FOXJ2.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXJ2.H12CORE.0.PSM.A
Gene (human)	FOXJ2 (GeneCards)
Gene synonyms (human)	FHX
Gene (mouse)	Foxj2
Gene synonyms (mouse)	Fhx
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	nbbdhTGTTTACnn
GC content	34.84%
Information content (bits; total / per base)	12.216 / 0.873
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	2493

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
Human	1 (6)	0.715	0.732	0.558	0.58	0.766	0.79	2.308	2.454	98.459	113.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.982	0.971	0.95	0.927	0.862	0.847
Overall, 6 experiments	best	0.993	0.988	0.986	0.979	0.975	0.963
Methyl HT-SELEX, 2 experiments	median	0.986	0.976	0.974	0.96	0.933	0.919
Methyl HT-SELEX, 2 experiments	best	0.993	0.988	0.986	0.979	0.975	0.963
Non-Methyl HT-SELEX, 4 experiments	median	0.978	0.965	0.919	0.905	0.769	0.782
Non-Methyl HT-SELEX, 4 experiments	best	0.991	0.984	0.978	0.968	0.914	0.905

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.664	0.42	0.604	0.486

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Fork head/winged helix factors {3.3} (TFClass)
TF family	FOX {3.3.1} (TFClass)
TF subfamily	FOXJ {3.3.1.10} (TFClass)
TFClass ID	TFClass: 3.3.1.10.2
HGNC	HGNC:24818
MGI	MGI:1926805
EntrezGene (human)	GeneID:55810 (SSTAR profile)
EntrezGene (mouse)	GeneID:60611 (SSTAR profile)
UniProt ID (human)	FOXJ2_HUMAN
UniProt ID (mouse)	FOXJ2_MOUSE
UniProt AC (human)	Q9P0K8 (TFClass)
UniProt AC (mouse)	Q9ES18 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	FOXJ2.H12CORE.0.PSM.A.pcm
PWM	FOXJ2.H12CORE.0.PSM.A.pwm
PFM	FOXJ2.H12CORE.0.PSM.A.pfm
Alignment	FOXJ2.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	FOXJ2.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXJ2.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	FOXJ2.H12CORE.0.PSM.A_meme_format.meme
Transfac format	FOXJ2.H12CORE.0.PSM.A_transfac_format.txt
Homer format	FOXJ2.H12CORE.0.PSM.A_homer_format_0.001.txt FOXJ2.H12CORE.0.PSM.A_homer_format_0.0005.txt FOXJ2.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	575.5	514.5	762.5	640.5
02	377.5	491.5	493.5	1130.5
03	304.0	702.0	571.0	916.0
04	616.0	270.0	884.0	723.0
05	591.0	388.0	136.0	1378.0
06	0.0	193.0	0.0	2300.0
07	164.0	3.0	2326.0	0.0
08	0.0	1.0	1.0	2491.0
09	3.0	2.0	0.0	2488.0
10	2.0	0.0	399.0	2092.0
11	2388.0	3.0	41.0	61.0
12	7.0	1854.0	29.0	603.0
13	917.25	373.25	710.25	492.25
14	752.75	492.75	519.75	727.75

PFM

	A	C	G	T
01	0.231	0.206	0.306	0.257
02	0.151	0.197	0.198	0.453
03	0.122	0.282	0.229	0.367
04	0.247	0.108	0.355	0.29
05	0.237	0.156	0.055	0.553
06	0.0	0.077	0.0	0.923
07	0.066	0.001	0.933	0.0
08	0.0	0.0	0.0	0.999
09	0.001	0.001	0.0	0.998
10	0.001	0.0	0.16	0.839
11	0.958	0.001	0.016	0.024
12	0.003	0.744	0.012	0.242
13	0.368	0.15	0.285	0.197
14	0.302	0.198	0.208	0.292

PWM

	A	C	G	T
01	-0.079	-0.191	0.201	0.027
02	-0.499	-0.237	-0.233	0.594
03	-0.715	0.119	-0.087	0.384
04	-0.012	-0.832	0.349	0.148
05	-0.053	-0.472	-1.511	0.792
06	-5.768	-1.165	-5.768	1.303
07	-1.326	-4.838	1.315	-5.768
08	-5.768	-5.354	-5.354	1.383
09	-4.838	-5.063	-5.768	1.382
10	-5.063	-5.768	-0.444	1.209
11	1.341	-4.838	-2.678	-2.296
12	-4.246	1.088	-3.006	-0.033
13	0.385	-0.511	0.13	-0.235
14	0.188	-0.234	-0.181	0.155

Standard thresholds

P-value	Threshold
0.001	3.53571
0.0005	4.92976
0.0001	7.52896