FOXB1.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXB1.H12INVIVO.0.SM.D
Gene (human)	FOXB1 (GeneCards)
Gene synonyms (human)	FKH5
Gene (mouse)	Foxb1
Gene synonyms (mouse)	Fkh5, Foxb1a, Foxb1b, Mf3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	19
Consensus	nvYMAATATTTACdYWdnn
GC content	30.61%
Information content (bits; total / per base)	16.771 / 0.883
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7254

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.999	0.998	0.953	0.953	0.746	0.789
Overall, 3 experiments	best	0.999	0.999	0.987	0.984	0.923	0.92
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.987	0.984	0.923	0.92
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.987	0.984	0.923	0.92
Non-Methyl HT-SELEX, 2 experiments	median	0.9	0.901	0.8	0.809	0.659	0.692
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.953	0.953	0.746	0.789

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.926	0.504	0.885	0.634
batch 2	0.668	0.353	0.724	0.522

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	FOXB {3.3.1.2} (TFClass)
TFClass ID	TFClass: 3.3.1.2.1
HGNC	HGNC:3799
MGI	MGI:1927549
EntrezGene (human)	GeneID:27023 (SSTAR profile)
EntrezGene (mouse)	GeneID:64290 (SSTAR profile)
UniProt ID (human)	FOXB1_HUMAN
UniProt ID (mouse)	FOXB1_MOUSE
UniProt AC (human)	Q99853 (TFClass)
UniProt AC (mouse)	Q64732 (TFClass)
GRECO-DB-TF	yes

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

PCM	FOXB1.H12INVIVO.0.SM.D.pcm
PWM	FOXB1.H12INVIVO.0.SM.D.pwm
PFM	FOXB1.H12INVIVO.0.SM.D.pfm
Alignment	FOXB1.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	FOXB1.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	FOXB1.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	FOXB1.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	FOXB1.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	FOXB1.H12INVIVO.0.SM.D_homer_format_0.001.txt FOXB1.H12INVIVO.0.SM.D_homer_format_0.0005.txt FOXB1.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1570.0	1518.0	1281.0	2885.0
02	1408.5	1066.5	3772.5	1006.5
03	348.0	3046.0	385.0	3475.0
04	4131.0	2268.0	424.0	431.0
05	6078.0	447.0	275.0	454.0
06	6494.0	237.0	144.0	379.0
07	0.0	93.0	1.0	7160.0
08	6664.0	0.0	590.0	0.0
09	0.0	0.0	0.0	7254.0
10	1.0	1.0	12.0	7240.0
11	26.0	2.0	1415.0	5811.0
12	5069.0	3.0	2175.0	7.0
13	234.0	5843.0	164.0	1013.0
14	3376.0	590.0	968.0	2320.0
15	302.0	2324.0	331.0	4297.0
16	4692.0	73.0	329.0	2160.0
17	2860.0	739.0	2539.0	1116.0
18	1074.5	2368.5	2394.5	1416.5
19	1593.25	1980.25	2388.25	1292.25

PFM

	A	C	G	T
01	0.216	0.209	0.177	0.398
02	0.194	0.147	0.52	0.139
03	0.048	0.42	0.053	0.479
04	0.569	0.313	0.058	0.059
05	0.838	0.062	0.038	0.063
06	0.895	0.033	0.02	0.052
07	0.0	0.013	0.0	0.987
08	0.919	0.0	0.081	0.0
09	0.0	0.0	0.0	1.0
10	0.0	0.0	0.002	0.998
11	0.004	0.0	0.195	0.801
12	0.699	0.0	0.3	0.001
13	0.032	0.805	0.023	0.14
14	0.465	0.081	0.133	0.32
15	0.042	0.32	0.046	0.592
16	0.647	0.01	0.045	0.298
17	0.394	0.102	0.35	0.154
18	0.148	0.327	0.33	0.195
19	0.22	0.273	0.329	0.178

PWM

	A	C	G	T
01	-0.144	-0.178	-0.347	0.464
02	-0.252	-0.53	0.732	-0.588
03	-1.646	0.518	-1.545	0.65
04	0.823	0.223	-1.449	-1.433
05	1.209	-1.397	-1.879	-1.381
06	1.275	-2.027	-2.519	-1.561
07	-6.706	-2.948	-6.334	1.372
08	1.301	-6.706	-1.12	-6.706
09	-6.706	-6.706	-6.706	1.385
10	-6.334	-6.334	-4.849	1.383
11	-4.164	-6.064	-0.248	1.164
12	1.027	-5.851	0.182	-5.283
13	-2.039	1.169	-2.391	-0.581
14	0.621	-1.12	-0.627	0.246
15	-1.786	0.248	-1.695	0.862
16	0.95	-3.184	-1.701	0.175
17	0.455	-0.896	0.336	-0.485
18	-0.523	0.267	0.278	-0.247
19	-0.129	0.088	0.275	-0.338

Standard thresholds

P-value	Threshold
0.001	0.98501
0.0005	2.59121
0.0001	5.80371