IRF5.H12INVIVO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF5.H12INVIVO.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	17
Consensus	vnhKWWASCGAAACYvn
GC content	47.13%
Information content (bits; total / per base)	15.054 / 0.886
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9841

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)	0.754	0.811	0.619	0.698	0.745	0.799	2.203	2.492	55.879	91.319

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.994	0.991	0.979	0.972	0.896	0.896
Overall, 6 experiments	best	0.999	0.999	0.997	0.996	0.987	0.983
Methyl HT-SELEX, 2 experiments	median	0.995	0.993	0.981	0.975	0.896	0.896
Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.991	0.989	0.929	0.927
Non-Methyl HT-SELEX, 4 experiments	median	0.792	0.793	0.759	0.763	0.732	0.735
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.999	0.997	0.996	0.987	0.983

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.582	0.218	0.462	0.308

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.H12INVIVO.0.SM.B.pcm
PWM	IRF5.H12INVIVO.0.SM.B.pwm
PFM	IRF5.H12INVIVO.0.SM.B.pfm
Alignment	IRF5.H12INVIVO.0.SM.B.words.tsv
Threshold to P-value map	IRF5.H12INVIVO.0.SM.B.thr
Motif in other formats
JASPAR format	IRF5.H12INVIVO.0.SM.B_jaspar_format.txt
MEME format	IRF5.H12INVIVO.0.SM.B_meme_format.meme
Transfac format	IRF5.H12INVIVO.0.SM.B_transfac_format.txt
Homer format	IRF5.H12INVIVO.0.SM.B_homer_format_0.001.txt IRF5.H12INVIVO.0.SM.B_homer_format_0.0005.txt IRF5.H12INVIVO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4010.0	2360.0	2323.0	1148.0
02	1894.5	3106.5	3016.5	1823.5
03	1055.0	4739.0	874.0	3173.0
04	1062.0	1036.0	6294.0	1449.0
05	6720.0	1086.0	792.0	1243.0
06	6141.0	1194.0	919.0	1587.0
07	8541.0	407.0	654.0	239.0
08	481.0	7367.0	1654.0	339.0
09	149.0	7981.0	6.0	1705.0
10	105.0	3.0	9728.0	5.0
11	9812.0	12.0	15.0	2.0
12	8526.0	2.0	166.0	1147.0
13	9826.0	6.0	2.0	7.0
14	58.0	9153.0	590.0	40.0
15	538.0	3987.0	264.0	5052.0
16	3883.25	1297.25	3557.25	1103.25
17	3886.5	2096.5	2156.5	1701.5

PFM

	A	C	G	T
01	0.407	0.24	0.236	0.117
02	0.193	0.316	0.307	0.185
03	0.107	0.482	0.089	0.322
04	0.108	0.105	0.64	0.147
05	0.683	0.11	0.08	0.126
06	0.624	0.121	0.093	0.161
07	0.868	0.041	0.066	0.024
08	0.049	0.749	0.168	0.034
09	0.015	0.811	0.001	0.173
10	0.011	0.0	0.989	0.001
11	0.997	0.001	0.002	0.0
12	0.866	0.0	0.017	0.117
13	0.998	0.001	0.0	0.001
14	0.006	0.93	0.06	0.004
15	0.055	0.405	0.027	0.513
16	0.395	0.132	0.361	0.112
17	0.395	0.213	0.219	0.173

PWM

	A	C	G	T
01	0.488	-0.042	-0.057	-0.761
02	-0.261	0.233	0.204	-0.299
03	-0.845	0.655	-1.033	0.254
04	-0.839	-0.864	0.939	-0.529
05	1.004	-0.817	-1.131	-0.682
06	0.914	-0.722	-0.983	-0.438
07	1.244	-1.795	-1.322	-2.323
08	-1.628	1.096	-0.397	-1.976
09	-2.79	1.176	-5.693	-0.366
10	-3.133	-6.142	1.374	-5.821
11	1.383	-5.149	-4.958	-6.351
12	1.242	-6.351	-2.683	-0.762
13	1.384	-5.693	-6.351	-5.579
14	-3.71	1.313	-1.425	-4.064
15	-1.517	0.482	-2.224	0.719
16	0.456	-0.639	0.368	-0.801
17	0.457	-0.16	-0.132	-0.368

Standard thresholds

P-value	Threshold
0.001	2.44266
0.0005	3.81496
0.0001	6.54951