FOXJ2.H12RSNP.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXJ2.H12RSNP.2.S.B
Gene (human)	FOXJ2 (GeneCards)
Gene synonyms (human)	FHX
Gene (mouse)	Foxj2
Gene synonyms (mouse)	Fhx
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	20
Consensus	nnndKKKTKdWTGTTTAYdb
GC content	29.35%
Information content (bits; total / per base)	15.356 / 0.768
Data sources	HT-SELEX
Aligned words	2297

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)	0.555	0.586	0.362	0.386	0.735	0.783	2.324	2.622	28.313	38.056

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.925	0.886	0.855	0.81	0.755	0.735
Overall, 6 experiments	best	0.955	0.943	0.91	0.866	0.873	0.827
Methyl HT-SELEX, 2 experiments	median	0.936	0.903	0.896	0.856	0.829	0.794
Methyl HT-SELEX, 2 experiments	best	0.937	0.907	0.91	0.866	0.873	0.827
Non-Methyl HT-SELEX, 4 experiments	median	0.909	0.867	0.804	0.789	0.676	0.687
Non-Methyl HT-SELEX, 4 experiments	best	0.955	0.943	0.879	0.83	0.806	0.768

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.629	0.363	0.507	0.361

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.H12RSNP.2.S.B.pcm
PWM	FOXJ2.H12RSNP.2.S.B.pwm
PFM	FOXJ2.H12RSNP.2.S.B.pfm
Alignment	FOXJ2.H12RSNP.2.S.B.words.tsv
Threshold to P-value map	FOXJ2.H12RSNP.2.S.B.thr
Motif in other formats
JASPAR format	FOXJ2.H12RSNP.2.S.B_jaspar_format.txt
MEME format	FOXJ2.H12RSNP.2.S.B_meme_format.meme
Transfac format	FOXJ2.H12RSNP.2.S.B_transfac_format.txt
Homer format	FOXJ2.H12RSNP.2.S.B_homer_format_0.001.txt FOXJ2.H12RSNP.2.S.B_homer_format_0.0005.txt FOXJ2.H12RSNP.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	393.5	718.5	536.5	648.5
02	371.0	596.0	554.0	776.0
03	434.0	536.0	622.0	705.0
04	441.0	216.0	363.0	1277.0
05	278.0	142.0	443.0	1434.0
06	159.0	77.0	734.0	1327.0
07	255.0	50.0	897.0	1095.0
08	63.0	105.0	59.0	2070.0
09	326.0	69.0	375.0	1527.0
10	685.0	142.0	404.0	1066.0
11	735.0	205.0	107.0	1250.0
12	3.0	76.0	19.0	2199.0
13	177.0	6.0	2110.0	4.0
14	9.0	8.0	8.0	2272.0
15	103.0	7.0	13.0	2174.0
16	102.0	5.0	171.0	2019.0
17	2073.0	35.0	73.0	116.0
18	16.0	1184.0	90.0	1007.0
19	535.0	295.0	581.0	886.0
20	369.25	374.25	477.25	1076.25

PFM

	A	C	G	T
01	0.171	0.313	0.234	0.282
02	0.162	0.259	0.241	0.338
03	0.189	0.233	0.271	0.307
04	0.192	0.094	0.158	0.556
05	0.121	0.062	0.193	0.624
06	0.069	0.034	0.32	0.578
07	0.111	0.022	0.391	0.477
08	0.027	0.046	0.026	0.901
09	0.142	0.03	0.163	0.665
10	0.298	0.062	0.176	0.464
11	0.32	0.089	0.047	0.544
12	0.001	0.033	0.008	0.957
13	0.077	0.003	0.919	0.002
14	0.004	0.003	0.003	0.989
15	0.045	0.003	0.006	0.946
16	0.044	0.002	0.074	0.879
17	0.902	0.015	0.032	0.051
18	0.007	0.515	0.039	0.438
19	0.233	0.128	0.253	0.386
20	0.161	0.163	0.208	0.469

PWM

	A	C	G	T
01	-0.376	0.223	-0.068	0.121
02	-0.435	0.037	-0.036	0.3
03	-0.279	-0.069	0.08	0.205
04	-0.263	-0.972	-0.457	0.797
05	-0.722	-1.387	-0.259	0.913
06	-1.275	-1.988	0.245	0.836
07	-0.808	-2.406	0.445	0.644
08	-2.183	-1.684	-2.247	1.28
09	-0.564	-2.095	-0.424	0.976
10	0.176	-1.387	-0.35	0.617
11	0.246	-1.024	-1.666	0.776
12	-4.76	-2.001	-3.315	1.34
13	-1.169	-4.285	1.299	-4.576
14	-3.964	-4.06	-4.06	1.373
15	-1.703	-4.166	-3.653	1.329
16	-1.713	-4.42	-1.204	1.255
17	1.281	-2.747	-2.04	-1.586
18	-3.47	0.722	-1.835	0.56
19	-0.071	-0.663	0.012	0.432
20	-0.44	-0.426	-0.184	0.627

Standard thresholds

P-value	Threshold
0.001	2.75311
0.0005	3.95471
0.0001	6.45471