IRF5.H12CORE.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF5.H12CORE.1.S.B
Gene (human)	IRF5 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Irf5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	11
Consensus	nhvCGAAAChn
GC content	49.52%
Information content (bits; total / per base)	11.203 / 1.018
Data sources	HT-SELEX
Aligned words	313

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)	0.719	0.759	0.562	0.609	0.645	0.672	1.55	1.734	45.851	69.509

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.99	0.985	0.963	0.953	0.868	0.862
Overall, 6 experiments	best	0.999	0.998	0.997	0.995	0.984	0.98
Methyl HT-SELEX, 2 experiments	median	0.99	0.985	0.963	0.953	0.868	0.862
Methyl HT-SELEX, 2 experiments	best	0.995	0.993	0.98	0.973	0.898	0.892
Non-Methyl HT-SELEX, 4 experiments	median	0.804	0.799	0.771	0.77	0.736	0.735
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.997	0.995	0.984	0.98

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.61	0.242	0.406	0.322

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.H12CORE.1.S.B.pcm
PWM	IRF5.H12CORE.1.S.B.pwm
PFM	IRF5.H12CORE.1.S.B.pfm
Alignment	IRF5.H12CORE.1.S.B.words.tsv
Threshold to P-value map	IRF5.H12CORE.1.S.B.thr
Motif in other formats
JASPAR format	IRF5.H12CORE.1.S.B_jaspar_format.txt
MEME format	IRF5.H12CORE.1.S.B_meme_format.meme
Transfac format	IRF5.H12CORE.1.S.B_transfac_format.txt
Homer format	IRF5.H12CORE.1.S.B_homer_format_0.001.txt IRF5.H12CORE.1.S.B_homer_format_0.0005.txt IRF5.H12CORE.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	97.5	96.5	65.5	53.5
02	165.5	59.5	32.5	55.5
03	64.0	157.0	65.0	27.0
04	0.0	256.0	53.0	4.0
05	0.0	0.0	313.0	0.0
06	313.0	0.0	0.0	0.0
07	312.0	0.0	0.0	1.0
08	311.0	1.0	0.0	1.0
09	1.0	262.0	50.0	0.0
10	48.5	96.5	44.5	123.5
11	85.0	82.0	71.0	75.0

PFM

	A	C	G	T
01	0.312	0.308	0.209	0.171
02	0.529	0.19	0.104	0.177
03	0.204	0.502	0.208	0.086
04	0.0	0.818	0.169	0.013
05	0.0	0.0	1.0	0.0
06	1.0	0.0	0.0	0.0
07	0.997	0.0	0.0	0.003
08	0.994	0.003	0.0	0.003
09	0.003	0.837	0.16	0.0
10	0.155	0.308	0.142	0.395
11	0.272	0.262	0.227	0.24

PWM

	A	C	G	T
01	0.216	0.206	-0.174	-0.372
02	0.74	-0.268	-0.854	-0.336
03	-0.197	0.687	-0.182	-1.03
04	-4.016	1.173	-0.381	-2.685
05	-4.016	-4.016	1.373	-4.016
06	1.373	-4.016	-4.016	-4.016
07	1.369	-4.016	-4.016	-3.488
08	1.366	-3.488	-4.016	-3.488
09	-3.488	1.196	-0.438	-4.016
10	-0.467	0.206	-0.551	0.45
11	0.081	0.046	-0.095	-0.042

Standard thresholds

P-value	Threshold
0.001	4.16742
0.0005	5.72779
0.0001	7.71103