IRF3.H12RSNP.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF3.H12RSNP.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	26
Consensus	hdCvGTTTCSvSGAAACCGAAAChdn
GC content	50.45%
Information content (bits; total / per base)	33.873 / 1.303
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	372

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)	0.5	0.503	0.335	0.34	0.524	0.557	1.196	1.262	1.105	3.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.627	0.61	0.547	0.561	0.519	0.536
Overall, 5 experiments	best	0.675	0.669	0.59	0.58	0.539	0.546
Methyl HT-SELEX, 1 experiments	median	0.584	0.61	0.532	0.551	0.512	0.527
Methyl HT-SELEX, 1 experiments	best	0.584	0.61	0.532	0.551	0.512	0.527
Non-Methyl HT-SELEX, 4 experiments	median	0.632	0.619	0.558	0.57	0.526	0.538
Non-Methyl HT-SELEX, 4 experiments	best	0.675	0.669	0.59	0.58	0.539	0.546

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.655	0.072	0.662	0.404
batch 2	0.554	0.199	0.519	0.331

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.1.SM.B.pcm
PWM	IRF3.H12RSNP.1.SM.B.pwm
PFM	IRF3.H12RSNP.1.SM.B.pfm
Alignment	IRF3.H12RSNP.1.SM.B.words.tsv
Threshold to P-value map	IRF3.H12RSNP.1.SM.B.thr
Motif in other formats
JASPAR format	IRF3.H12RSNP.1.SM.B_jaspar_format.txt
MEME format	IRF3.H12RSNP.1.SM.B_meme_format.meme
Transfac format	IRF3.H12RSNP.1.SM.B_transfac_format.txt
Homer format	IRF3.H12RSNP.1.SM.B_homer_format_0.001.txt IRF3.H12RSNP.1.SM.B_homer_format_0.0005.txt IRF3.H12RSNP.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	180.5	62.5	20.5	108.5
02	64.5	37.5	91.5	178.5
03	14.0	310.0	26.0	22.0
04	118.0	127.0	114.0	13.0
05	0.0	5.0	365.0	2.0
06	1.0	0.0	0.0	371.0
07	0.0	0.0	0.0	372.0
08	0.0	1.0	0.0	371.0
09	0.0	372.0	0.0	0.0
10	12.0	138.0	221.0	1.0
11	77.0	160.0	103.0	32.0
12	3.0	195.0	164.0	10.0
13	7.0	0.0	365.0	0.0
14	366.0	0.0	6.0	0.0
15	372.0	0.0	0.0	0.0
16	372.0	0.0	0.0	0.0
17	0.0	371.0	1.0	0.0
18	0.0	346.0	8.0	18.0
19	0.0	0.0	372.0	0.0
20	371.0	1.0	0.0	0.0
21	359.0	0.0	0.0	13.0
22	352.0	14.0	6.0	0.0
23	2.0	292.0	67.0	11.0
24	70.0	198.0	29.0	75.0
25	172.0	24.0	107.0	69.0
26	101.75	80.75	78.75	110.75

PFM

	A	C	G	T
01	0.485	0.168	0.055	0.292
02	0.173	0.101	0.246	0.48
03	0.038	0.833	0.07	0.059
04	0.317	0.341	0.306	0.035
05	0.0	0.013	0.981	0.005
06	0.003	0.0	0.0	0.997
07	0.0	0.0	0.0	1.0
08	0.0	0.003	0.0	0.997
09	0.0	1.0	0.0	0.0
10	0.032	0.371	0.594	0.003
11	0.207	0.43	0.277	0.086
12	0.008	0.524	0.441	0.027
13	0.019	0.0	0.981	0.0
14	0.984	0.0	0.016	0.0
15	1.0	0.0	0.0	0.0
16	1.0	0.0	0.0	0.0
17	0.0	0.997	0.003	0.0
18	0.0	0.93	0.022	0.048
19	0.0	0.0	1.0	0.0
20	0.997	0.003	0.0	0.0
21	0.965	0.0	0.0	0.035
22	0.946	0.038	0.016	0.0
23	0.005	0.785	0.18	0.03
24	0.188	0.532	0.078	0.202
25	0.462	0.065	0.288	0.185
26	0.274	0.217	0.212	0.298

PWM

	A	C	G	T
01	0.656	-0.39	-1.458	0.152
02	-0.359	-0.885	-0.016	0.644
03	-1.809	1.193	-1.235	-1.392
04	0.235	0.307	0.201	-1.876
05	-4.157	-2.68	1.356	-3.301
06	-3.64	-4.157	-4.157	1.372
07	-4.157	-4.157	-4.157	1.374
08	-4.157	-3.64	-4.157	1.372
09	-4.157	1.374	-4.157	-4.157
10	-1.947	0.39	0.856	-3.64
11	-0.186	0.536	0.101	-1.037
12	-3.049	0.732	0.56	-2.108
13	-2.411	-4.157	1.356	-4.157
14	1.358	-4.157	-2.536	-4.157
15	1.374	-4.157	-4.157	-4.157
16	1.374	-4.157	-4.157	-4.157
17	-4.157	1.372	-3.64	-4.157
18	-4.157	1.302	-2.299	-1.579
19	-4.157	-4.157	1.374	-4.157
20	1.372	-3.64	-4.157	-4.157
21	1.339	-4.157	-4.157	-1.876
22	1.319	-1.809	-2.536	-4.157
23	-3.301	1.133	-0.322	-2.024
24	-0.279	0.747	-1.131	-0.211
25	0.608	-1.311	0.138	-0.293
26	0.089	-0.139	-0.163	0.172

Standard thresholds

P-value	Threshold
0.001	-10.82209
0.0005	-8.73439
0.0001	-4.24484