FOXJ2.H12CORE.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXJ2.H12CORE.1.SM.B
Gene (human)	FOXJ2 (GeneCards)
Gene synonyms (human)	FHX
Gene (mouse)	Foxj2
Gene synonyms (mouse)	Fhx
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	ndhTRTTTACAACAWhn
GC content	28.43%
Information content (bits; total / per base)	19.549 / 1.15
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2483

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)	0.585	0.59	0.405	0.421	0.617	0.65	1.531	1.661	15.033	21.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.966	0.954	0.903	0.883	0.798	0.787
Overall, 6 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Methyl HT-SELEX, 2 experiments	median	0.993	0.991	0.969	0.962	0.916	0.912
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Non-Methyl HT-SELEX, 4 experiments	median	0.919	0.891	0.831	0.802	0.714	0.709
Non-Methyl HT-SELEX, 4 experiments	best	1.0	1.0	1.0	1.0	0.947	0.951

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.724	0.479	0.745	0.537

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.1.SM.B.pcm
PWM	FOXJ2.H12CORE.1.SM.B.pwm
PFM	FOXJ2.H12CORE.1.SM.B.pfm
Alignment	FOXJ2.H12CORE.1.SM.B.words.tsv
Threshold to P-value map	FOXJ2.H12CORE.1.SM.B.thr
Motif in other formats
JASPAR format	FOXJ2.H12CORE.1.SM.B_jaspar_format.txt
MEME format	FOXJ2.H12CORE.1.SM.B_meme_format.meme
Transfac format	FOXJ2.H12CORE.1.SM.B_transfac_format.txt
Homer format	FOXJ2.H12CORE.1.SM.B_homer_format_0.001.txt FOXJ2.H12CORE.1.SM.B_homer_format_0.0005.txt FOXJ2.H12CORE.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	431.5	699.5	641.5	710.5
02	778.0	277.0	581.0	847.0
03	536.0	500.0	251.0	1196.0
04	26.0	155.0	14.0	2288.0
05	842.0	28.0	1608.0	5.0
06	15.0	14.0	8.0	2446.0
07	34.0	8.0	7.0	2434.0
08	38.0	1.0	44.0	2400.0
09	2482.0	0.0	0.0	1.0
10	0.0	2482.0	0.0	1.0
11	2474.0	2.0	1.0	6.0
12	2458.0	3.0	7.0	15.0
13	41.0	1953.0	5.0	484.0
14	2299.0	35.0	126.0	23.0
15	1601.0	191.0	309.0	382.0
16	899.0	526.0	225.0	833.0
17	784.25	661.25	639.25	398.25

PFM

	A	C	G	T
01	0.174	0.282	0.258	0.286
02	0.313	0.112	0.234	0.341
03	0.216	0.201	0.101	0.482
04	0.01	0.062	0.006	0.921
05	0.339	0.011	0.648	0.002
06	0.006	0.006	0.003	0.985
07	0.014	0.003	0.003	0.98
08	0.015	0.0	0.018	0.967
09	1.0	0.0	0.0	0.0
10	0.0	1.0	0.0	0.0
11	0.996	0.001	0.0	0.002
12	0.99	0.001	0.003	0.006
13	0.017	0.787	0.002	0.195
14	0.926	0.014	0.051	0.009
15	0.645	0.077	0.124	0.154
16	0.362	0.212	0.091	0.335
17	0.316	0.266	0.257	0.16

PWM

	A	C	G	T
01	-0.362	0.119	0.033	0.135
02	0.225	-0.803	-0.066	0.31
03	-0.146	-0.216	-0.901	0.654
04	-3.104	-1.378	-3.664	1.302
05	0.304	-3.034	0.95	-4.495
06	-3.604	-3.664	-4.136	1.369
07	-2.852	-4.136	-4.242	1.364
08	-2.746	-5.351	-2.606	1.35
09	1.384	-5.764	-5.764	-5.351
10	-5.764	1.384	-5.764	-5.351
11	1.38	-5.059	-5.351	-4.36
12	1.374	-4.834	-4.242	-3.604
13	-2.674	1.144	-4.495	-0.248
14	1.307	-2.824	-1.582	-3.217
15	0.946	-1.172	-0.694	-0.484
16	0.369	-0.165	-1.009	0.293
17	0.233	0.063	0.029	-0.442

Standard thresholds

P-value	Threshold
0.001	-1.45464
0.0005	0.25611
0.0001	3.86651