IRF5.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF5.H12RSNP.0.SM.B
Gene (human)	IRF5 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Irf5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	20
Consensus	nhhnvYGAAACCGAAACYdn
GC content	44.88%
Information content (bits; total / per base)	20.414 / 1.021
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	388

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	4 (26)	0.713	0.756	0.585	0.642	0.747	0.791	2.247	2.574	42.146	63.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.993	0.99	0.962	0.953	0.861	0.861
Overall, 6 experiments	best	1.0	0.999	0.996	0.995	0.969	0.965
Methyl HT-SELEX, 2 experiments	median	0.995	0.993	0.968	0.962	0.861	0.862
Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.987	0.984	0.896	0.897
Non-Methyl HT-SELEX, 4 experiments	median	0.769	0.771	0.744	0.745	0.703	0.702
Non-Methyl HT-SELEX, 4 experiments	best	1.0	0.999	0.996	0.995	0.969	0.965

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.545	0.195	0.484	0.334

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: 3.5.3.0.5
HGNC	HGNC:6120
MGI	MGI:1350924
EntrezGene (human)	GeneID:3663 (SSTAR profile)
EntrezGene (mouse)	GeneID:27056 (SSTAR profile)
UniProt ID (human)	IRF5_HUMAN
UniProt ID (mouse)	IRF5_MOUSE
UniProt AC (human)	Q13568 (TFClass)
UniProt AC (mouse)	P56477 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 4 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	IRF5.H12RSNP.0.SM.B.pcm
PWM	IRF5.H12RSNP.0.SM.B.pwm
PFM	IRF5.H12RSNP.0.SM.B.pfm
Alignment	IRF5.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	IRF5.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	IRF5.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	IRF5.H12RSNP.0.SM.B_meme_format.meme
Transfac format	IRF5.H12RSNP.0.SM.B_transfac_format.txt
Homer format	IRF5.H12RSNP.0.SM.B_homer_format_0.001.txt IRF5.H12RSNP.0.SM.B_homer_format_0.0005.txt IRF5.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	75.25	58.25	117.25	137.25
02	161.0	49.0	48.0	130.0
03	148.0	128.0	41.0	71.0
04	225.0	63.0	63.0	37.0
05	59.0	186.0	109.0	34.0
06	20.0	253.0	12.0	103.0
07	18.0	8.0	346.0	16.0
08	361.0	10.0	9.0	8.0
09	326.0	5.0	8.0	49.0
10	383.0	2.0	2.0	1.0
11	0.0	350.0	38.0	0.0
12	6.0	310.0	1.0	71.0
13	2.0	0.0	386.0	0.0
14	388.0	0.0	0.0	0.0
15	354.0	0.0	3.0	31.0
16	387.0	1.0	0.0	0.0
17	0.0	361.0	26.0	1.0
18	12.0	151.0	10.0	215.0
19	152.5	55.5	118.5	61.5
20	144.5	84.5	69.5	89.5

PFM

	A	C	G	T
01	0.194	0.15	0.302	0.354
02	0.415	0.126	0.124	0.335
03	0.381	0.33	0.106	0.183
04	0.58	0.162	0.162	0.095
05	0.152	0.479	0.281	0.088
06	0.052	0.652	0.031	0.265
07	0.046	0.021	0.892	0.041
08	0.93	0.026	0.023	0.021
09	0.84	0.013	0.021	0.126
10	0.987	0.005	0.005	0.003
11	0.0	0.902	0.098	0.0
12	0.015	0.799	0.003	0.183
13	0.005	0.0	0.995	0.0
14	1.0	0.0	0.0	0.0
15	0.912	0.0	0.008	0.08
16	0.997	0.003	0.0	0.0
17	0.0	0.93	0.067	0.003
18	0.031	0.389	0.026	0.554
19	0.393	0.143	0.305	0.159
20	0.372	0.218	0.179	0.231

PWM

	A	C	G	T
01	-0.25	-0.5	0.187	0.343
02	0.501	-0.668	-0.688	0.289
03	0.417	0.274	-0.841	-0.307
04	0.833	-0.423	-0.423	-0.94
05	-0.487	0.644	0.115	-1.021
06	-1.522	0.949	-1.988	0.059
07	-1.62	-2.34	1.261	-1.728
08	1.303	-2.148	-2.24	-2.34
09	1.202	-2.72	-2.34	-0.668
10	1.362	-3.34	-3.34	-3.678
11	-4.191	1.272	-0.914	-4.191
12	-2.576	1.151	-3.678	-0.307
13	-3.34	-4.191	1.37	-4.191
14	1.375	-4.191	-4.191	-4.191
15	1.284	-4.191	-3.088	-1.109
16	1.372	-3.678	-4.191	-4.191
17	-4.191	1.303	-1.276	-3.678
18	-1.988	0.437	-2.148	0.788
19	0.447	-0.547	0.197	-0.447
20	0.394	-0.136	-0.327	-0.079

Standard thresholds

P-value	Threshold
0.001	0.05016
0.0005	1.52636
0.0001	4.64546