IRF9.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF9.H12INVIVO.0.PSM.A
Gene (human)	IRF9 (GeneCards)
Gene synonyms (human)	ISGF3G
Gene (mouse)	Irf9
Gene synonyms (mouse)	Isgf3g
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	dGAAAnhGAAASY
GC content	36.05%
Information content (bits; total / per base)	15.069 / 1.159
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	994

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	3 (15)	0.9	0.958	0.857	0.924	0.939	0.968	4.888	5.223	210.268	524.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.844	0.854	0.788	0.8	0.747	0.758
Overall, 4 experiments	best	0.999	0.998	0.998	0.996	0.994	0.992
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.997	0.996	0.961	0.958
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.997	0.996	0.961	0.958
Non-Methyl HT-SELEX, 3 experiments	median	0.689	0.71	0.579	0.604	0.533	0.557
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.998	0.996	0.994	0.992

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.919	0.571	0.879	0.485
batch 2	0.843	0.778	0.773	0.641

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: 3.5.3.0.9
HGNC	HGNC:6131
MGI	MGI:107587
EntrezGene (human)	GeneID:10379 (SSTAR profile)
EntrezGene (mouse)	GeneID:16391 (SSTAR profile)
UniProt ID (human)	IRF9_HUMAN
UniProt ID (mouse)	IRF9_MOUSE
UniProt AC (human)	Q00978 (TFClass)
UniProt AC (mouse)	Q61179 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	IRF9.H12INVIVO.0.PSM.A.pcm
PWM	IRF9.H12INVIVO.0.PSM.A.pwm
PFM	IRF9.H12INVIVO.0.PSM.A.pfm
Alignment	IRF9.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	IRF9.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	IRF9.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	IRF9.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	IRF9.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	IRF9.H12INVIVO.0.PSM.A_homer_format_0.001.txt IRF9.H12INVIVO.0.PSM.A_homer_format_0.0005.txt IRF9.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	307.0	83.0	504.0	100.0
02	175.0	3.0	789.0	27.0
03	778.0	8.0	206.0	2.0
04	988.0	1.0	4.0	1.0
05	934.0	16.0	20.0	24.0
06	336.0	304.0	208.0	146.0
07	252.0	184.0	88.0	470.0
08	52.0	2.0	935.0	5.0
09	930.0	3.0	50.0	11.0
10	983.0	0.0	7.0	4.0
11	988.0	0.0	2.0	4.0
12	33.0	608.0	348.0	5.0
13	77.0	270.0	16.0	631.0

PFM

	A	C	G	T
01	0.309	0.084	0.507	0.101
02	0.176	0.003	0.794	0.027
03	0.783	0.008	0.207	0.002
04	0.994	0.001	0.004	0.001
05	0.94	0.016	0.02	0.024
06	0.338	0.306	0.209	0.147
07	0.254	0.185	0.089	0.473
08	0.052	0.002	0.941	0.005
09	0.936	0.003	0.05	0.011
10	0.989	0.0	0.007	0.004
11	0.994	0.0	0.002	0.004
12	0.033	0.612	0.35	0.005
13	0.077	0.272	0.016	0.635

PWM

	A	C	G	T
01	0.21	-1.083	0.704	-0.9
02	-0.348	-3.969	1.151	-2.165
03	1.137	-3.248	-0.186	-4.207
04	1.375	-4.52	-3.777	-4.52
05	1.319	-2.647	-2.444	-2.275
06	0.3	0.2	-0.177	-0.527
07	0.014	-0.298	-1.026	0.634
08	-1.538	-4.207	1.32	-3.616
09	1.315	-3.969	-1.576	-2.979
10	1.37	-4.977	-3.356	-3.777
11	1.375	-4.977	-4.207	-3.777
12	-1.975	0.891	0.335	-3.616
13	-1.156	0.082	-2.647	0.928

Standard thresholds

P-value	Threshold
0.001	2.44521
0.0005	3.75791
0.0001	6.47107