IRF5.H12INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF5.H12INVIVO.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	nhvSGAAWSnn
GC content	49.21%
Information content (bits; total / per base)	7.923 / 0.72
Data sources	HT-SELEX
Aligned words	7010

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)	0.772	0.811	0.621	0.676	0.636	0.662	1.538	1.717	45.261	65.62

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.992	0.987	0.968	0.959	0.867	0.865
Overall, 6 experiments	best	0.999	0.998	0.997	0.995	0.984	0.98
Methyl HT-SELEX, 2 experiments	median	0.992	0.988	0.968	0.959	0.867	0.865
Methyl HT-SELEX, 2 experiments	best	0.996	0.995	0.983	0.977	0.899	0.896
Non-Methyl HT-SELEX, 4 experiments	median	0.8	0.797	0.77	0.769	0.732	0.733
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	0.627	0.237	0.373	0.284

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.1.S.B.pcm
PWM	IRF5.H12INVIVO.1.S.B.pwm
PFM	IRF5.H12INVIVO.1.S.B.pfm
Alignment	IRF5.H12INVIVO.1.S.B.words.tsv
Threshold to P-value map	IRF5.H12INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	IRF5.H12INVIVO.1.S.B_jaspar_format.txt
MEME format	IRF5.H12INVIVO.1.S.B_meme_format.meme
Transfac format	IRF5.H12INVIVO.1.S.B_transfac_format.txt
Homer format	IRF5.H12INVIVO.1.S.B_homer_format_0.001.txt IRF5.H12INVIVO.1.S.B_homer_format_0.0005.txt IRF5.H12INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2151.25	1721.25	1782.25	1355.25
02	3204.0	1395.0	1179.0	1232.0
03	1372.0	2502.0	2475.0	661.0
04	266.0	4534.0	1765.0	445.0
05	0.0	0.0	7010.0	0.0
06	7010.0	0.0	0.0	0.0
07	6513.0	0.0	53.0	444.0
08	5373.0	597.0	392.0	648.0
09	755.0	4181.0	1483.0	591.0
10	1274.0	2175.0	1297.0	2264.0
11	1978.0	1721.0	1683.0	1628.0

PFM

	A	C	G	T
01	0.307	0.246	0.254	0.193
02	0.457	0.199	0.168	0.176
03	0.196	0.357	0.353	0.094
04	0.038	0.647	0.252	0.063
05	0.0	0.0	1.0	0.0
06	1.0	0.0	0.0	0.0
07	0.929	0.0	0.008	0.063
08	0.766	0.085	0.056	0.092
09	0.108	0.596	0.212	0.084
10	0.182	0.31	0.185	0.323
11	0.282	0.246	0.24	0.232

PWM

	A	C	G	T
01	0.205	-0.018	0.017	-0.257
02	0.603	-0.228	-0.396	-0.352
03	-0.244	0.356	0.345	-0.973
04	-1.878	0.95	0.007	-1.367
05	-6.675	-6.675	1.385	-6.675
06	1.385	-6.675	-6.675	-6.675
07	1.312	-6.675	-3.459	-1.369
08	1.119	-1.074	-1.493	-0.993
09	-0.84	0.869	-0.167	-1.085
10	-0.318	0.216	-0.301	0.256
11	0.121	-0.018	-0.04	-0.074

Standard thresholds

P-value	Threshold
0.001	5.28581
0.0005	5.91744
0.0001	7.11361