.0
22	404.75	595.75	341.75	693.75
23	792.5	332.5	450.5	460.5

PFM

	A	C	G	T
01	0.128	0.65	0.045	0.177
02	0.51	0.126	0.174	0.19
03	0.078	0.125	0.75	0.047
04	0.024	0.015	0.084	0.877
05	0.028	0.006	0.106	0.86
06	0.124	0.01	0.013	0.853
07	0.102	0.85	0.01	0.038
08	0.157	0.766	0.055	0.023
09	0.35	0.168	0.141	0.341
10	0.009	0.078	0.878	0.035
11	0.003	0.0	0.996	0.001
12	0.986	0.0	0.013	0.0
13	0.993	0.0	0.001	0.006
14	0.994	0.001	0.002	0.002
15	0.025	0.902	0.067	0.006
16	0.065	0.392	0.09	0.453
17	0.136	0.002	0.855	0.007
18	0.543	0.407	0.031	0.019
19	0.491	0.087	0.304	0.119
20	0.544	0.336	0.035	0.084
21	0.206	0.455	0.262	0.076
22	0.199	0.293	0.168	0.341
23	0.389	0.163	0.221	0.226

PWM

	A	C	G	T
01	-0.667	0.953	-1.691	-0.344
02	0.71	-0.681	-0.359	-0.273
03	-1.155	-0.691	1.096	-1.652
04	-2.306	-2.773	-1.083	1.253
05	-2.16	-3.604	-0.852	1.233
06	-0.699	-3.105	-2.907	1.225
07	-0.89	1.221	-3.149	-1.868
08	-0.462	1.117	-1.51	-2.367
09	0.336	-0.396	-0.57	0.309
10	-3.245	-1.155	1.253	-1.933
11	-4.169	-5.17	1.379	-4.874
12	1.37	-5.17	-2.907	-5.17
13	1.376	-5.592	-4.646	-3.604
14	1.377	-4.646	-4.304	-4.304
15	-2.287	1.281	-1.302	-3.604
16	-1.339	0.448	-1.011	0.592
17	-0.605	-4.46	1.227	-3.409
18	0.773	0.486	-2.063	-2.525
19	0.672	-1.049	0.193	-0.739
20	0.776	0.295	-1.933	-1.078
21	-0.191	0.598	0.048	-1.181
22	-0.228	0.157	-0.397	0.309
23	0.441	-0.424	-0.122	-0.1

Standard thresholds

P-value	Threshold
0.001	-1.14724
0.0005	0.43066
0.0001	3.76116