FOXC2.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXC2.H12INVIVO.0.SM.D
Gene (human)	FOXC2 (GeneCards)
Gene synonyms (human)	FKHL14, MFH1
Gene (mouse)	Foxc2
Gene synonyms (mouse)	Fkh14, Fkhl14, Mfh1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	dndWTGTTTAYhYWnnn
GC content	26.6%
Information content (bits; total / per base)	14.959 / 0.88
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9237

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.961	0.939	0.944	0.912	0.837	0.834
Overall, 4 experiments	best	0.992	0.987	0.964	0.955	0.915	0.883
Methyl HT-SELEX, 1 experiments	median	0.957	0.928	0.938	0.904	0.889	0.854
Methyl HT-SELEX, 1 experiments	best	0.957	0.928	0.938	0.904	0.889	0.854
Non-Methyl HT-SELEX, 3 experiments	median	0.965	0.939	0.951	0.921	0.786	0.814
Non-Methyl HT-SELEX, 3 experiments	best	0.992	0.987	0.964	0.955	0.915	0.883

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.756	0.501	0.754	0.57

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	FOXC {3.3.1.3} (TFClass)
TFClass ID	TFClass: 3.3.1.3.2
HGNC	HGNC:3801
MGI	MGI:1347481
EntrezGene (human)	GeneID:2303 (SSTAR profile)
EntrezGene (mouse)	GeneID:14234 (SSTAR profile)
UniProt ID (human)	FOXC2_HUMAN
UniProt ID (mouse)	FOXC2_MOUSE
UniProt AC (human)	Q99958 (TFClass)
UniProt AC (mouse)	Q61850 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	FOXC2.H12INVIVO.0.SM.D.pcm
PWM	FOXC2.H12INVIVO.0.SM.D.pwm
PFM	FOXC2.H12INVIVO.0.SM.D.pfm
Alignment	FOXC2.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	FOXC2.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	FOXC2.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	FOXC2.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	FOXC2.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	FOXC2.H12INVIVO.0.SM.D_homer_format_0.001.txt FOXC2.H12INVIVO.0.SM.D_homer_format_0.0005.txt FOXC2.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1770.75	1265.75	1404.75	4795.75
02	2007.5	1721.5	3372.5	2135.5
03	3000.0	804.0	960.0	4473.0
04	1774.0	419.0	537.0	6507.0
05	16.0	28.0	13.0	9180.0
06	1462.0	3.0	7772.0	0.0
07	3.0	2.0	0.0	9232.0
08	2.0	0.0	0.0	9235.0
09	10.0	1.0	309.0	8917.0
10	8690.0	12.0	477.0	58.0
11	32.0	5421.0	83.0	3701.0
12	2728.0	962.0	960.0	4587.0
13	501.0	1033.0	482.0	7221.0
14	5006.0	247.0	518.0	3466.0
15	3304.0	1504.0	2060.0	2369.0
16	1457.25	2745.25	2270.25	2764.25
17	1854.75	2454.75	1934.75	2992.75

PFM

	A	C	G	T
01	0.192	0.137	0.152	0.519
02	0.217	0.186	0.365	0.231
03	0.325	0.087	0.104	0.484
04	0.192	0.045	0.058	0.704
05	0.002	0.003	0.001	0.994
06	0.158	0.0	0.841	0.0
07	0.0	0.0	0.0	0.999
08	0.0	0.0	0.0	1.0
09	0.001	0.0	0.033	0.965
10	0.941	0.001	0.052	0.006
11	0.003	0.587	0.009	0.401
12	0.295	0.104	0.104	0.497
13	0.054	0.112	0.052	0.782
14	0.542	0.027	0.056	0.375
15	0.358	0.163	0.223	0.256
16	0.158	0.297	0.246	0.299
17	0.201	0.266	0.209	0.324

PWM

	A	C	G	T
01	-0.265	-0.6	-0.496	0.73
02	-0.14	-0.293	0.378	-0.078
03	0.261	-1.053	-0.876	0.661
04	-0.263	-1.702	-1.455	1.035
05	-4.84	-4.335	-5.019	1.379
06	-0.457	-6.081	1.213	-6.92
07	-6.081	-6.291	-6.92	1.385
08	-6.291	-6.92	-6.92	1.385
09	-5.237	-6.557	-2.005	1.35
10	1.325	-5.087	-1.573	-3.647
11	-4.211	0.853	-3.3	0.471
12	0.166	-0.874	-0.876	0.686
13	-1.525	-0.803	-1.563	1.139
14	0.773	-2.227	-1.491	0.406
15	0.358	-0.428	-0.114	0.026
16	-0.46	0.173	-0.017	0.18
17	-0.219	0.061	-0.177	0.259

Standard thresholds

P-value	Threshold
0.001	1.73891
0.0005	3.30456
0.0001	6.49591