FOXJ2.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXJ2.H12INVITRO.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	11
Consensus	nhTGTTTACdn
GC content	31.1%
Information content (bits; total / per base)	12.223 / 1.111
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	8953

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)	0.702	0.718	0.556	0.58	0.741	0.768	2.262	2.363	86.573	99.444

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.984	0.974	0.957	0.939	0.871	0.859
Overall, 6 experiments	best	0.998	0.996	0.992	0.989	0.984	0.978
Methyl HT-SELEX, 2 experiments	median	0.99	0.983	0.98	0.97	0.941	0.931
Methyl HT-SELEX, 2 experiments	best	0.998	0.996	0.992	0.989	0.984	0.978
Non-Methyl HT-SELEX, 4 experiments	median	0.982	0.971	0.93	0.917	0.78	0.794
Non-Methyl HT-SELEX, 4 experiments	best	0.996	0.994	0.987	0.982	0.931	0.926

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.647	0.421	0.594	0.478

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.H12INVITRO.0.PSM.A.pcm
PWM	FOXJ2.H12INVITRO.0.PSM.A.pwm
PFM	FOXJ2.H12INVITRO.0.PSM.A.pfm
Alignment	FOXJ2.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	FOXJ2.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXJ2.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	FOXJ2.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	FOXJ2.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	FOXJ2.H12INVITRO.0.PSM.A_homer_format_0.001.txt FOXJ2.H12INVITRO.0.PSM.A_homer_format_0.0005.txt FOXJ2.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2460.75	1428.75	2312.75	2750.75
02	2399.5	1523.5	850.5	4179.5
03	9.0	857.0	13.0	8074.0
04	854.0	4.0	8095.0	0.0
05	0.0	2.0	0.0	8951.0
06	1.0	0.0	3.0	8949.0
07	0.0	0.0	865.0	8088.0
08	8856.0	3.0	92.0	2.0
09	0.0	7342.0	59.0	1552.0
10	3695.75	1226.75	2575.75	1454.75
11	2980.0	1815.0	1562.0	2596.0

PFM

	A	C	G	T
01	0.275	0.16	0.258	0.307
02	0.268	0.17	0.095	0.467
03	0.001	0.096	0.001	0.902
04	0.095	0.0	0.904	0.0
05	0.0	0.0	0.0	1.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	0.097	0.903
08	0.989	0.0	0.01	0.0
09	0.0	0.82	0.007	0.173
10	0.413	0.137	0.288	0.162
11	0.333	0.203	0.174	0.29

PWM

	A	C	G	T
01	0.095	-0.448	0.033	0.206
02	0.069	-0.384	-0.966	0.624
03	-5.292	-0.958	-4.988	1.282
04	-0.962	-5.878	1.285	-6.893
05	-6.893	-6.262	-6.893	1.385
06	-6.528	-6.893	-6.051	1.385
07	-6.893	-6.893	-0.949	1.284
08	1.375	-6.051	-3.168	-6.262
09	-6.893	1.187	-3.599	-0.366
10	0.501	-0.6	0.14	-0.43
11	0.286	-0.209	-0.359	0.148

Standard thresholds

P-value	Threshold
0.001	2.928185
0.0005	4.794075
0.0001	7.591405