IRF5.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRF5.H12INVITRO.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	48.64%
Information content (bits; total / per base)	11.51 / 1.046
Data sources	HT-SELEX
Aligned words	1160

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)	0.733	0.769	0.562	0.609	0.64	0.667	1.565	1.726	42.952	65.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.991	0.986	0.964	0.955	0.87	0.864
Overall, 6 experiments	best	0.998	0.998	0.996	0.995	0.984	0.98
Methyl HT-SELEX, 2 experiments	median	0.991	0.986	0.964	0.955	0.87	0.864
Methyl HT-SELEX, 2 experiments	best	0.995	0.993	0.981	0.974	0.9	0.894
Non-Methyl HT-SELEX, 4 experiments	median	0.801	0.798	0.769	0.769	0.735	0.735
Non-Methyl HT-SELEX, 4 experiments	best	0.998	0.998	0.996	0.995	0.984	0.98

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.611	0.218	0.399	0.32

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.H12INVITRO.1.S.B.pcm
PWM	IRF5.H12INVITRO.1.S.B.pwm
PFM	IRF5.H12INVITRO.1.S.B.pfm
Alignment	IRF5.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	IRF5.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	IRF5.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	IRF5.H12INVITRO.1.S.B_meme_format.meme
Transfac format	IRF5.H12INVITRO.1.S.B_transfac_format.txt
Homer format	IRF5.H12INVITRO.1.S.B_homer_format_0.001.txt IRF5.H12INVITRO.1.S.B_homer_format_0.0005.txt IRF5.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	393.25	303.25	253.25	210.25
02	619.25	254.25	107.25	179.25
03	284.0	540.0	246.0	90.0
04	1.0	998.0	156.0	5.0
05	0.0	0.0	1160.0	0.0
06	1160.0	0.0	0.0	0.0
07	1151.0	0.0	1.0	8.0
08	1159.0	0.0	0.0	1.0
09	16.0	1016.0	120.0	8.0
10	146.5	379.5	109.5	524.5
11	363.0	310.0	252.0	235.0

PFM

	A	C	G	T
01	0.339	0.261	0.218	0.181
02	0.534	0.219	0.092	0.155
03	0.245	0.466	0.212	0.078
04	0.001	0.86	0.134	0.004
05	0.0	0.0	1.0	0.0
06	1.0	0.0	0.0	0.0
07	0.992	0.0	0.001	0.007
08	0.999	0.0	0.0	0.001
09	0.014	0.876	0.103	0.007
10	0.126	0.327	0.094	0.452
11	0.313	0.267	0.217	0.203

PWM

	A	C	G	T
01	0.303	0.044	-0.135	-0.319
02	0.755	-0.131	-0.984	-0.477
03	-0.021	0.619	-0.163	-1.157
04	-4.659	1.232	-0.615	-3.764
05	-5.108	-5.108	1.382	-5.108
06	1.382	-5.108	-5.108	-5.108
07	1.374	-5.108	-4.659	-3.397
08	1.381	-5.108	-5.108	-4.659
09	-2.799	1.249	-0.874	-3.397
10	-0.677	0.268	-0.964	0.59
11	0.223	0.066	-0.14	-0.209

Standard thresholds

P-value	Threshold
0.001	3.80484
0.0005	5.38729
0.0001	7.7648